SRX13852573 IL100225402_A00904_20220106_L1_experiment <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11729395"> <IDENTIFIERS> <PRIMARY_ID>SRS11729395</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960426</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225402</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="422" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>103</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>65</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225395_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13852574"> <IDENTIFIERS> <PRIMARY_ID>SRX13852574</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225395_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11729396"> <IDENTIFIERS> <PRIMARY_ID>SRS11729396</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960427</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225395</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="352" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>76</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>39</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225418_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13852575"> <IDENTIFIERS> <PRIMARY_ID>SRX13852575</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225418_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11729397"> <IDENTIFIERS> <PRIMARY_ID>SRS11729397</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960428</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225418</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="313" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>104</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>56</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225448_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13852576"> <IDENTIFIERS> <PRIMARY_ID>SRX13852576</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225448_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11729398"> <IDENTIFIERS> <PRIMARY_ID>SRS11729398</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960429</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225448</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="320" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>153</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>78</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225419_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13852577"> <IDENTIFIERS> <PRIMARY_ID>SRX13852577</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225419_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11729399"> <IDENTIFIERS> <PRIMARY_ID>SRS11729399</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960430</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225419</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="397" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>120</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>61</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225437_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13852578"> <IDENTIFIERS> <PRIMARY_ID>SRX13852578</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225437_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11729400"> <IDENTIFIERS> <PRIMARY_ID>SRS11729400</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960431</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225437</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="325" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225396_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13852579"> <IDENTIFIERS> <PRIMARY_ID>SRX13852579</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225396_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11729401"> <IDENTIFIERS> <PRIMARY_ID>SRS11729401</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960432</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225396</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="348" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>38</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>8</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225015_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13852580"> <IDENTIFIERS> <PRIMARY_ID>SRX13852580</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225015_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11729402"> <IDENTIFIERS> <PRIMARY_ID>SRS11729402</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960433</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225015</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="302" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>64</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>47</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225439_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13852581"> <IDENTIFIERS> <PRIMARY_ID>SRX13852581</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225439_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11729404"> <IDENTIFIERS> <PRIMARY_ID>SRS11729404</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960434</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225439</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="317" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>147</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>64</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225412_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13852582"> <IDENTIFIERS> <PRIMARY_ID>SRX13852582</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225412_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11729403"> <IDENTIFIERS> <PRIMARY_ID>SRS11729403</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960435</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225412</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="356" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225420_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13852583"> <IDENTIFIERS> <PRIMARY_ID>SRX13852583</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225420_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11729405"> <IDENTIFIERS> <PRIMARY_ID>SRS11729405</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960436</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225420</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="375" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224969_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13852584"> <IDENTIFIERS> <PRIMARY_ID>SRX13852584</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224969_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11729406"> <IDENTIFIERS> <PRIMARY_ID>SRS11729406</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960437</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224969</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="391" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>150</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>79</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224978_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13852585"> <IDENTIFIERS> <PRIMARY_ID>SRX13852585</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224978_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11729407"> <IDENTIFIERS> <PRIMARY_ID>SRS11729407</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960438</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224978</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="407" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225411_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13852586"> <IDENTIFIERS> <PRIMARY_ID>SRX13852586</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225411_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11729408"> <IDENTIFIERS> <PRIMARY_ID>SRS11729408</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960439</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225411</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="280" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225444_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13852587"> <IDENTIFIERS> <PRIMARY_ID>SRX13852587</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225444_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11729409"> <IDENTIFIERS> <PRIMARY_ID>SRS11729409</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960440</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225444</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="316" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>100</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>51</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228643_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13852588"> <IDENTIFIERS> <PRIMARY_ID>SRX13852588</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228643_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11729410"> <IDENTIFIERS> <PRIMARY_ID>SRS11729410</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960441</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228643</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="355" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>41</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>35</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224744_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13852589"> <IDENTIFIERS> <PRIMARY_ID>SRX13852589</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224744_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11729411"> <IDENTIFIERS> <PRIMARY_ID>SRS11729411</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960442</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224744</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="349" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>93</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>47</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224750_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13852590"> <IDENTIFIERS> <PRIMARY_ID>SRX13852590</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224750_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11729412"> <IDENTIFIERS> <PRIMARY_ID>SRS11729412</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960443</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224750</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="363" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>194</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224710_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13852591"> <IDENTIFIERS> <PRIMARY_ID>SRX13852591</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224710_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11729413"> <IDENTIFIERS> <PRIMARY_ID>SRS11729413</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960444</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224710</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="349" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228582_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13852592"> <IDENTIFIERS> <PRIMARY_ID>SRX13852592</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228582_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11729414"> <IDENTIFIERS> <PRIMARY_ID>SRS11729414</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960445</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228582</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="260" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>42</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>11</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225409_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13852593"> <IDENTIFIERS> <PRIMARY_ID>SRX13852593</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225409_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11729415"> <IDENTIFIERS> <PRIMARY_ID>SRS11729415</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960425</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225409</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="347" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224708_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854135"> <IDENTIFIERS> <PRIMARY_ID>SRX13854135</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224708_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730660"> <IDENTIFIERS> <PRIMARY_ID>SRS11730660</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960447</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224708</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="324" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>69</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>24</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224728_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854136"> <IDENTIFIERS> <PRIMARY_ID>SRX13854136</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224728_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730661"> <IDENTIFIERS> <PRIMARY_ID>SRS11730661</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960448</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224728</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="370" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>96</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>49</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228622_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854137"> <IDENTIFIERS> <PRIMARY_ID>SRX13854137</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228622_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730662"> <IDENTIFIERS> <PRIMARY_ID>SRS11730662</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960449</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228622</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="324" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>186</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224721_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854138"> <IDENTIFIERS> <PRIMARY_ID>SRX13854138</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224721_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730663"> <IDENTIFIERS> <PRIMARY_ID>SRS11730663</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960450</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224721</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="340" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224726_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854139"> <IDENTIFIERS> <PRIMARY_ID>SRX13854139</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224726_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730664"> <IDENTIFIERS> <PRIMARY_ID>SRS11730664</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960451</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224726</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="323" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>91</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>46</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228567_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854140"> <IDENTIFIERS> <PRIMARY_ID>SRX13854140</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228567_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730665"> <IDENTIFIERS> <PRIMARY_ID>SRS11730665</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960452</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228567</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="337" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>96</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>60</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224752_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854141"> <IDENTIFIERS> <PRIMARY_ID>SRX13854141</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224752_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730666"> <IDENTIFIERS> <PRIMARY_ID>SRS11730666</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960453</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224752</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="360" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224763_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854142"> <IDENTIFIERS> <PRIMARY_ID>SRX13854142</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224763_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730668"> <IDENTIFIERS> <PRIMARY_ID>SRS11730668</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960454</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224763</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="358" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>112</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>57</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224761_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854143"> <IDENTIFIERS> <PRIMARY_ID>SRX13854143</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224761_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730667"> <IDENTIFIERS> <PRIMARY_ID>SRS11730667</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960455</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224761</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="334" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>75</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>38</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224762_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854150"> <IDENTIFIERS> <PRIMARY_ID>SRX13854150</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224762_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730676"> <IDENTIFIERS> <PRIMARY_ID>SRS11730676</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960456</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224762</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="390" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>123</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>58</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228620_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854153"> <IDENTIFIERS> <PRIMARY_ID>SRX13854153</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228620_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730677"> <IDENTIFIERS> <PRIMARY_ID>SRS11730677</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960457</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228620</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="295" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>40</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>10</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224745_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854154"> <IDENTIFIERS> <PRIMARY_ID>SRX13854154</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224745_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730679"> <IDENTIFIERS> <PRIMARY_ID>SRS11730679</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960458</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224745</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="352" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>146</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>74</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224725_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854155"> <IDENTIFIERS> <PRIMARY_ID>SRX13854155</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224725_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730680"> <IDENTIFIERS> <PRIMARY_ID>SRS11730680</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960459</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224725</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="315" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>102</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>52</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228628_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854156"> <IDENTIFIERS> <PRIMARY_ID>SRX13854156</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228628_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730681"> <IDENTIFIERS> <PRIMARY_ID>SRS11730681</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960460</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228628</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="344" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224748_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854157"> <IDENTIFIERS> <PRIMARY_ID>SRX13854157</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224748_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730682"> <IDENTIFIERS> <PRIMARY_ID>SRS11730682</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960461</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224748</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="404" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>124</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>63</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224753_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854158"> <IDENTIFIERS> <PRIMARY_ID>SRX13854158</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224753_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730684"> <IDENTIFIERS> <PRIMARY_ID>SRS11730684</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960462</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224753</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="297" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>193</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>93</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224722_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854159"> <IDENTIFIERS> <PRIMARY_ID>SRX13854159</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224722_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730683"> <IDENTIFIERS> <PRIMARY_ID>SRS11730683</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960463</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224722</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="347" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224760_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854160"> <IDENTIFIERS> <PRIMARY_ID>SRX13854160</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224760_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730685"> <IDENTIFIERS> <PRIMARY_ID>SRS11730685</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960464</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224760</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="309" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224747_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854161"> <IDENTIFIERS> <PRIMARY_ID>SRX13854161</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224747_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730686"> <IDENTIFIERS> <PRIMARY_ID>SRS11730686</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960465</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224747</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="295" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>84</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>43</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224751_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854162"> <IDENTIFIERS> <PRIMARY_ID>SRX13854162</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224751_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730687"> <IDENTIFIERS> <PRIMARY_ID>SRS11730687</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960466</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224751</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="349" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>196</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>96</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228599_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854163"> <IDENTIFIERS> <PRIMARY_ID>SRX13854163</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228599_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730688"> <IDENTIFIERS> <PRIMARY_ID>SRS11730688</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960467</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228599</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="370" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>185</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>101</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228598_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854164"> <IDENTIFIERS> <PRIMARY_ID>SRX13854164</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228598_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730689"> <IDENTIFIERS> <PRIMARY_ID>SRS11730689</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960468</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228598</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="349" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>76</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>39</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224712_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854165"> <IDENTIFIERS> <PRIMARY_ID>SRX13854165</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224712_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730690"> <IDENTIFIERS> <PRIMARY_ID>SRS11730690</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960469</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224712</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="380" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224711_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854166"> <IDENTIFIERS> <PRIMARY_ID>SRX13854166</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224711_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730691"> <IDENTIFIERS> <PRIMARY_ID>SRS11730691</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960470</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224711</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="342" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>62</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>32</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224709_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854167"> <IDENTIFIERS> <PRIMARY_ID>SRX13854167</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224709_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730692"> <IDENTIFIERS> <PRIMARY_ID>SRS11730692</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960471</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224709</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="380" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>66</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>34</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228566_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854172"> <IDENTIFIERS> <PRIMARY_ID>SRX13854172</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228566_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730697"> <IDENTIFIERS> <PRIMARY_ID>SRS11730697</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960472</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228566</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="328" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>182</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>82</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228615_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854173"> <IDENTIFIERS> <PRIMARY_ID>SRX13854173</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228615_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730698"> <IDENTIFIERS> <PRIMARY_ID>SRS11730698</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960473</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228615</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="396" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>170</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>86</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228575_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854174"> <IDENTIFIERS> <PRIMARY_ID>SRX13854174</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228575_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730699"> <IDENTIFIERS> <PRIMARY_ID>SRS11730699</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960474</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228575</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="346" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>179</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>79</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228613_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854175"> <IDENTIFIERS> <PRIMARY_ID>SRX13854175</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228613_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730700"> <IDENTIFIERS> <PRIMARY_ID>SRS11730700</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960475</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228613</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="386" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228626_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854176"> <IDENTIFIERS> <PRIMARY_ID>SRX13854176</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228626_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730701"> <IDENTIFIERS> <PRIMARY_ID>SRS11730701</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960476</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228626</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="312" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>32</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>17</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228623_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854177"> <IDENTIFIERS> <PRIMARY_ID>SRX13854177</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228623_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730702"> <IDENTIFIERS> <PRIMARY_ID>SRS11730702</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960477</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228623</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="367" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>171</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>86</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228563_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854178"> <IDENTIFIERS> <PRIMARY_ID>SRX13854178</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228563_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730703"> <IDENTIFIERS> <PRIMARY_ID>SRS11730703</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960478</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228563</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="362" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228636_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854179"> <IDENTIFIERS> <PRIMARY_ID>SRX13854179</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228636_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730704"> <IDENTIFIERS> <PRIMARY_ID>SRS11730704</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960479</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228636</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="381" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>57</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>41</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228565_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854180"> <IDENTIFIERS> <PRIMARY_ID>SRX13854180</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228565_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730705"> <IDENTIFIERS> <PRIMARY_ID>SRS11730705</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960480</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228565</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="385" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>110</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>67</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228609_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854181"> <IDENTIFIERS> <PRIMARY_ID>SRX13854181</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228609_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730706"> <IDENTIFIERS> <PRIMARY_ID>SRS11730706</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960481</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228609</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="373" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228614_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854182"> <IDENTIFIERS> <PRIMARY_ID>SRX13854182</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228614_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730707"> <IDENTIFIERS> <PRIMARY_ID>SRS11730707</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960482</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228614</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="333" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>156</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>56</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228541_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854183"> <IDENTIFIERS> <PRIMARY_ID>SRX13854183</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228541_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730708"> <IDENTIFIERS> <PRIMARY_ID>SRS11730708</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960483</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228541</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="344" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>90</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>46</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228651_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854184"> <IDENTIFIERS> <PRIMARY_ID>SRX13854184</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228651_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730709"> <IDENTIFIERS> <PRIMARY_ID>SRS11730709</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960484</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228651</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="358" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228578_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854185"> <IDENTIFIERS> <PRIMARY_ID>SRX13854185</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228578_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730710"> <IDENTIFIERS> <PRIMARY_ID>SRS11730710</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960485</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228578</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="335" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228283_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854186"> <IDENTIFIERS> <PRIMARY_ID>SRX13854186</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228283_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730711"> <IDENTIFIERS> <PRIMARY_ID>SRS11730711</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960486</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228283</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="372" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>57</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>26</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228276_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854187"> <IDENTIFIERS> <PRIMARY_ID>SRX13854187</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228276_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730712"> <IDENTIFIERS> <PRIMARY_ID>SRS11730712</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960487</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228276</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="333" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>68</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>35</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228325_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854188"> <IDENTIFIERS> <PRIMARY_ID>SRX13854188</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228325_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730713"> <IDENTIFIERS> <PRIMARY_ID>SRS11730713</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960488</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228325</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="363" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228274_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854189"> <IDENTIFIERS> <PRIMARY_ID>SRX13854189</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228274_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730714"> <IDENTIFIERS> <PRIMARY_ID>SRS11730714</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960489</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228274</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="357" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>150</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>76</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228336_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854190"> <IDENTIFIERS> <PRIMARY_ID>SRX13854190</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228336_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730715"> <IDENTIFIERS> <PRIMARY_ID>SRS11730715</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960490</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228336</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="353" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>155</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>86</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228347_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854191"> <IDENTIFIERS> <PRIMARY_ID>SRX13854191</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228347_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730716"> <IDENTIFIERS> <PRIMARY_ID>SRS11730716</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960491</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228347</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="370" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228270_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854192"> <IDENTIFIERS> <PRIMARY_ID>SRX13854192</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228270_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730717"> <IDENTIFIERS> <PRIMARY_ID>SRS11730717</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960492</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228270</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="313" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228301_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854193"> <IDENTIFIERS> <PRIMARY_ID>SRX13854193</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228301_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730718"> <IDENTIFIERS> <PRIMARY_ID>SRS11730718</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960493</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228301</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="298" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>84</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>40</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228303_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854194"> <IDENTIFIERS> <PRIMARY_ID>SRX13854194</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228303_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730719"> <IDENTIFIERS> <PRIMARY_ID>SRS11730719</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960494</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228303</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="335" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>58</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>27</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228348_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854195"> <IDENTIFIERS> <PRIMARY_ID>SRX13854195</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228348_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730720"> <IDENTIFIERS> <PRIMARY_ID>SRS11730720</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960495</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228348</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="355" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>172</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>87</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228318_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854196"> <IDENTIFIERS> <PRIMARY_ID>SRX13854196</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228318_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730721"> <IDENTIFIERS> <PRIMARY_ID>SRS11730721</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960496</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228318</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="366" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>118</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>60</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228349_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854197"> <IDENTIFIERS> <PRIMARY_ID>SRX13854197</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228349_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730722"> <IDENTIFIERS> <PRIMARY_ID>SRS11730722</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960497</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228349</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="343" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>96</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>49</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228304_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854198"> <IDENTIFIERS> <PRIMARY_ID>SRX13854198</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228304_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730723"> <IDENTIFIERS> <PRIMARY_ID>SRS11730723</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960498</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228304</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="380" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>104</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>53</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228272_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854199"> <IDENTIFIERS> <PRIMARY_ID>SRX13854199</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228272_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730724"> <IDENTIFIERS> <PRIMARY_ID>SRS11730724</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960499</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228272</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="369" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>30</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>19</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228263_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854201"> <IDENTIFIERS> <PRIMARY_ID>SRX13854201</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228263_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730726"> <IDENTIFIERS> <PRIMARY_ID>SRS11730726</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960500</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228263</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="366" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>138</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>70</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228279_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854202"> <IDENTIFIERS> <PRIMARY_ID>SRX13854202</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228279_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730727"> <IDENTIFIERS> <PRIMARY_ID>SRS11730727</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960501</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228279</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="325" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228305_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854203"> <IDENTIFIERS> <PRIMARY_ID>SRX13854203</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228305_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730728"> <IDENTIFIERS> <PRIMARY_ID>SRS11730728</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960502</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228305</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="384" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>168</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>85</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228314_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854204"> <IDENTIFIERS> <PRIMARY_ID>SRX13854204</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228314_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730729"> <IDENTIFIERS> <PRIMARY_ID>SRS11730729</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960503</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228314</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="364" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228320_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854205"> <IDENTIFIERS> <PRIMARY_ID>SRX13854205</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228320_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730730"> <IDENTIFIERS> <PRIMARY_ID>SRS11730730</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960504</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228320</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="394" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>132</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>72</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228315_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854206"> <IDENTIFIERS> <PRIMARY_ID>SRX13854206</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228315_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730731"> <IDENTIFIERS> <PRIMARY_ID>SRS11730731</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960505</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228315</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="351" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>196</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>96</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228328_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854207"> <IDENTIFIERS> <PRIMARY_ID>SRX13854207</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228328_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730732"> <IDENTIFIERS> <PRIMARY_ID>SRS11730732</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960506</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228328</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="386" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>45</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>25</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228281_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854208"> <IDENTIFIERS> <PRIMARY_ID>SRX13854208</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228281_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730733"> <IDENTIFIERS> <PRIMARY_ID>SRS11730733</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960507</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228281</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="350" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>186</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>86</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228302_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854209"> <IDENTIFIERS> <PRIMARY_ID>SRX13854209</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228302_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730734"> <IDENTIFIERS> <PRIMARY_ID>SRS11730734</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960508</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228302</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="370" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>66</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>34</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228269_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854210"> <IDENTIFIERS> <PRIMARY_ID>SRX13854210</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228269_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730735"> <IDENTIFIERS> <PRIMARY_ID>SRS11730735</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960509</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228269</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="371" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>35</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>32</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228319_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854211"> <IDENTIFIERS> <PRIMARY_ID>SRX13854211</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228319_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11730736"> <IDENTIFIERS> <PRIMARY_ID>SRS11730736</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960510</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228319</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="393" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228273_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854763"> <IDENTIFIERS> <PRIMARY_ID>SRX13854763</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228273_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731287"> <IDENTIFIERS> <PRIMARY_ID>SRS11731287</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960511</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228273</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="344" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>79</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>40</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228280_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854764"> <IDENTIFIERS> <PRIMARY_ID>SRX13854764</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228280_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731288"> <IDENTIFIERS> <PRIMARY_ID>SRS11731288</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960512</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228280</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="325" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228324_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854765"> <IDENTIFIERS> <PRIMARY_ID>SRX13854765</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228324_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731289"> <IDENTIFIERS> <PRIMARY_ID>SRS11731289</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960513</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228324</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="379" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>150</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>76</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228282_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854766"> <IDENTIFIERS> <PRIMARY_ID>SRX13854766</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228282_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731290"> <IDENTIFIERS> <PRIMARY_ID>SRS11731290</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960514</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228282</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="292" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228317_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854767"> <IDENTIFIERS> <PRIMARY_ID>SRX13854767</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228317_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731291"> <IDENTIFIERS> <PRIMARY_ID>SRS11731291</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960515</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228317</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="332" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>180</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>80</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228323_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854768"> <IDENTIFIERS> <PRIMARY_ID>SRX13854768</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228323_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731292"> <IDENTIFIERS> <PRIMARY_ID>SRS11731292</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960516</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228323</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="368" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>118</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>71</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228261_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854769"> <IDENTIFIERS> <PRIMARY_ID>SRX13854769</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228261_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731293"> <IDENTIFIERS> <PRIMARY_ID>SRS11731293</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960517</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228261</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="337" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>138</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>70</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228331_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854770"> <IDENTIFIERS> <PRIMARY_ID>SRX13854770</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228331_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731294"> <IDENTIFIERS> <PRIMARY_ID>SRS11731294</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960518</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228331</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="345" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228330_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854771"> <IDENTIFIERS> <PRIMARY_ID>SRX13854771</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228330_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731295"> <IDENTIFIERS> <PRIMARY_ID>SRS11731295</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960519</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228330</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="341" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>116</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>59</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228327_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854772"> <IDENTIFIERS> <PRIMARY_ID>SRX13854772</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228327_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731296"> <IDENTIFIERS> <PRIMARY_ID>SRS11731296</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960520</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228327</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="362" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>179</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>101</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228277_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854773"> <IDENTIFIERS> <PRIMARY_ID>SRX13854773</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228277_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731297"> <IDENTIFIERS> <PRIMARY_ID>SRS11731297</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960521</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228277</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="325" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>170</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>86</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228262_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854774"> <IDENTIFIERS> <PRIMARY_ID>SRX13854774</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228262_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731298"> <IDENTIFIERS> <PRIMARY_ID>SRS11731298</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960522</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228262</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="380" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228326_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854775"> <IDENTIFIERS> <PRIMARY_ID>SRX13854775</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228326_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731299"> <IDENTIFIERS> <PRIMARY_ID>SRS11731299</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960523</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228326</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="349" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>128</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>65</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228329_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854776"> <IDENTIFIERS> <PRIMARY_ID>SRX13854776</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228329_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731300"> <IDENTIFIERS> <PRIMARY_ID>SRS11731300</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960524</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228329</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="386" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>112</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>54</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228321_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854777"> <IDENTIFIERS> <PRIMARY_ID>SRX13854777</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228321_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731301"> <IDENTIFIERS> <PRIMARY_ID>SRS11731301</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960525</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228321</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="355" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228271_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854778"> <IDENTIFIERS> <PRIMARY_ID>SRX13854778</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228271_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731302"> <IDENTIFIERS> <PRIMARY_ID>SRS11731302</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960526</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228271</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="334" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>62</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>21</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228260_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854779"> <IDENTIFIERS> <PRIMARY_ID>SRX13854779</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228260_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731304"> <IDENTIFIERS> <PRIMARY_ID>SRS11731304</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960527</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228260</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="341" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>68</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>35</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228316_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854780"> <IDENTIFIERS> <PRIMARY_ID>SRX13854780</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228316_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731303"> <IDENTIFIERS> <PRIMARY_ID>SRS11731303</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960528</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228316</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="380" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>200</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>101</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228266_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854781"> <IDENTIFIERS> <PRIMARY_ID>SRX13854781</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228266_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731305"> <IDENTIFIERS> <PRIMARY_ID>SRS11731305</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960529</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228266</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="357" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228264_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854782"> <IDENTIFIERS> <PRIMARY_ID>SRX13854782</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228264_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731306"> <IDENTIFIERS> <PRIMARY_ID>SRS11731306</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960530</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228264</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="354" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>103</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>41</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228267_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854783"> <IDENTIFIERS> <PRIMARY_ID>SRX13854783</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228267_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731307"> <IDENTIFIERS> <PRIMARY_ID>SRS11731307</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960531</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228267</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="321" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>162</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>82</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228309_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854784"> <IDENTIFIERS> <PRIMARY_ID>SRX13854784</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228309_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731308"> <IDENTIFIERS> <PRIMARY_ID>SRS11731308</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960532</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228309</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="409" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>97</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>57</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228310_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854785"> <IDENTIFIERS> <PRIMARY_ID>SRX13854785</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228310_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731309"> <IDENTIFIERS> <PRIMARY_ID>SRS11731309</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960533</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228310</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="366" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>101</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>51</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228313_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854786"> <IDENTIFIERS> <PRIMARY_ID>SRX13854786</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228313_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731310"> <IDENTIFIERS> <PRIMARY_ID>SRS11731310</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960534</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228313</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="332" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>138</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>70</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228322_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854787"> <IDENTIFIERS> <PRIMARY_ID>SRX13854787</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228322_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731311"> <IDENTIFIERS> <PRIMARY_ID>SRS11731311</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960535</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228322</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="347" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>68</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>35</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228265_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854788"> <IDENTIFIERS> <PRIMARY_ID>SRX13854788</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228265_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731312"> <IDENTIFIERS> <PRIMARY_ID>SRS11731312</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960536</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228265</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="338" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>33</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>3</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228312_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854789"> <IDENTIFIERS> <PRIMARY_ID>SRX13854789</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228312_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731313"> <IDENTIFIERS> <PRIMARY_ID>SRS11731313</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960537</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228312</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="397" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>76</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>39</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228268_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854790"> <IDENTIFIERS> <PRIMARY_ID>SRX13854790</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228268_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731314"> <IDENTIFIERS> <PRIMARY_ID>SRS11731314</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960538</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228268</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="347" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228278_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854791"> <IDENTIFIERS> <PRIMARY_ID>SRX13854791</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228278_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731315"> <IDENTIFIERS> <PRIMARY_ID>SRS11731315</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960539</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228278</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="314" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>96</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>49</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228386_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854792"> <IDENTIFIERS> <PRIMARY_ID>SRX13854792</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228386_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731316"> <IDENTIFIERS> <PRIMARY_ID>SRS11731316</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960540</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228386</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="376" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>180</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>80</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228405_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854793"> <IDENTIFIERS> <PRIMARY_ID>SRX13854793</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228405_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731317"> <IDENTIFIERS> <PRIMARY_ID>SRS11731317</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960541</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228405</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="307" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>160</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>81</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228402_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854794"> <IDENTIFIERS> <PRIMARY_ID>SRX13854794</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228402_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731318"> <IDENTIFIERS> <PRIMARY_ID>SRS11731318</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960542</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228402</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="363" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>142</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>67</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228394_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854795"> <IDENTIFIERS> <PRIMARY_ID>SRX13854795</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228394_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731319"> <IDENTIFIERS> <PRIMARY_ID>SRS11731319</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960543</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228394</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="355" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>179</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228207_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854798"> <IDENTIFIERS> <PRIMARY_ID>SRX13854798</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228207_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731321"> <IDENTIFIERS> <PRIMARY_ID>SRS11731321</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960544</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228207</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="399" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>173</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228406_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854799"> <IDENTIFIERS> <PRIMARY_ID>SRX13854799</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228406_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731322"> <IDENTIFIERS> <PRIMARY_ID>SRS11731322</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960545</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228406</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="336" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228217_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854800"> <IDENTIFIERS> <PRIMARY_ID>SRX13854800</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228217_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731324"> <IDENTIFIERS> <PRIMARY_ID>SRS11731324</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960546</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228217</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="300" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>66</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>34</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228231_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854801"> <IDENTIFIERS> <PRIMARY_ID>SRX13854801</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228231_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731323"> <IDENTIFIERS> <PRIMARY_ID>SRS11731323</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960547</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228231</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="334" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>82</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>42</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228206_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854802"> <IDENTIFIERS> <PRIMARY_ID>SRX13854802</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228206_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731325"> <IDENTIFIERS> <PRIMARY_ID>SRS11731325</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960548</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228206</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="319" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>195</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>101</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228200_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854803"> <IDENTIFIERS> <PRIMARY_ID>SRX13854803</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228200_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731326"> <IDENTIFIERS> <PRIMARY_ID>SRS11731326</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960549</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228200</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="359" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>68</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>35</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228257_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854804"> <IDENTIFIERS> <PRIMARY_ID>SRX13854804</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228257_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731327"> <IDENTIFIERS> <PRIMARY_ID>SRS11731327</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960550</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228257</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="347" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>88</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>45</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228173_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854805"> <IDENTIFIERS> <PRIMARY_ID>SRX13854805</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228173_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731328"> <IDENTIFIERS> <PRIMARY_ID>SRS11731328</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960551</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228173</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="332" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>150</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>88</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228233_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854806"> <IDENTIFIERS> <PRIMARY_ID>SRX13854806</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228233_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731330"> <IDENTIFIERS> <PRIMARY_ID>SRS11731330</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960552</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228233</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="354" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228192_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854807"> <IDENTIFIERS> <PRIMARY_ID>SRX13854807</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228192_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731329"> <IDENTIFIERS> <PRIMARY_ID>SRS11731329</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960553</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228192</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="366" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>138</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>70</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228187_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854816"> <IDENTIFIERS> <PRIMARY_ID>SRX13854816</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228187_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731339"> <IDENTIFIERS> <PRIMARY_ID>SRS11731339</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960554</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228187</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="349" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>156</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>79</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228199_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854817"> <IDENTIFIERS> <PRIMARY_ID>SRX13854817</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228199_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731340"> <IDENTIFIERS> <PRIMARY_ID>SRS11731340</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960555</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228199</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="347" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228211_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854818"> <IDENTIFIERS> <PRIMARY_ID>SRX13854818</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228211_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731342"> <IDENTIFIERS> <PRIMARY_ID>SRS11731342</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960556</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228211</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="367" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>173</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>96</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228175_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854819"> <IDENTIFIERS> <PRIMARY_ID>SRX13854819</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228175_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731341"> <IDENTIFIERS> <PRIMARY_ID>SRS11731341</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960557</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228175</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="346" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>84</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>43</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228210_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854820"> <IDENTIFIERS> <PRIMARY_ID>SRX13854820</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228210_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731343"> <IDENTIFIERS> <PRIMARY_ID>SRS11731343</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960558</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228210</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="331" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>187</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>87</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228195_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854821"> <IDENTIFIERS> <PRIMARY_ID>SRX13854821</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228195_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731344"> <IDENTIFIERS> <PRIMARY_ID>SRS11731344</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960559</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228195</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="384" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228255_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854822"> <IDENTIFIERS> <PRIMARY_ID>SRX13854822</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228255_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731345"> <IDENTIFIERS> <PRIMARY_ID>SRS11731345</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960560</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228255</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="330" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>63</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>34</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228252_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854823"> <IDENTIFIERS> <PRIMARY_ID>SRX13854823</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228252_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731346"> <IDENTIFIERS> <PRIMARY_ID>SRS11731346</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960561</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228252</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="364" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>154</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>78</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228253_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854824"> <IDENTIFIERS> <PRIMARY_ID>SRX13854824</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228253_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731347"> <IDENTIFIERS> <PRIMARY_ID>SRS11731347</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960562</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228253</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="306" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>78</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>40</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228177_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854825"> <IDENTIFIERS> <PRIMARY_ID>SRX13854825</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228177_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731349"> <IDENTIFIERS> <PRIMARY_ID>SRS11731349</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960563</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228177</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="321" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>85</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>44</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228359_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854826"> <IDENTIFIERS> <PRIMARY_ID>SRX13854826</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228359_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731348"> <IDENTIFIERS> <PRIMARY_ID>SRS11731348</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960564</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228359</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="373" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>110</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>56</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228254_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854828"> <IDENTIFIERS> <PRIMARY_ID>SRX13854828</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228254_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731351"> <IDENTIFIERS> <PRIMARY_ID>SRS11731351</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960565</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228254</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="327" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>75</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>38</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228216_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854829"> <IDENTIFIERS> <PRIMARY_ID>SRX13854829</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228216_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731352"> <IDENTIFIERS> <PRIMARY_ID>SRS11731352</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960566</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228216</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="341" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>70</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>36</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228183_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854830"> <IDENTIFIERS> <PRIMARY_ID>SRX13854830</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228183_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731353"> <IDENTIFIERS> <PRIMARY_ID>SRS11731353</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960567</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228183</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="367" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>180</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>80</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228205_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854831"> <IDENTIFIERS> <PRIMARY_ID>SRX13854831</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228205_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731354"> <IDENTIFIERS> <PRIMARY_ID>SRS11731354</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960568</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228205</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="329" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>52</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>16</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228209_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854832"> <IDENTIFIERS> <PRIMARY_ID>SRX13854832</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228209_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731355"> <IDENTIFIERS> <PRIMARY_ID>SRS11731355</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960569</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228209</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="328" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>76</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>39</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228218_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854833"> <IDENTIFIERS> <PRIMARY_ID>SRX13854833</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228218_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731356"> <IDENTIFIERS> <PRIMARY_ID>SRS11731356</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960570</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228218</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="353" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>156</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>79</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228219_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854834"> <IDENTIFIERS> <PRIMARY_ID>SRX13854834</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228219_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731357"> <IDENTIFIERS> <PRIMARY_ID>SRS11731357</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960571</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228219</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="390" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>72</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>32</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228191_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854835"> <IDENTIFIERS> <PRIMARY_ID>SRX13854835</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228191_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731358"> <IDENTIFIERS> <PRIMARY_ID>SRS11731358</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960572</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228191</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="333" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228194_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854836"> <IDENTIFIERS> <PRIMARY_ID>SRX13854836</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228194_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731359"> <IDENTIFIERS> <PRIMARY_ID>SRS11731359</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960573</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228194</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="300" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>182</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228256_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854837"> <IDENTIFIERS> <PRIMARY_ID>SRX13854837</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228256_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731360"> <IDENTIFIERS> <PRIMARY_ID>SRS11731360</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960574</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228256</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="350" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>181</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228198_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854838"> <IDENTIFIERS> <PRIMARY_ID>SRX13854838</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228198_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731361"> <IDENTIFIERS> <PRIMARY_ID>SRS11731361</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960575</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228198</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="340" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>76</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>39</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228222_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854839"> <IDENTIFIERS> <PRIMARY_ID>SRX13854839</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228222_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731362"> <IDENTIFIERS> <PRIMARY_ID>SRS11731362</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960576</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228222</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="304" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228212_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854840"> <IDENTIFIERS> <PRIMARY_ID>SRX13854840</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228212_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731363"> <IDENTIFIERS> <PRIMARY_ID>SRS11731363</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960577</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228212</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="324" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228174_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854841"> <IDENTIFIERS> <PRIMARY_ID>SRX13854841</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228174_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731364"> <IDENTIFIERS> <PRIMARY_ID>SRS11731364</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960578</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228174</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="336" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>38</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>31</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228201_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854842"> <IDENTIFIERS> <PRIMARY_ID>SRX13854842</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228201_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731365"> <IDENTIFIERS> <PRIMARY_ID>SRS11731365</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960579</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228201</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="345" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>96</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>49</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228232_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854843"> <IDENTIFIERS> <PRIMARY_ID>SRX13854843</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228232_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731366"> <IDENTIFIERS> <PRIMARY_ID>SRS11731366</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960580</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228232</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="348" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>201</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>101</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228213_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854844"> <IDENTIFIERS> <PRIMARY_ID>SRX13854844</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228213_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731367"> <IDENTIFIERS> <PRIMARY_ID>SRS11731367</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960581</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228213</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="366" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228197_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854845"> <IDENTIFIERS> <PRIMARY_ID>SRX13854845</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228197_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731368"> <IDENTIFIERS> <PRIMARY_ID>SRS11731368</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960582</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228197</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="340" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>146</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>74</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228203_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854846"> <IDENTIFIERS> <PRIMARY_ID>SRX13854846</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228203_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731369"> <IDENTIFIERS> <PRIMARY_ID>SRS11731369</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960583</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228203</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="368" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>27</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>12</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228228_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854847"> <IDENTIFIERS> <PRIMARY_ID>SRX13854847</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228228_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731371"> <IDENTIFIERS> <PRIMARY_ID>SRS11731371</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960584</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228228</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="359" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228227_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854848"> <IDENTIFIERS> <PRIMARY_ID>SRX13854848</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228227_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731370"> <IDENTIFIERS> <PRIMARY_ID>SRS11731370</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960585</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228227</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="361" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228221_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854849"> <IDENTIFIERS> <PRIMARY_ID>SRX13854849</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228221_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731372"> <IDENTIFIERS> <PRIMARY_ID>SRS11731372</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960586</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228221</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="355" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228220_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854850"> <IDENTIFIERS> <PRIMARY_ID>SRX13854850</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228220_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731373"> <IDENTIFIERS> <PRIMARY_ID>SRS11731373</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960587</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228220</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="378" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>82</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>42</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228223_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854851"> <IDENTIFIERS> <PRIMARY_ID>SRX13854851</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228223_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731374"> <IDENTIFIERS> <PRIMARY_ID>SRS11731374</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960588</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228223</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="360" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228169_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854852"> <IDENTIFIERS> <PRIMARY_ID>SRX13854852</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228169_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731375"> <IDENTIFIERS> <PRIMARY_ID>SRS11731375</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960589</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228169</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="341" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>130</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>66</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228238_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854853"> <IDENTIFIERS> <PRIMARY_ID>SRX13854853</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228238_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731376"> <IDENTIFIERS> <PRIMARY_ID>SRS11731376</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960590</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228238</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="354" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>201</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>101</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228259_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854854"> <IDENTIFIERS> <PRIMARY_ID>SRX13854854</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228259_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731377"> <IDENTIFIERS> <PRIMARY_ID>SRS11731377</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960591</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228259</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="325" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>176</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>76</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228398_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854855"> <IDENTIFIERS> <PRIMARY_ID>SRX13854855</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228398_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731378"> <IDENTIFIERS> <PRIMARY_ID>SRS11731378</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960592</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228398</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="381" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>43</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>43</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228258_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854856"> <IDENTIFIERS> <PRIMARY_ID>SRX13854856</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228258_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731379"> <IDENTIFIERS> <PRIMARY_ID>SRS11731379</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960593</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228258</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="357" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>110</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>56</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228392_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854857"> <IDENTIFIERS> <PRIMARY_ID>SRX13854857</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228392_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731380"> <IDENTIFIERS> <PRIMARY_ID>SRS11731380</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960594</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228392</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="336" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>132</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>67</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228202_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854858"> <IDENTIFIERS> <PRIMARY_ID>SRX13854858</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228202_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731381"> <IDENTIFIERS> <PRIMARY_ID>SRS11731381</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960595</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228202</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="346" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228358_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854859"> <IDENTIFIERS> <PRIMARY_ID>SRX13854859</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228358_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731382"> <IDENTIFIERS> <PRIMARY_ID>SRS11731382</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960596</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228358</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="354" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>51</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>13</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228479_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854860"> <IDENTIFIERS> <PRIMARY_ID>SRX13854860</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228479_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731383"> <IDENTIFIERS> <PRIMARY_ID>SRS11731383</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960597</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228479</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="344" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>156</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>79</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228382_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854861"> <IDENTIFIERS> <PRIMARY_ID>SRX13854861</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228382_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731384"> <IDENTIFIERS> <PRIMARY_ID>SRS11731384</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960598</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228382</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="360" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228416_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854862"> <IDENTIFIERS> <PRIMARY_ID>SRX13854862</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228416_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731385"> <IDENTIFIERS> <PRIMARY_ID>SRS11731385</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960599</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228416</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="330" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228423_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854863"> <IDENTIFIERS> <PRIMARY_ID>SRX13854863</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228423_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731386"> <IDENTIFIERS> <PRIMARY_ID>SRS11731386</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960600</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228423</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="380" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>177</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228422_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854864"> <IDENTIFIERS> <PRIMARY_ID>SRX13854864</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228422_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731387"> <IDENTIFIERS> <PRIMARY_ID>SRS11731387</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960601</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228422</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="362" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>148</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>48</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228419_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854865"> <IDENTIFIERS> <PRIMARY_ID>SRX13854865</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228419_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731388"> <IDENTIFIERS> <PRIMARY_ID>SRS11731388</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960602</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228419</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="305" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>40</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>10</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228486_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854866"> <IDENTIFIERS> <PRIMARY_ID>SRX13854866</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228486_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731389"> <IDENTIFIERS> <PRIMARY_ID>SRS11731389</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960603</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228486</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="357" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>113</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>71</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228491_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854867"> <IDENTIFIERS> <PRIMARY_ID>SRX13854867</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228491_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731390"> <IDENTIFIERS> <PRIMARY_ID>SRS11731390</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960604</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228491</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="329" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>185</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228401_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854868"> <IDENTIFIERS> <PRIMARY_ID>SRX13854868</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228401_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731391"> <IDENTIFIERS> <PRIMARY_ID>SRS11731391</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960605</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228401</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="351" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>91</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>46</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228455_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854869"> <IDENTIFIERS> <PRIMARY_ID>SRX13854869</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228455_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731392"> <IDENTIFIERS> <PRIMARY_ID>SRS11731392</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960606</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228455</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="323" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>180</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>101</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228484_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854870"> <IDENTIFIERS> <PRIMARY_ID>SRX13854870</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228484_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731393"> <IDENTIFIERS> <PRIMARY_ID>SRS11731393</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960607</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228484</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="325" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>188</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>88</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228391_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854871"> <IDENTIFIERS> <PRIMARY_ID>SRX13854871</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228391_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731394"> <IDENTIFIERS> <PRIMARY_ID>SRS11731394</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960608</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228391</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="336" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>120</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>61</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228410_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854872"> <IDENTIFIERS> <PRIMARY_ID>SRX13854872</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228410_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731395"> <IDENTIFIERS> <PRIMARY_ID>SRS11731395</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960609</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228410</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="319" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>51</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>39</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228387_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854873"> <IDENTIFIERS> <PRIMARY_ID>SRX13854873</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228387_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731396"> <IDENTIFIERS> <PRIMARY_ID>SRS11731396</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960610</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228387</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="361" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>131</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>66</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228412_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854874"> <IDENTIFIERS> <PRIMARY_ID>SRX13854874</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228412_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731397"> <IDENTIFIERS> <PRIMARY_ID>SRS11731397</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960611</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228412</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="377" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>108</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>55</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228474_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854875"> <IDENTIFIERS> <PRIMARY_ID>SRX13854875</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228474_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731398"> <IDENTIFIERS> <PRIMARY_ID>SRS11731398</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960612</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228474</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="352" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>190</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>96</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228450_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854876"> <IDENTIFIERS> <PRIMARY_ID>SRX13854876</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228450_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731399"> <IDENTIFIERS> <PRIMARY_ID>SRS11731399</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960613</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228450</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="311" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>180</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228361_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854877"> <IDENTIFIERS> <PRIMARY_ID>SRX13854877</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228361_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731400"> <IDENTIFIERS> <PRIMARY_ID>SRS11731400</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960614</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228361</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="382" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>49</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>38</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228476_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854878"> <IDENTIFIERS> <PRIMARY_ID>SRX13854878</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228476_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731401"> <IDENTIFIERS> <PRIMARY_ID>SRS11731401</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960615</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228476</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="342" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>71</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>41</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228496_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854879"> <IDENTIFIERS> <PRIMARY_ID>SRX13854879</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228496_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731402"> <IDENTIFIERS> <PRIMARY_ID>SRS11731402</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960616</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228496</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="329" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228454_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854880"> <IDENTIFIERS> <PRIMARY_ID>SRX13854880</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228454_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731403"> <IDENTIFIERS> <PRIMARY_ID>SRS11731403</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960617</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228454</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="355" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>80</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>41</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228409_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854881"> <IDENTIFIERS> <PRIMARY_ID>SRX13854881</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228409_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731404"> <IDENTIFIERS> <PRIMARY_ID>SRS11731404</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960618</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228409</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="361" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>178</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228396_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854882"> <IDENTIFIERS> <PRIMARY_ID>SRX13854882</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228396_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731405"> <IDENTIFIERS> <PRIMARY_ID>SRS11731405</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960619</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228396</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="343" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>178</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228413_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854883"> <IDENTIFIERS> <PRIMARY_ID>SRX13854883</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228413_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731406"> <IDENTIFIERS> <PRIMARY_ID>SRS11731406</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960620</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228413</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="365" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228397_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854884"> <IDENTIFIERS> <PRIMARY_ID>SRX13854884</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228397_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731407"> <IDENTIFIERS> <PRIMARY_ID>SRS11731407</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960621</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228397</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="335" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>137</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>69</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228453_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854885"> <IDENTIFIERS> <PRIMARY_ID>SRX13854885</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228453_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731408"> <IDENTIFIERS> <PRIMARY_ID>SRS11731408</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960622</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228453</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="329" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>178</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228493_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854886"> <IDENTIFIERS> <PRIMARY_ID>SRX13854886</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228493_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731409"> <IDENTIFIERS> <PRIMARY_ID>SRS11731409</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960623</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228493</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="304" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>138</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>38</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228483_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854887"> <IDENTIFIERS> <PRIMARY_ID>SRX13854887</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228483_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731410"> <IDENTIFIERS> <PRIMARY_ID>SRS11731410</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960624</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228483</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="301" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228383_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854888"> <IDENTIFIERS> <PRIMARY_ID>SRX13854888</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228383_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731411"> <IDENTIFIERS> <PRIMARY_ID>SRS11731411</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960625</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228383</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="336" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>84</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>43</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228478_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854889"> <IDENTIFIERS> <PRIMARY_ID>SRX13854889</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228478_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731412"> <IDENTIFIERS> <PRIMARY_ID>SRS11731412</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960626</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228478</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="373" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>175</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228482_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854890"> <IDENTIFIERS> <PRIMARY_ID>SRX13854890</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228482_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731413"> <IDENTIFIERS> <PRIMARY_ID>SRS11731413</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960627</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228482</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="324" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>191</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>91</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228477_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854891"> <IDENTIFIERS> <PRIMARY_ID>SRX13854891</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228477_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731414"> <IDENTIFIERS> <PRIMARY_ID>SRS11731414</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960628</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228477</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="333" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>136</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>69</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228464_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854892"> <IDENTIFIERS> <PRIMARY_ID>SRX13854892</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228464_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731415"> <IDENTIFIERS> <PRIMARY_ID>SRS11731415</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960629</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228464</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="312" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>140</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>71</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228495_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854893"> <IDENTIFIERS> <PRIMARY_ID>SRX13854893</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228495_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731416"> <IDENTIFIERS> <PRIMARY_ID>SRS11731416</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960630</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228495</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="322" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>80</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>41</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228473_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854894"> <IDENTIFIERS> <PRIMARY_ID>SRX13854894</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228473_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731417"> <IDENTIFIERS> <PRIMARY_ID>SRS11731417</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960631</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228473</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="332" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228457_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854895"> <IDENTIFIERS> <PRIMARY_ID>SRX13854895</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228457_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731418"> <IDENTIFIERS> <PRIMARY_ID>SRS11731418</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960632</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228457</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="329" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>83</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>42</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228492_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854896"> <IDENTIFIERS> <PRIMARY_ID>SRX13854896</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228492_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731419"> <IDENTIFIERS> <PRIMARY_ID>SRS11731419</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960633</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228492</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="345" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228381_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854897"> <IDENTIFIERS> <PRIMARY_ID>SRX13854897</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228381_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731420"> <IDENTIFIERS> <PRIMARY_ID>SRS11731420</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960634</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228381</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="393" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>80</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>37</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228408_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854898"> <IDENTIFIERS> <PRIMARY_ID>SRX13854898</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228408_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731421"> <IDENTIFIERS> <PRIMARY_ID>SRS11731421</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960635</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228408</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="346" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>76</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>42</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228411_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854899"> <IDENTIFIERS> <PRIMARY_ID>SRX13854899</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228411_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731422"> <IDENTIFIERS> <PRIMARY_ID>SRS11731422</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960636</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228411</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="345" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>200</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228520_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854900"> <IDENTIFIERS> <PRIMARY_ID>SRX13854900</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228520_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731423"> <IDENTIFIERS> <PRIMARY_ID>SRS11731423</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960637</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228520</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="329" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228519_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854901"> <IDENTIFIERS> <PRIMARY_ID>SRX13854901</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228519_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731424"> <IDENTIFIERS> <PRIMARY_ID>SRS11731424</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960638</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228519</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="335" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>179</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>79</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228489_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854902"> <IDENTIFIERS> <PRIMARY_ID>SRX13854902</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228489_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731425"> <IDENTIFIERS> <PRIMARY_ID>SRS11731425</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960639</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228489</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="338" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>96</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>35</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228461_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854903"> <IDENTIFIERS> <PRIMARY_ID>SRX13854903</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228461_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731426"> <IDENTIFIERS> <PRIMARY_ID>SRS11731426</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960640</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228461</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="350" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228390_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854904"> <IDENTIFIERS> <PRIMARY_ID>SRX13854904</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228390_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731427"> <IDENTIFIERS> <PRIMARY_ID>SRS11731427</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960641</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228390</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="390" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228480_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854905"> <IDENTIFIERS> <PRIMARY_ID>SRX13854905</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228480_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731428"> <IDENTIFIERS> <PRIMARY_ID>SRS11731428</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960642</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228480</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="333" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>196</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>96</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228488_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854906"> <IDENTIFIERS> <PRIMARY_ID>SRX13854906</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228488_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731429"> <IDENTIFIERS> <PRIMARY_ID>SRS11731429</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960643</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228488</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="287" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228385_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854907"> <IDENTIFIERS> <PRIMARY_ID>SRX13854907</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228385_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731430"> <IDENTIFIERS> <PRIMARY_ID>SRS11731430</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960644</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228385</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="328" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>89</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>45</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228400_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854908"> <IDENTIFIERS> <PRIMARY_ID>SRX13854908</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228400_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731431"> <IDENTIFIERS> <PRIMARY_ID>SRS11731431</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960645</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228400</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="355" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>179</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228414_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854909"> <IDENTIFIERS> <PRIMARY_ID>SRX13854909</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228414_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731432"> <IDENTIFIERS> <PRIMARY_ID>SRS11731432</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960646</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228414</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="340" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>114</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>44</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228475_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854910"> <IDENTIFIERS> <PRIMARY_ID>SRX13854910</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228475_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731433"> <IDENTIFIERS> <PRIMARY_ID>SRS11731433</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960647</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228475</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="360" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>88</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>45</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228380_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854911"> <IDENTIFIERS> <PRIMARY_ID>SRX13854911</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228380_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731434"> <IDENTIFIERS> <PRIMARY_ID>SRS11731434</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960648</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228380</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="351" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228481_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854912"> <IDENTIFIERS> <PRIMARY_ID>SRX13854912</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228481_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731435"> <IDENTIFIERS> <PRIMARY_ID>SRS11731435</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960649</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228481</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="281" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>80</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>41</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228388_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854913"> <IDENTIFIERS> <PRIMARY_ID>SRX13854913</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228388_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731436"> <IDENTIFIERS> <PRIMARY_ID>SRS11731436</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960650</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228388</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="350" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>86</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>44</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228518_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854914"> <IDENTIFIERS> <PRIMARY_ID>SRX13854914</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228518_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731437"> <IDENTIFIERS> <PRIMARY_ID>SRS11731437</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960651</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228518</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="357" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228451_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854915"> <IDENTIFIERS> <PRIMARY_ID>SRX13854915</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228451_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731438"> <IDENTIFIERS> <PRIMARY_ID>SRS11731438</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960652</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228451</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="331" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>57</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>44</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228403_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854920"> <IDENTIFIERS> <PRIMARY_ID>SRX13854920</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228403_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731443"> <IDENTIFIERS> <PRIMARY_ID>SRS11731443</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960653</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228403</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="376" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>108</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>54</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228460_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854951"> <IDENTIFIERS> <PRIMARY_ID>SRX13854951</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228460_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731474"> <IDENTIFIERS> <PRIMARY_ID>SRS11731474</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960654</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228460</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="327" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>189</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228360_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854952"> <IDENTIFIERS> <PRIMARY_ID>SRX13854952</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228360_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731475"> <IDENTIFIERS> <PRIMARY_ID>SRS11731475</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960655</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228360</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="354" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>165</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>65</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228458_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854953"> <IDENTIFIERS> <PRIMARY_ID>SRX13854953</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228458_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731476"> <IDENTIFIERS> <PRIMARY_ID>SRS11731476</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960656</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228458</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="319" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228420_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854954"> <IDENTIFIERS> <PRIMARY_ID>SRX13854954</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228420_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731477"> <IDENTIFIERS> <PRIMARY_ID>SRS11731477</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960657</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228420</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="303" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>71</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>37</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228494_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854955"> <IDENTIFIERS> <PRIMARY_ID>SRX13854955</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228494_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731478"> <IDENTIFIERS> <PRIMARY_ID>SRS11731478</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960658</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228494</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="360" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>174</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228393_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13854956"> <IDENTIFIERS> <PRIMARY_ID>SRX13854956</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228393_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731479"> <IDENTIFIERS> <PRIMARY_ID>SRS11731479</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960659</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228393</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="343" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>75</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>33</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228452_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13854957"> <IDENTIFIERS> <PRIMARY_ID>SRX13854957</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228452_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731480"> <IDENTIFIERS> <PRIMARY_ID>SRS11731480</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960660</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228452</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="350" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>201</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>101</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225438_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854958"> <IDENTIFIERS> <PRIMARY_ID>SRX13854958</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225438_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731481"> <IDENTIFIERS> <PRIMARY_ID>SRS11731481</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960661</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225438</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="335" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>72</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>37</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225435_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854959"> <IDENTIFIERS> <PRIMARY_ID>SRX13854959</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225435_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731482"> <IDENTIFIERS> <PRIMARY_ID>SRS11731482</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960662</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225435</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="303" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225403_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854960"> <IDENTIFIERS> <PRIMARY_ID>SRX13854960</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225403_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731483"> <IDENTIFIERS> <PRIMARY_ID>SRS11731483</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960663</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225403</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="353" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225426_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854961"> <IDENTIFIERS> <PRIMARY_ID>SRX13854961</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225426_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731484"> <IDENTIFIERS> <PRIMARY_ID>SRS11731484</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960664</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225426</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="332" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>82</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>42</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225417_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854962"> <IDENTIFIERS> <PRIMARY_ID>SRX13854962</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225417_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731485"> <IDENTIFIERS> <PRIMARY_ID>SRS11731485</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960665</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225417</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="348" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>39</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>31</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225401_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854963"> <IDENTIFIERS> <PRIMARY_ID>SRX13854963</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225401_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731486"> <IDENTIFIERS> <PRIMARY_ID>SRS11731486</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960666</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225401</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="337" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225429_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854964"> <IDENTIFIERS> <PRIMARY_ID>SRX13854964</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225429_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731487"> <IDENTIFIERS> <PRIMARY_ID>SRS11731487</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960667</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225429</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="317" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>138</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>70</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225427_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854965"> <IDENTIFIERS> <PRIMARY_ID>SRX13854965</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225427_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731488"> <IDENTIFIERS> <PRIMARY_ID>SRS11731488</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960668</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225427</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="310" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>138</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>70</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225433_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854966"> <IDENTIFIERS> <PRIMARY_ID>SRX13854966</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225433_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731489"> <IDENTIFIERS> <PRIMARY_ID>SRS11731489</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960669</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225433</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="285" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>104</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>53</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225443_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854967"> <IDENTIFIERS> <PRIMARY_ID>SRX13854967</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225443_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731490"> <IDENTIFIERS> <PRIMARY_ID>SRS11731490</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960670</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225443</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="345" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>144</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>73</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225432_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854968"> <IDENTIFIERS> <PRIMARY_ID>SRX13854968</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225432_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731491"> <IDENTIFIERS> <PRIMARY_ID>SRS11731491</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960671</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225432</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="337" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>141</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>79</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225404_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854969"> <IDENTIFIERS> <PRIMARY_ID>SRX13854969</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225404_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731492"> <IDENTIFIERS> <PRIMARY_ID>SRS11731492</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960672</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225404</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="348" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225408_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854970"> <IDENTIFIERS> <PRIMARY_ID>SRX13854970</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225408_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731493"> <IDENTIFIERS> <PRIMARY_ID>SRS11731493</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960673</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225408</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="325" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>201</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>101</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225440_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854971"> <IDENTIFIERS> <PRIMARY_ID>SRX13854971</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225440_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731494"> <IDENTIFIERS> <PRIMARY_ID>SRS11731494</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960674</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225440</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="338" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>139</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>64</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225413_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854972"> <IDENTIFIERS> <PRIMARY_ID>SRX13854972</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225413_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731495"> <IDENTIFIERS> <PRIMARY_ID>SRS11731495</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960675</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225413</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="359" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>123</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>62</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225414_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854973"> <IDENTIFIERS> <PRIMARY_ID>SRX13854973</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225414_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731496"> <IDENTIFIERS> <PRIMARY_ID>SRS11731496</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960676</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225414</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="340" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>142</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>72</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225445_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854974"> <IDENTIFIERS> <PRIMARY_ID>SRX13854974</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225445_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731497"> <IDENTIFIERS> <PRIMARY_ID>SRS11731497</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960677</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225445</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="364" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>117</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>54</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225446_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13854975"> <IDENTIFIERS> <PRIMARY_ID>SRX13854975</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225446_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731498"> <IDENTIFIERS> <PRIMARY_ID>SRS11731498</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960678</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225446</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="360" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>194</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224754_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13854976"> <IDENTIFIERS> <PRIMARY_ID>SRX13854976</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224754_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11731499"> <IDENTIFIERS> <PRIMARY_ID>SRS11731499</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960446</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224754</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="317" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225397_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13855558"> <IDENTIFIERS> <PRIMARY_ID>SRX13855558</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225397_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732083"> <IDENTIFIERS> <PRIMARY_ID>SRS11732083</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960680</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225397</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="360" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>172</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>87</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225422_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13855559"> <IDENTIFIERS> <PRIMARY_ID>SRX13855559</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225422_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732084"> <IDENTIFIERS> <PRIMARY_ID>SRS11732084</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960681</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225422</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="346" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>90</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>46</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228576_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855560"> <IDENTIFIERS> <PRIMARY_ID>SRX13855560</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228576_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732085"> <IDENTIFIERS> <PRIMARY_ID>SRS11732085</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960682</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228576</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="349" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>195</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228562_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855561"> <IDENTIFIERS> <PRIMARY_ID>SRX13855561</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228562_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732086"> <IDENTIFIERS> <PRIMARY_ID>SRS11732086</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960683</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228562</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="393" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228629_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855562"> <IDENTIFIERS> <PRIMARY_ID>SRX13855562</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228629_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732087"> <IDENTIFIERS> <PRIMARY_ID>SRS11732087</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960684</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228629</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="363" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>64</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>36</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228634_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855563"> <IDENTIFIERS> <PRIMARY_ID>SRX13855563</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228634_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732088"> <IDENTIFIERS> <PRIMARY_ID>SRS11732088</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960685</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228634</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="362" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228638_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855564"> <IDENTIFIERS> <PRIMARY_ID>SRX13855564</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228638_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732089"> <IDENTIFIERS> <PRIMARY_ID>SRS11732089</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960686</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228638</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="361" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228577_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855565"> <IDENTIFIERS> <PRIMARY_ID>SRX13855565</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228577_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732090"> <IDENTIFIERS> <PRIMARY_ID>SRS11732090</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960687</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228577</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="349" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>41</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>35</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228619_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855568"> <IDENTIFIERS> <PRIMARY_ID>SRX13855568</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228619_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732092"> <IDENTIFIERS> <PRIMARY_ID>SRS11732092</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960688</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228619</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="320" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>120</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>61</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228635_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855581"> <IDENTIFIERS> <PRIMARY_ID>SRX13855581</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228635_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732106"> <IDENTIFIERS> <PRIMARY_ID>SRS11732106</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960689</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228635</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="358" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>180</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>80</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228624_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855582"> <IDENTIFIERS> <PRIMARY_ID>SRX13855582</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228624_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732107"> <IDENTIFIERS> <PRIMARY_ID>SRS11732107</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960690</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228624</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="295" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228570_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855583"> <IDENTIFIERS> <PRIMARY_ID>SRX13855583</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228570_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732108"> <IDENTIFIERS> <PRIMARY_ID>SRS11732108</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960691</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228570</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="359" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228571_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855584"> <IDENTIFIERS> <PRIMARY_ID>SRX13855584</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228571_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732109"> <IDENTIFIERS> <PRIMARY_ID>SRS11732109</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960692</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228571</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="365" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228573_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855585"> <IDENTIFIERS> <PRIMARY_ID>SRX13855585</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228573_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732110"> <IDENTIFIERS> <PRIMARY_ID>SRS11732110</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960693</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228573</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="333" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>113</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>61</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228580_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855586"> <IDENTIFIERS> <PRIMARY_ID>SRX13855586</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228580_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732111"> <IDENTIFIERS> <PRIMARY_ID>SRS11732111</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960694</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228580</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="308" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>60</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>31</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228572_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855587"> <IDENTIFIERS> <PRIMARY_ID>SRX13855587</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228572_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732112"> <IDENTIFIERS> <PRIMARY_ID>SRS11732112</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960695</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228572</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="337" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>115</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>58</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228612_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855588"> <IDENTIFIERS> <PRIMARY_ID>SRX13855588</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228612_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732113"> <IDENTIFIERS> <PRIMARY_ID>SRS11732113</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960696</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228612</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="409" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>201</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>101</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228564_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855589"> <IDENTIFIERS> <PRIMARY_ID>SRX13855589</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228564_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732114"> <IDENTIFIERS> <PRIMARY_ID>SRS11732114</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960697</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228564</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="358" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>186</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>100</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228581_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855590"> <IDENTIFIERS> <PRIMARY_ID>SRX13855590</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228581_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732115"> <IDENTIFIERS> <PRIMARY_ID>SRS11732115</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960698</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228581</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="331" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228625_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855591"> <IDENTIFIERS> <PRIMARY_ID>SRX13855591</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228625_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732116"> <IDENTIFIERS> <PRIMARY_ID>SRS11732116</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960699</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228625</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="365" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>180</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228610_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855592"> <IDENTIFIERS> <PRIMARY_ID>SRX13855592</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228610_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732118"> <IDENTIFIERS> <PRIMARY_ID>SRS11732118</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960700</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228610</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="401" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228644_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855593"> <IDENTIFIERS> <PRIMARY_ID>SRX13855593</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228644_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732117"> <IDENTIFIERS> <PRIMARY_ID>SRS11732117</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960701</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228644</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="391" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228627_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855594"> <IDENTIFIERS> <PRIMARY_ID>SRX13855594</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228627_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732119"> <IDENTIFIERS> <PRIMARY_ID>SRS11732119</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960702</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228627</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="359" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228642_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855595"> <IDENTIFIERS> <PRIMARY_ID>SRX13855595</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228642_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732121"> <IDENTIFIERS> <PRIMARY_ID>SRS11732121</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960703</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228642</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="414" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>173</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>96</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228579_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855596"> <IDENTIFIERS> <PRIMARY_ID>SRX13855596</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228579_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732120"> <IDENTIFIERS> <PRIMARY_ID>SRS11732120</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960704</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228579</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="347" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>90</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>43</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228517_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855597"> <IDENTIFIERS> <PRIMARY_ID>SRX13855597</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228517_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732122"> <IDENTIFIERS> <PRIMARY_ID>SRS11732122</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960705</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228517</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="338" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>179</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228364_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855598"> <IDENTIFIERS> <PRIMARY_ID>SRX13855598</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228364_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732123"> <IDENTIFIERS> <PRIMARY_ID>SRS11732123</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960706</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228364</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="390" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>91</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>46</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228436_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855599"> <IDENTIFIERS> <PRIMARY_ID>SRX13855599</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228436_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732124"> <IDENTIFIERS> <PRIMARY_ID>SRS11732124</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960707</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228436</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="359" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>175</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228439_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855600"> <IDENTIFIERS> <PRIMARY_ID>SRX13855600</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228439_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732125"> <IDENTIFIERS> <PRIMARY_ID>SRS11732125</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960708</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228439</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="376" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>189</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228369_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855601"> <IDENTIFIERS> <PRIMARY_ID>SRX13855601</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228369_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732126"> <IDENTIFIERS> <PRIMARY_ID>SRS11732126</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960709</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228369</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="361" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>170</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>86</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228504_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855602"> <IDENTIFIERS> <PRIMARY_ID>SRX13855602</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228504_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732128"> <IDENTIFIERS> <PRIMARY_ID>SRS11732128</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960710</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228504</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="356" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>108</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>55</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228433_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855603"> <IDENTIFIERS> <PRIMARY_ID>SRX13855603</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228433_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732127"> <IDENTIFIERS> <PRIMARY_ID>SRS11732127</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960711</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228433</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="365" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>96</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>36</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228372_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855604"> <IDENTIFIERS> <PRIMARY_ID>SRX13855604</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228372_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732129"> <IDENTIFIERS> <PRIMARY_ID>SRS11732129</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960712</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228372</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="357" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>124</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>63</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228368_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855605"> <IDENTIFIERS> <PRIMARY_ID>SRX13855605</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228368_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732130"> <IDENTIFIERS> <PRIMARY_ID>SRS11732130</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960713</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228368</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="330" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>176</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228373_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855606"> <IDENTIFIERS> <PRIMARY_ID>SRX13855606</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228373_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732131"> <IDENTIFIERS> <PRIMARY_ID>SRS11732131</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960714</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228373</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="365" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228501_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855607"> <IDENTIFIERS> <PRIMARY_ID>SRX13855607</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228501_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732132"> <IDENTIFIERS> <PRIMARY_ID>SRS11732132</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960715</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228501</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="344" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>191</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>91</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228377_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855608"> <IDENTIFIERS> <PRIMARY_ID>SRX13855608</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228377_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732133"> <IDENTIFIERS> <PRIMARY_ID>SRS11732133</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960716</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228377</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="331" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228447_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855609"> <IDENTIFIERS> <PRIMARY_ID>SRX13855609</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228447_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732134"> <IDENTIFIERS> <PRIMARY_ID>SRS11732134</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960717</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228447</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="356" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228510_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855610"> <IDENTIFIERS> <PRIMARY_ID>SRX13855610</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228510_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732135"> <IDENTIFIERS> <PRIMARY_ID>SRS11732135</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960718</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228510</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="287" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>76</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>39</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228440_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855611"> <IDENTIFIERS> <PRIMARY_ID>SRX13855611</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228440_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732136"> <IDENTIFIERS> <PRIMARY_ID>SRS11732136</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960719</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228440</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="376" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228375_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855612"> <IDENTIFIERS> <PRIMARY_ID>SRX13855612</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228375_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732137"> <IDENTIFIERS> <PRIMARY_ID>SRS11732137</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960720</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228375</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="345" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>146</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>87</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228446_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855613"> <IDENTIFIERS> <PRIMARY_ID>SRX13855613</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228446_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732138"> <IDENTIFIERS> <PRIMARY_ID>SRS11732138</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960721</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228446</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="374" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>201</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>101</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228367_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855614"> <IDENTIFIERS> <PRIMARY_ID>SRX13855614</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228367_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732140"> <IDENTIFIERS> <PRIMARY_ID>SRS11732140</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960722</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228367</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="364" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>178</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>90</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228459_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855615"> <IDENTIFIERS> <PRIMARY_ID>SRX13855615</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228459_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732141"> <IDENTIFIERS> <PRIMARY_ID>SRS11732141</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960723</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228459</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="293" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228428_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855616"> <IDENTIFIERS> <PRIMARY_ID>SRX13855616</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228428_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732142"> <IDENTIFIERS> <PRIMARY_ID>SRS11732142</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960724</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228428</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="390" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>195</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228448_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855617"> <IDENTIFIERS> <PRIMARY_ID>SRX13855617</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228448_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732143"> <IDENTIFIERS> <PRIMARY_ID>SRS11732143</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960725</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228448</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="378" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>180</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>80</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228449_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855618"> <IDENTIFIERS> <PRIMARY_ID>SRX13855618</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228449_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732144"> <IDENTIFIERS> <PRIMARY_ID>SRS11732144</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960726</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228449</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="314" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>78</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>40</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228485_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855619"> <IDENTIFIERS> <PRIMARY_ID>SRX13855619</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228485_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732145"> <IDENTIFIERS> <PRIMARY_ID>SRS11732145</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960727</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228485</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="255" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>62</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>22</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228395_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855620"> <IDENTIFIERS> <PRIMARY_ID>SRX13855620</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228395_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732146"> <IDENTIFIERS> <PRIMARY_ID>SRS11732146</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960728</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228395</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="387" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228509_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855621"> <IDENTIFIERS> <PRIMARY_ID>SRX13855621</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228509_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732147"> <IDENTIFIERS> <PRIMARY_ID>SRS11732147</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960729</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228509</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="343" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>178</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>78</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228378_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855622"> <IDENTIFIERS> <PRIMARY_ID>SRX13855622</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228378_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732148"> <IDENTIFIERS> <PRIMARY_ID>SRS11732148</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960730</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228378</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="356" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228404_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855623"> <IDENTIFIERS> <PRIMARY_ID>SRX13855623</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228404_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732149"> <IDENTIFIERS> <PRIMARY_ID>SRS11732149</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960731</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228404</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="352" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>94</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>48</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228371_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855624"> <IDENTIFIERS> <PRIMARY_ID>SRX13855624</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228371_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732150"> <IDENTIFIERS> <PRIMARY_ID>SRS11732150</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960732</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228371</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="363" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>139</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>70</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228513_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855625"> <IDENTIFIERS> <PRIMARY_ID>SRX13855625</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228513_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732151"> <IDENTIFIERS> <PRIMARY_ID>SRS11732151</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960733</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228513</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="330" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228432_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855626"> <IDENTIFIERS> <PRIMARY_ID>SRX13855626</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228432_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732152"> <IDENTIFIERS> <PRIMARY_ID>SRS11732152</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960734</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228432</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="367" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>60</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>43</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228435_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855627"> <IDENTIFIERS> <PRIMARY_ID>SRX13855627</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228435_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732153"> <IDENTIFIERS> <PRIMARY_ID>SRS11732153</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960735</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228435</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="359" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228514_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855628"> <IDENTIFIERS> <PRIMARY_ID>SRX13855628</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228514_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732154"> <IDENTIFIERS> <PRIMARY_ID>SRS11732154</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960736</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228514</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="339" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>112</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>57</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228438_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855629"> <IDENTIFIERS> <PRIMARY_ID>SRX13855629</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228438_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732155"> <IDENTIFIERS> <PRIMARY_ID>SRS11732155</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960737</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228438</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="375" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>180</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228376_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855630"> <IDENTIFIERS> <PRIMARY_ID>SRX13855630</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228376_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732156"> <IDENTIFIERS> <PRIMARY_ID>SRS11732156</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960738</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228376</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="359" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>177</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228444_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855631"> <IDENTIFIERS> <PRIMARY_ID>SRX13855631</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228444_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732157"> <IDENTIFIERS> <PRIMARY_ID>SRS11732157</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960739</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228444</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="330" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>128</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>54</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228506_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855632"> <IDENTIFIERS> <PRIMARY_ID>SRX13855632</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228506_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732158"> <IDENTIFIERS> <PRIMARY_ID>SRS11732158</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960740</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228506</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="350" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>180</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>80</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228379_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855633"> <IDENTIFIERS> <PRIMARY_ID>SRX13855633</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228379_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732159"> <IDENTIFIERS> <PRIMARY_ID>SRS11732159</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960741</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228379</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="367" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>189</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>96</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228499_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855634"> <IDENTIFIERS> <PRIMARY_ID>SRX13855634</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228499_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732160"> <IDENTIFIERS> <PRIMARY_ID>SRS11732160</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960742</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228499</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="335" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>148</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>75</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228498_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855635"> <IDENTIFIERS> <PRIMARY_ID>SRX13855635</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228498_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732161"> <IDENTIFIERS> <PRIMARY_ID>SRS11732161</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960743</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228498</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="315" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>168</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>85</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228366_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855636"> <IDENTIFIERS> <PRIMARY_ID>SRX13855636</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228366_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732162"> <IDENTIFIERS> <PRIMARY_ID>SRS11732162</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960744</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228366</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="356" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>181</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>81</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228443_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855637"> <IDENTIFIERS> <PRIMARY_ID>SRX13855637</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228443_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732163"> <IDENTIFIERS> <PRIMARY_ID>SRS11732163</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960745</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228443</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="353" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>193</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228430_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855638"> <IDENTIFIERS> <PRIMARY_ID>SRX13855638</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228430_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732164"> <IDENTIFIERS> <PRIMARY_ID>SRS11732164</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960746</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228430</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="365" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>148</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>75</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228389_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855639"> <IDENTIFIERS> <PRIMARY_ID>SRX13855639</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228389_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732165"> <IDENTIFIERS> <PRIMARY_ID>SRS11732165</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960747</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228389</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="351" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228445_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855640"> <IDENTIFIERS> <PRIMARY_ID>SRX13855640</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228445_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732166"> <IDENTIFIERS> <PRIMARY_ID>SRS11732166</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960748</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228445</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="373" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>140</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>71</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228434_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855641"> <IDENTIFIERS> <PRIMARY_ID>SRX13855641</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228434_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732167"> <IDENTIFIERS> <PRIMARY_ID>SRS11732167</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960749</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228434</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="361" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228431_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855642"> <IDENTIFIERS> <PRIMARY_ID>SRX13855642</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228431_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732168"> <IDENTIFIERS> <PRIMARY_ID>SRS11732168</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960750</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228431</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="369" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>90</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>46</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228365_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855643"> <IDENTIFIERS> <PRIMARY_ID>SRX13855643</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228365_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732169"> <IDENTIFIERS> <PRIMARY_ID>SRS11732169</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960751</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228365</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="363" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>196</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228507_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855644"> <IDENTIFIERS> <PRIMARY_ID>SRX13855644</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228507_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732170"> <IDENTIFIERS> <PRIMARY_ID>SRS11732170</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960752</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228507</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="339" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>175</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228370_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855645"> <IDENTIFIERS> <PRIMARY_ID>SRX13855645</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228370_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732171"> <IDENTIFIERS> <PRIMARY_ID>SRS11732171</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960753</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228370</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="378" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>73</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>42</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228503_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855646"> <IDENTIFIERS> <PRIMARY_ID>SRX13855646</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228503_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732172"> <IDENTIFIERS> <PRIMARY_ID>SRS11732172</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960754</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228503</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="369" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>66</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>34</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228516_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855647"> <IDENTIFIERS> <PRIMARY_ID>SRX13855647</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228516_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732173"> <IDENTIFIERS> <PRIMARY_ID>SRS11732173</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960755</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228516</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="352" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>142</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>73</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228508_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855648"> <IDENTIFIERS> <PRIMARY_ID>SRX13855648</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228508_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732174"> <IDENTIFIERS> <PRIMARY_ID>SRS11732174</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960756</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228508</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="328" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>188</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228429_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855649"> <IDENTIFIERS> <PRIMARY_ID>SRX13855649</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228429_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732175"> <IDENTIFIERS> <PRIMARY_ID>SRS11732175</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960757</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228429</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="378" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228441_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855650"> <IDENTIFIERS> <PRIMARY_ID>SRX13855650</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228441_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732176"> <IDENTIFIERS> <PRIMARY_ID>SRS11732176</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960758</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228441</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="360" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228512_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855651"> <IDENTIFIERS> <PRIMARY_ID>SRX13855651</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228512_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732177"> <IDENTIFIERS> <PRIMARY_ID>SRS11732177</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960759</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228512</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="327" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>154</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>67</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228363_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855652"> <IDENTIFIERS> <PRIMARY_ID>SRX13855652</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228363_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732178"> <IDENTIFIERS> <PRIMARY_ID>SRS11732178</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960760</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228363</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="354" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>180</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>80</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228442_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855653"> <IDENTIFIERS> <PRIMARY_ID>SRX13855653</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228442_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732179"> <IDENTIFIERS> <PRIMARY_ID>SRS11732179</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960761</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228442</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="352" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228384_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855654"> <IDENTIFIERS> <PRIMARY_ID>SRX13855654</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228384_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732180"> <IDENTIFIERS> <PRIMARY_ID>SRS11732180</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960762</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228384</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="321" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228399_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855655"> <IDENTIFIERS> <PRIMARY_ID>SRX13855655</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228399_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732181"> <IDENTIFIERS> <PRIMARY_ID>SRS11732181</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960763</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228399</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="377" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>82</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>46</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228374_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855656"> <IDENTIFIERS> <PRIMARY_ID>SRX13855656</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228374_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732182"> <IDENTIFIERS> <PRIMARY_ID>SRS11732182</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960764</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228374</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="368" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>76</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>39</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228515_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13855657"> <IDENTIFIERS> <PRIMARY_ID>SRX13855657</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228515_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732183"> <IDENTIFIERS> <PRIMARY_ID>SRS11732183</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960765</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228515</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="256" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>196</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>96</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228437_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855658"> <IDENTIFIERS> <PRIMARY_ID>SRX13855658</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228437_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732184"> <IDENTIFIERS> <PRIMARY_ID>SRS11732184</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960766</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228437</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="394" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228362_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855659"> <IDENTIFIERS> <PRIMARY_ID>SRX13855659</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228362_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732185"> <IDENTIFIERS> <PRIMARY_ID>SRS11732185</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960767</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228362</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="423" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224996_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855660"> <IDENTIFIERS> <PRIMARY_ID>SRX13855660</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224996_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732186"> <IDENTIFIERS> <PRIMARY_ID>SRS11732186</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960768</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224996</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="264" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225002_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855661"> <IDENTIFIERS> <PRIMARY_ID>SRX13855661</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225002_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732187"> <IDENTIFIERS> <PRIMARY_ID>SRS11732187</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960769</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225002</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="285" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>104</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>53</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224972_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855662"> <IDENTIFIERS> <PRIMARY_ID>SRX13855662</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224972_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732188"> <IDENTIFIERS> <PRIMARY_ID>SRS11732188</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960770</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224972</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="361" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>64</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>33</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225026_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855663"> <IDENTIFIERS> <PRIMARY_ID>SRX13855663</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225026_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732189"> <IDENTIFIERS> <PRIMARY_ID>SRS11732189</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960771</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225026</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="430" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>116</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>46</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225001_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855664"> <IDENTIFIERS> <PRIMARY_ID>SRX13855664</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225001_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732190"> <IDENTIFIERS> <PRIMARY_ID>SRS11732190</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960772</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225001</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="435" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224965_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855665"> <IDENTIFIERS> <PRIMARY_ID>SRX13855665</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224965_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732191"> <IDENTIFIERS> <PRIMARY_ID>SRS11732191</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960773</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224965</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="399" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>191</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>91</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225024_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13855666"> <IDENTIFIERS> <PRIMARY_ID>SRX13855666</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225024_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732192"> <IDENTIFIERS> <PRIMARY_ID>SRS11732192</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960774</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225024</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="422" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>196</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225410_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13855667"> <IDENTIFIERS> <PRIMARY_ID>SRX13855667</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225410_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732193"> <IDENTIFIERS> <PRIMARY_ID>SRS11732193</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960679</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225410</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="390" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>195</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>101</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224988_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857062"> <IDENTIFIERS> <PRIMARY_ID>SRX13857062</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224988_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732784"> <IDENTIFIERS> <PRIMARY_ID>SRS11732784</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960776</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224988</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="366" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>62</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>32</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224995_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857063"> <IDENTIFIERS> <PRIMARY_ID>SRX13857063</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224995_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732785"> <IDENTIFIERS> <PRIMARY_ID>SRS11732785</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960777</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224995</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="442" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>62</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>23</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225018_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857064"> <IDENTIFIERS> <PRIMARY_ID>SRX13857064</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225018_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732786"> <IDENTIFIERS> <PRIMARY_ID>SRS11732786</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960778</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225018</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="292" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228618_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13857065"> <IDENTIFIERS> <PRIMARY_ID>SRX13857065</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228618_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732787"> <IDENTIFIERS> <PRIMARY_ID>SRS11732787</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960779</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228618</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="298" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>116</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>59</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225405_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13857066"> <IDENTIFIERS> <PRIMARY_ID>SRX13857066</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225405_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732788"> <IDENTIFIERS> <PRIMARY_ID>SRS11732788</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960780</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225405</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="332" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>72</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>37</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225423_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13857067"> <IDENTIFIERS> <PRIMARY_ID>SRX13857067</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225423_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732789"> <IDENTIFIERS> <PRIMARY_ID>SRS11732789</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960781</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225423</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="335" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225434_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13857068"> <IDENTIFIERS> <PRIMARY_ID>SRX13857068</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225434_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732790"> <IDENTIFIERS> <PRIMARY_ID>SRS11732790</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960782</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225434</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="299" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>120</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>61</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225398_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13857069"> <IDENTIFIERS> <PRIMARY_ID>SRX13857069</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225398_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732791"> <IDENTIFIERS> <PRIMARY_ID>SRS11732791</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960783</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225398</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="326" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>98</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>50</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225428_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13857070"> <IDENTIFIERS> <PRIMARY_ID>SRX13857070</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225428_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732792"> <IDENTIFIERS> <PRIMARY_ID>SRS11732792</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960784</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225428</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="280" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>32</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>17</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225416_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13857071"> <IDENTIFIERS> <PRIMARY_ID>SRX13857071</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225416_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732793"> <IDENTIFIERS> <PRIMARY_ID>SRS11732793</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960785</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225416</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="441" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>77</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>39</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225400_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13857072"> <IDENTIFIERS> <PRIMARY_ID>SRX13857072</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225400_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732794"> <IDENTIFIERS> <PRIMARY_ID>SRS11732794</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960786</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225400</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="338" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>196</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225407_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13857073"> <IDENTIFIERS> <PRIMARY_ID>SRX13857073</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225407_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732795"> <IDENTIFIERS> <PRIMARY_ID>SRS11732795</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960787</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225407</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="398" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>177</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225442_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13857074"> <IDENTIFIERS> <PRIMARY_ID>SRX13857074</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225442_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732796"> <IDENTIFIERS> <PRIMARY_ID>SRS11732796</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960788</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225442</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="324" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>104</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>53</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225415_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13857075"> <IDENTIFIERS> <PRIMARY_ID>SRX13857075</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225415_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732797"> <IDENTIFIERS> <PRIMARY_ID>SRS11732797</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960789</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225415</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="351" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>94</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>48</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225399_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13857076"> <IDENTIFIERS> <PRIMARY_ID>SRX13857076</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225399_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732798"> <IDENTIFIERS> <PRIMARY_ID>SRS11732798</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960790</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225399</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="305" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>154</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>78</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225447_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13857077"> <IDENTIFIERS> <PRIMARY_ID>SRX13857077</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225447_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732799"> <IDENTIFIERS> <PRIMARY_ID>SRS11732799</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960791</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225447</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="332" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>70</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>36</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225424_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13857078"> <IDENTIFIERS> <PRIMARY_ID>SRX13857078</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225424_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732800"> <IDENTIFIERS> <PRIMARY_ID>SRS11732800</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960792</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225424</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="355" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>86</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>44</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225441_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13857079"> <IDENTIFIERS> <PRIMARY_ID>SRX13857079</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225441_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732801"> <IDENTIFIERS> <PRIMARY_ID>SRS11732801</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960793</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225441</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="369" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228487_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13857080"> <IDENTIFIERS> <PRIMARY_ID>SRX13857080</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228487_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732802"> <IDENTIFIERS> <PRIMARY_ID>SRS11732802</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960794</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228487</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="342" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224981_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857081"> <IDENTIFIERS> <PRIMARY_ID>SRX13857081</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224981_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732803"> <IDENTIFIERS> <PRIMARY_ID>SRS11732803</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960795</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224981</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="326" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>98</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>50</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225008_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857082"> <IDENTIFIERS> <PRIMARY_ID>SRX13857082</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225008_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732804"> <IDENTIFIERS> <PRIMARY_ID>SRS11732804</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960796</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225008</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="359" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>129</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>62</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225019_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857083"> <IDENTIFIERS> <PRIMARY_ID>SRX13857083</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225019_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732805"> <IDENTIFIERS> <PRIMARY_ID>SRS11732805</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960797</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225019</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="416" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>88</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>45</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225029_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857084"> <IDENTIFIERS> <PRIMARY_ID>SRX13857084</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225029_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732806"> <IDENTIFIERS> <PRIMARY_ID>SRS11732806</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960798</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225029</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="393" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>91</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>57</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224985_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857085"> <IDENTIFIERS> <PRIMARY_ID>SRX13857085</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224985_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732807"> <IDENTIFIERS> <PRIMARY_ID>SRS11732807</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960799</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224985</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="292" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>180</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>80</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225005_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857086"> <IDENTIFIERS> <PRIMARY_ID>SRX13857086</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225005_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732808"> <IDENTIFIERS> <PRIMARY_ID>SRS11732808</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960800</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225005</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="267" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225380_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13857087"> <IDENTIFIERS> <PRIMARY_ID>SRX13857087</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225380_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732809"> <IDENTIFIERS> <PRIMARY_ID>SRS11732809</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960801</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225380</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="374" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>78</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>40</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224984_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857088"> <IDENTIFIERS> <PRIMARY_ID>SRX13857088</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224984_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732810"> <IDENTIFIERS> <PRIMARY_ID>SRS11732810</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960802</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224984</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="321" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>60</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>44</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225030_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857089"> <IDENTIFIERS> <PRIMARY_ID>SRX13857089</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225030_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732811"> <IDENTIFIERS> <PRIMARY_ID>SRS11732811</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960803</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225030</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="333" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>156</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>79</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225020_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857090"> <IDENTIFIERS> <PRIMARY_ID>SRX13857090</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225020_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732812"> <IDENTIFIERS> <PRIMARY_ID>SRS11732812</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960804</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225020</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="355" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>82</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>42</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224983_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857091"> <IDENTIFIERS> <PRIMARY_ID>SRX13857091</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224983_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732813"> <IDENTIFIERS> <PRIMARY_ID>SRS11732813</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960805</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224983</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="243" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>72</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>37</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225043_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857092"> <IDENTIFIERS> <PRIMARY_ID>SRX13857092</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225043_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732814"> <IDENTIFIERS> <PRIMARY_ID>SRS11732814</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960806</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225043</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="313" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225025_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857093"> <IDENTIFIERS> <PRIMARY_ID>SRX13857093</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225025_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732815"> <IDENTIFIERS> <PRIMARY_ID>SRS11732815</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960807</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225025</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="429" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225011_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857094"> <IDENTIFIERS> <PRIMARY_ID>SRX13857094</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225011_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732816"> <IDENTIFIERS> <PRIMARY_ID>SRS11732816</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960808</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225011</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="305" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>104</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>53</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225038_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857095"> <IDENTIFIERS> <PRIMARY_ID>SRX13857095</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225038_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732817"> <IDENTIFIERS> <PRIMARY_ID>SRS11732817</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960809</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225038</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="369" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>201</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>101</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225028_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857096"> <IDENTIFIERS> <PRIMARY_ID>SRX13857096</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225028_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732818"> <IDENTIFIERS> <PRIMARY_ID>SRS11732818</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960810</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225028</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="247" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225044_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857097"> <IDENTIFIERS> <PRIMARY_ID>SRX13857097</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225044_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732819"> <IDENTIFIERS> <PRIMARY_ID>SRS11732819</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960811</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225044</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="388" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>136</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>81</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225016_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857098"> <IDENTIFIERS> <PRIMARY_ID>SRX13857098</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225016_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732820"> <IDENTIFIERS> <PRIMARY_ID>SRS11732820</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960812</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225016</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="388" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>90</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>46</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225017_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857099"> <IDENTIFIERS> <PRIMARY_ID>SRX13857099</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225017_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732821"> <IDENTIFIERS> <PRIMARY_ID>SRS11732821</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960813</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225017</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="316" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>83</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>42</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225037_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857100"> <IDENTIFIERS> <PRIMARY_ID>SRX13857100</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225037_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732822"> <IDENTIFIERS> <PRIMARY_ID>SRS11732822</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960814</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225037</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="392" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>156</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>79</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225006_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857101"> <IDENTIFIERS> <PRIMARY_ID>SRX13857101</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225006_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732823"> <IDENTIFIERS> <PRIMARY_ID>SRS11732823</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960815</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225006</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="387" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>68</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>35</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225027_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857102"> <IDENTIFIERS> <PRIMARY_ID>SRX13857102</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225027_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732824"> <IDENTIFIERS> <PRIMARY_ID>SRS11732824</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960816</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225027</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="318" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>94</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>48</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228490_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13857103"> <IDENTIFIERS> <PRIMARY_ID>SRX13857103</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228490_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732825"> <IDENTIFIERS> <PRIMARY_ID>SRS11732825</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960817</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228490</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="318" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>144</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>73</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228456_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13857104"> <IDENTIFIERS> <PRIMARY_ID>SRX13857104</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228456_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732826"> <IDENTIFIERS> <PRIMARY_ID>SRS11732826</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960818</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228456</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="351" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>104</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>53</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224986_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857105"> <IDENTIFIERS> <PRIMARY_ID>SRX13857105</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224986_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732827"> <IDENTIFIERS> <PRIMARY_ID>SRS11732827</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960819</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224986</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="388" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>122</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>62</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225010_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857106"> <IDENTIFIERS> <PRIMARY_ID>SRX13857106</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225010_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732828"> <IDENTIFIERS> <PRIMARY_ID>SRS11732828</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960820</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225010</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="396" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>83</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>39</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224982_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857107"> <IDENTIFIERS> <PRIMARY_ID>SRX13857107</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224982_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732829"> <IDENTIFIERS> <PRIMARY_ID>SRS11732829</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960821</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224982</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="410" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>132</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>70</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225007_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857108"> <IDENTIFIERS> <PRIMARY_ID>SRX13857108</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225007_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732830"> <IDENTIFIERS> <PRIMARY_ID>SRS11732830</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960822</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225007</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="395" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>78</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>40</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224987_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857109"> <IDENTIFIERS> <PRIMARY_ID>SRX13857109</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224987_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732831"> <IDENTIFIERS> <PRIMARY_ID>SRS11732831</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960823</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224987</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="368" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>71</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>36</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224964_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857110"> <IDENTIFIERS> <PRIMARY_ID>SRX13857110</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224964_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732832"> <IDENTIFIERS> <PRIMARY_ID>SRS11732832</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960824</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224964</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="494" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>94</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>48</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225004_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857111"> <IDENTIFIERS> <PRIMARY_ID>SRX13857111</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225004_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732833"> <IDENTIFIERS> <PRIMARY_ID>SRS11732833</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960825</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225004</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="413" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>178</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>90</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224975_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857112"> <IDENTIFIERS> <PRIMARY_ID>SRX13857112</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224975_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732834"> <IDENTIFIERS> <PRIMARY_ID>SRS11732834</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960826</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224975</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="341" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>176</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224991_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857113"> <IDENTIFIERS> <PRIMARY_ID>SRX13857113</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224991_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732835"> <IDENTIFIERS> <PRIMARY_ID>SRS11732835</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960827</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224991</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="324" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>82</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>42</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224968_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857114"> <IDENTIFIERS> <PRIMARY_ID>SRX13857114</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224968_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732836"> <IDENTIFIERS> <PRIMARY_ID>SRS11732836</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960828</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224968</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="381" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>177</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>87</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224990_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857116"> <IDENTIFIERS> <PRIMARY_ID>SRX13857116</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224990_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732837"> <IDENTIFIERS> <PRIMARY_ID>SRS11732837</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960829</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224990</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="276" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224967_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857117"> <IDENTIFIERS> <PRIMARY_ID>SRX13857117</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224967_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732838"> <IDENTIFIERS> <PRIMARY_ID>SRS11732838</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960830</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224967</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="365" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>74</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>38</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225033_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857118"> <IDENTIFIERS> <PRIMARY_ID>SRX13857118</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225033_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732839"> <IDENTIFIERS> <PRIMARY_ID>SRS11732839</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960831</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225033</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="355" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224997_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857119"> <IDENTIFIERS> <PRIMARY_ID>SRX13857119</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224997_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732840"> <IDENTIFIERS> <PRIMARY_ID>SRS11732840</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960832</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224997</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="364" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>60</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>31</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224977_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857120"> <IDENTIFIERS> <PRIMARY_ID>SRX13857120</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224977_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732841"> <IDENTIFIERS> <PRIMARY_ID>SRS11732841</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960833</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224977</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="314" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>126</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>67</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225003_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857121"> <IDENTIFIERS> <PRIMARY_ID>SRX13857121</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225003_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732842"> <IDENTIFIERS> <PRIMARY_ID>SRS11732842</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960834</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225003</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="354" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224992_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857122"> <IDENTIFIERS> <PRIMARY_ID>SRX13857122</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224992_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732843"> <IDENTIFIERS> <PRIMARY_ID>SRS11732843</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960835</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224992</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="389" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>168</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>85</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225021_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857123"> <IDENTIFIERS> <PRIMARY_ID>SRX13857123</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225021_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732844"> <IDENTIFIERS> <PRIMARY_ID>SRS11732844</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960836</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225021</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="310" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225031_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857124"> <IDENTIFIERS> <PRIMARY_ID>SRX13857124</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225031_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732845"> <IDENTIFIERS> <PRIMARY_ID>SRS11732845</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960837</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225031</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="387" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>130</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>66</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224976_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857125"> <IDENTIFIERS> <PRIMARY_ID>SRX13857125</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224976_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732846"> <IDENTIFIERS> <PRIMARY_ID>SRS11732846</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960838</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224976</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="423" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>110</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>56</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224966_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857126"> <IDENTIFIERS> <PRIMARY_ID>SRX13857126</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224966_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732847"> <IDENTIFIERS> <PRIMARY_ID>SRS11732847</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960839</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224966</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="357" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>180</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224971_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857127"> <IDENTIFIERS> <PRIMARY_ID>SRX13857127</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224971_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732848"> <IDENTIFIERS> <PRIMARY_ID>SRS11732848</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960840</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224971</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="295" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>195</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225036_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857128"> <IDENTIFIERS> <PRIMARY_ID>SRX13857128</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225036_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732849"> <IDENTIFIERS> <PRIMARY_ID>SRS11732849</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960841</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225036</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="339" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>67</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>31</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224998_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857129"> <IDENTIFIERS> <PRIMARY_ID>SRX13857129</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224998_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732850"> <IDENTIFIERS> <PRIMARY_ID>SRS11732850</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960842</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224998</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="396" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224973_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857130"> <IDENTIFIERS> <PRIMARY_ID>SRX13857130</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224973_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732851"> <IDENTIFIERS> <PRIMARY_ID>SRS11732851</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960843</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224973</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="411" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>102</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>52</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224993_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857131"> <IDENTIFIERS> <PRIMARY_ID>SRX13857131</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224993_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732852"> <IDENTIFIERS> <PRIMARY_ID>SRS11732852</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960844</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224993</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="247" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>66</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>38</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224974_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857132"> <IDENTIFIERS> <PRIMARY_ID>SRX13857132</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224974_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732853"> <IDENTIFIERS> <PRIMARY_ID>SRS11732853</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960845</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224974</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="339" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>162</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>82</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228560_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13857133"> <IDENTIFIERS> <PRIMARY_ID>SRX13857133</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228560_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732854"> <IDENTIFIERS> <PRIMARY_ID>SRS11732854</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960846</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228560</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="332" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>66</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>34</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228594_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13857134"> <IDENTIFIERS> <PRIMARY_ID>SRX13857134</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228594_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732855"> <IDENTIFIERS> <PRIMARY_ID>SRS11732855</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960847</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228594</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="368" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>66</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>26</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228590_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13857135"> <IDENTIFIERS> <PRIMARY_ID>SRX13857135</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228590_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732856"> <IDENTIFIERS> <PRIMARY_ID>SRS11732856</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960848</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228590</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="365" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228604_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13857136"> <IDENTIFIERS> <PRIMARY_ID>SRX13857136</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228604_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732857"> <IDENTIFIERS> <PRIMARY_ID>SRS11732857</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960849</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228604</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="372" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228559_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13857137"> <IDENTIFIERS> <PRIMARY_ID>SRX13857137</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228559_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732858"> <IDENTIFIERS> <PRIMARY_ID>SRS11732858</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960850</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228559</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="270" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>86</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>44</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228589_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13857138"> <IDENTIFIERS> <PRIMARY_ID>SRX13857138</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228589_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732859"> <IDENTIFIERS> <PRIMARY_ID>SRS11732859</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960851</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228589</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="348" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>89</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>31</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228592_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13857139"> <IDENTIFIERS> <PRIMARY_ID>SRX13857139</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228592_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732860"> <IDENTIFIERS> <PRIMARY_ID>SRS11732860</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960852</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228592</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="372" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>62</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>26</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225421_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13857140"> <IDENTIFIERS> <PRIMARY_ID>SRX13857140</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225421_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732861"> <IDENTIFIERS> <PRIMARY_ID>SRS11732861</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960853</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225421</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="353" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>38</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>9</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224980_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857141"> <IDENTIFIERS> <PRIMARY_ID>SRX13857141</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224980_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732862"> <IDENTIFIERS> <PRIMARY_ID>SRS11732862</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960854</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224980</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="404" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>196</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224979_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857142"> <IDENTIFIERS> <PRIMARY_ID>SRX13857142</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224979_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732863"> <IDENTIFIERS> <PRIMARY_ID>SRS11732863</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960855</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224979</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="275" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>68</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>35</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224999_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857143"> <IDENTIFIERS> <PRIMARY_ID>SRX13857143</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224999_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732864"> <IDENTIFIERS> <PRIMARY_ID>SRS11732864</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960856</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224999</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="301" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225013_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857144"> <IDENTIFIERS> <PRIMARY_ID>SRX13857144</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225013_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732865"> <IDENTIFIERS> <PRIMARY_ID>SRS11732865</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960857</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225013</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="405" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>85</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>44</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225000_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857145"> <IDENTIFIERS> <PRIMARY_ID>SRX13857145</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225000_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732866"> <IDENTIFIERS> <PRIMARY_ID>SRS11732866</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960858</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225000</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="481" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>156</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>79</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224970_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857146"> <IDENTIFIERS> <PRIMARY_ID>SRX13857146</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224970_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732867"> <IDENTIFIERS> <PRIMARY_ID>SRS11732867</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960859</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224970</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="388" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>82</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>42</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225042_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857147"> <IDENTIFIERS> <PRIMARY_ID>SRX13857147</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225042_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732868"> <IDENTIFIERS> <PRIMARY_ID>SRS11732868</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960860</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225042</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="373" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>95</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>48</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225039_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857148"> <IDENTIFIERS> <PRIMARY_ID>SRX13857148</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225039_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732869"> <IDENTIFIERS> <PRIMARY_ID>SRS11732869</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960861</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225039</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="263" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>76</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>39</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225041_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857149"> <IDENTIFIERS> <PRIMARY_ID>SRX13857149</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225041_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732870"> <IDENTIFIERS> <PRIMARY_ID>SRS11732870</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960862</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225041</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="379" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>120</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>61</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224989_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857150"> <IDENTIFIERS> <PRIMARY_ID>SRX13857150</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224989_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732871"> <IDENTIFIERS> <PRIMARY_ID>SRS11732871</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960863</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224989</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="448" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225023_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857151"> <IDENTIFIERS> <PRIMARY_ID>SRX13857151</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225023_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732872"> <IDENTIFIERS> <PRIMARY_ID>SRS11732872</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960864</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225023</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="351" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>88</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>45</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225032_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857152"> <IDENTIFIERS> <PRIMARY_ID>SRX13857152</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225032_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732873"> <IDENTIFIERS> <PRIMARY_ID>SRS11732873</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960865</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225032</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="434" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>180</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225012_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857153"> <IDENTIFIERS> <PRIMARY_ID>SRX13857153</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225012_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732874"> <IDENTIFIERS> <PRIMARY_ID>SRS11732874</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960866</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225012</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="268" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>100</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>51</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225040_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857154"> <IDENTIFIERS> <PRIMARY_ID>SRX13857154</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225040_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732875"> <IDENTIFIERS> <PRIMARY_ID>SRS11732875</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960867</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225040</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="269" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>110</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>56</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224994_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857155"> <IDENTIFIERS> <PRIMARY_ID>SRX13857155</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224994_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732876"> <IDENTIFIERS> <PRIMARY_ID>SRS11732876</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960868</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224994</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="409" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>106</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>54</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225014_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857156"> <IDENTIFIERS> <PRIMARY_ID>SRX13857156</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225014_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732877"> <IDENTIFIERS> <PRIMARY_ID>SRS11732877</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960869</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225014</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="305" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>191</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>91</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228650_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13857157"> <IDENTIFIERS> <PRIMARY_ID>SRX13857157</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228650_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732878"> <IDENTIFIERS> <PRIMARY_ID>SRS11732878</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960870</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228650</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="278" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>24</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>9</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228645_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13857158"> <IDENTIFIERS> <PRIMARY_ID>SRX13857158</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228645_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732879"> <IDENTIFIERS> <PRIMARY_ID>SRS11732879</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960871</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228645</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="362" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228646_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13857159"> <IDENTIFIERS> <PRIMARY_ID>SRX13857159</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228646_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732880"> <IDENTIFIERS> <PRIMARY_ID>SRS11732880</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960872</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228646</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="306" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>179</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>79</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228649_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13857160"> <IDENTIFIERS> <PRIMARY_ID>SRX13857160</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228649_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732881"> <IDENTIFIERS> <PRIMARY_ID>SRS11732881</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960873</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228649</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="333" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>192</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228648_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13857161"> <IDENTIFIERS> <PRIMARY_ID>SRX13857161</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228648_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732882"> <IDENTIFIERS> <PRIMARY_ID>SRS11732882</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960874</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228648</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="320" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224715_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13857162"> <IDENTIFIERS> <PRIMARY_ID>SRX13857162</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224715_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732883"> <IDENTIFIERS> <PRIMARY_ID>SRS11732883</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960875</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224715</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="318" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>188</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>88</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224714_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13857163"> <IDENTIFIERS> <PRIMARY_ID>SRX13857163</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224714_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732884"> <IDENTIFIERS> <PRIMARY_ID>SRS11732884</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960876</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224714</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="381" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>118</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>71</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228427_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13857164"> <IDENTIFIERS> <PRIMARY_ID>SRX13857164</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228427_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732885"> <IDENTIFIERS> <PRIMARY_ID>SRS11732885</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960877</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228427</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="372" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>126</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>64</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225436_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13857165"> <IDENTIFIERS> <PRIMARY_ID>SRX13857165</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225436_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11732886"> <IDENTIFIERS> <PRIMARY_ID>SRS11732886</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960775</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225436</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="290" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224700_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858518"> <IDENTIFIERS> <PRIMARY_ID>SRX13858518</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224700_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733007"> <IDENTIFIERS> <PRIMARY_ID>SRS11733007</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960879</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224700</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="337" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>180</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228226_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858519"> <IDENTIFIERS> <PRIMARY_ID>SRX13858519</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228226_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733008"> <IDENTIFIERS> <PRIMARY_ID>SRS11733008</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960880</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228226</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="352" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228189_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858520"> <IDENTIFIERS> <PRIMARY_ID>SRX13858520</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228189_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733009"> <IDENTIFIERS> <PRIMARY_ID>SRS11733009</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960881</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228189</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="359" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>82</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>42</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228235_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858521"> <IDENTIFIERS> <PRIMARY_ID>SRX13858521</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228235_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733010"> <IDENTIFIERS> <PRIMARY_ID>SRS11733010</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960882</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228235</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="365" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>30</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>15</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228167_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858522"> <IDENTIFIERS> <PRIMARY_ID>SRX13858522</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228167_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733011"> <IDENTIFIERS> <PRIMARY_ID>SRS11733011</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960883</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228167</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="382" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>186</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>86</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228246_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858523"> <IDENTIFIERS> <PRIMARY_ID>SRX13858523</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228246_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733012"> <IDENTIFIERS> <PRIMARY_ID>SRS11733012</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960884</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228246</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="359" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>200</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228171_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858524"> <IDENTIFIERS> <PRIMARY_ID>SRX13858524</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228171_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733013"> <IDENTIFIERS> <PRIMARY_ID>SRS11733013</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960885</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228171</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="361" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>78</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>40</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228225_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858525"> <IDENTIFIERS> <PRIMARY_ID>SRX13858525</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228225_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733014"> <IDENTIFIERS> <PRIMARY_ID>SRS11733014</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960886</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228225</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="327" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>166</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>84</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228208_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858526"> <IDENTIFIERS> <PRIMARY_ID>SRX13858526</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228208_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733015"> <IDENTIFIERS> <PRIMARY_ID>SRS11733015</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960887</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228208</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="396" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>201</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>101</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228242_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858527"> <IDENTIFIERS> <PRIMARY_ID>SRX13858527</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228242_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733016"> <IDENTIFIERS> <PRIMARY_ID>SRS11733016</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960888</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228242</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="300" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>72</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>37</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228224_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858531"> <IDENTIFIERS> <PRIMARY_ID>SRX13858531</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228224_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733020"> <IDENTIFIERS> <PRIMARY_ID>SRS11733020</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960889</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228224</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="362" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>175</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>101</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228180_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858534"> <IDENTIFIERS> <PRIMARY_ID>SRX13858534</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228180_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733023"> <IDENTIFIERS> <PRIMARY_ID>SRS11733023</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960890</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228180</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="340" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>157</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>57</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228178_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858535"> <IDENTIFIERS> <PRIMARY_ID>SRX13858535</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228178_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733024"> <IDENTIFIERS> <PRIMARY_ID>SRS11733024</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960891</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228178</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="330" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>66</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>23</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228182_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858536"> <IDENTIFIERS> <PRIMARY_ID>SRX13858536</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228182_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733025"> <IDENTIFIERS> <PRIMARY_ID>SRS11733025</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960892</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228182</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="295" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228247_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858537"> <IDENTIFIERS> <PRIMARY_ID>SRX13858537</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228247_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733026"> <IDENTIFIERS> <PRIMARY_ID>SRS11733026</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960893</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228247</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="333" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>138</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>70</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228291_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858538"> <IDENTIFIERS> <PRIMARY_ID>SRX13858538</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228291_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733027"> <IDENTIFIERS> <PRIMARY_ID>SRS11733027</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960894</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228291</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="316" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>133</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>70</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228287_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858539"> <IDENTIFIERS> <PRIMARY_ID>SRX13858539</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228287_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733028"> <IDENTIFIERS> <PRIMARY_ID>SRS11733028</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960895</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228287</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="321" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228296_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858540"> <IDENTIFIERS> <PRIMARY_ID>SRX13858540</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228296_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733029"> <IDENTIFIERS> <PRIMARY_ID>SRS11733029</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960896</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228296</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="397" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>118</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>60</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228286_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858541"> <IDENTIFIERS> <PRIMARY_ID>SRX13858541</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228286_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733030"> <IDENTIFIERS> <PRIMARY_ID>SRS11733030</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960897</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228286</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="335" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>142</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>72</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228285_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858542"> <IDENTIFIERS> <PRIMARY_ID>SRX13858542</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228285_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733031"> <IDENTIFIERS> <PRIMARY_ID>SRS11733031</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960898</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228285</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="349" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>60</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>31</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228288_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858544"> <IDENTIFIERS> <PRIMARY_ID>SRX13858544</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228288_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733033"> <IDENTIFIERS> <PRIMARY_ID>SRS11733033</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960899</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228288</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="340" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228289_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858546"> <IDENTIFIERS> <PRIMARY_ID>SRX13858546</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228289_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733035"> <IDENTIFIERS> <PRIMARY_ID>SRS11733035</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960900</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228289</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="358" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>167</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>67</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224713_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858547"> <IDENTIFIERS> <PRIMARY_ID>SRX13858547</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224713_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733036"> <IDENTIFIERS> <PRIMARY_ID>SRS11733036</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960901</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224713</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="375" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>181</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>81</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224756_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858548"> <IDENTIFIERS> <PRIMARY_ID>SRX13858548</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224756_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733037"> <IDENTIFIERS> <PRIMARY_ID>SRS11733037</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960902</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224756</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="339" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>140</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>71</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224707_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858549"> <IDENTIFIERS> <PRIMARY_ID>SRX13858549</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224707_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733038"> <IDENTIFIERS> <PRIMARY_ID>SRS11733038</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960903</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224707</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="321" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>108</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>55</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228294_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858550"> <IDENTIFIERS> <PRIMARY_ID>SRX13858550</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228294_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733039"> <IDENTIFIERS> <PRIMARY_ID>SRS11733039</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960904</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228294</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="331" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228295_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858551"> <IDENTIFIERS> <PRIMARY_ID>SRX13858551</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228295_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733040"> <IDENTIFIERS> <PRIMARY_ID>SRS11733040</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960905</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228295</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="378" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228245_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858552"> <IDENTIFIERS> <PRIMARY_ID>SRX13858552</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228245_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733041"> <IDENTIFIERS> <PRIMARY_ID>SRS11733041</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960906</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228245</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="347" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>180</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>80</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228248_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858553"> <IDENTIFIERS> <PRIMARY_ID>SRX13858553</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228248_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733042"> <IDENTIFIERS> <PRIMARY_ID>SRS11733042</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960907</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228248</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="352" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>175</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228185_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858554"> <IDENTIFIERS> <PRIMARY_ID>SRX13858554</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228185_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733043"> <IDENTIFIERS> <PRIMARY_ID>SRS11733043</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960908</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228185</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="296" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>79</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>40</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228243_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858555"> <IDENTIFIERS> <PRIMARY_ID>SRX13858555</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228243_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733044"> <IDENTIFIERS> <PRIMARY_ID>SRS11733044</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960909</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228243</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="389" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>112</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>57</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228417_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13858556"> <IDENTIFIERS> <PRIMARY_ID>SRX13858556</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228417_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733045"> <IDENTIFIERS> <PRIMARY_ID>SRS11733045</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960910</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228417</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="396" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>138</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>73</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228181_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858557"> <IDENTIFIERS> <PRIMARY_ID>SRX13858557</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228181_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733046"> <IDENTIFIERS> <PRIMARY_ID>SRS11733046</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960911</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228181</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="323" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228239_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858558"> <IDENTIFIERS> <PRIMARY_ID>SRX13858558</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228239_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733047"> <IDENTIFIERS> <PRIMARY_ID>SRS11733047</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960912</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228239</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="334" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228241_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858559"> <IDENTIFIERS> <PRIMARY_ID>SRX13858559</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228241_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733048"> <IDENTIFIERS> <PRIMARY_ID>SRS11733048</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960913</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228241</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="335" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>93</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>51</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228240_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858560"> <IDENTIFIERS> <PRIMARY_ID>SRX13858560</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228240_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733049"> <IDENTIFIERS> <PRIMARY_ID>SRS11733049</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960914</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228240</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="365" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>152</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>77</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228244_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858561"> <IDENTIFIERS> <PRIMARY_ID>SRX13858561</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228244_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733050"> <IDENTIFIERS> <PRIMARY_ID>SRS11733050</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960915</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228244</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="343" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>174</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>96</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228179_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13858562"> <IDENTIFIERS> <PRIMARY_ID>SRX13858562</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228179_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733051"> <IDENTIFIERS> <PRIMARY_ID>SRS11733051</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960916</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228179</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="320" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>112</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>57</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224706_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858563"> <IDENTIFIERS> <PRIMARY_ID>SRX13858563</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224706_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733052"> <IDENTIFIERS> <PRIMARY_ID>SRS11733052</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960917</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224706</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="394" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228293_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858564"> <IDENTIFIERS> <PRIMARY_ID>SRX13858564</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228293_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733053"> <IDENTIFIERS> <PRIMARY_ID>SRS11733053</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960918</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228293</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="328" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>148</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>72</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224701_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858565"> <IDENTIFIERS> <PRIMARY_ID>SRX13858565</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224701_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733054"> <IDENTIFIERS> <PRIMARY_ID>SRS11733054</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960919</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224701</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="318" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224705_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858566"> <IDENTIFIERS> <PRIMARY_ID>SRX13858566</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224705_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733055"> <IDENTIFIERS> <PRIMARY_ID>SRS11733055</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960920</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224705</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="319" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224757_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858567"> <IDENTIFIERS> <PRIMARY_ID>SRX13858567</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224757_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733056"> <IDENTIFIERS> <PRIMARY_ID>SRS11733056</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960921</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224757</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="389" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>186</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228340_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858568"> <IDENTIFIERS> <PRIMARY_ID>SRX13858568</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228340_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733057"> <IDENTIFIERS> <PRIMARY_ID>SRS11733057</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960922</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228340</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="355" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224730_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858769"> <IDENTIFIERS> <PRIMARY_ID>SRX13858769</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224730_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733258"> <IDENTIFIERS> <PRIMARY_ID>SRS11733258</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960923</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224730</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="315" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>178</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>78</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228426_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13858770"> <IDENTIFIERS> <PRIMARY_ID>SRX13858770</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228426_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733259"> <IDENTIFIERS> <PRIMARY_ID>SRS11733259</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960878</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228426</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="329" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>124</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>63</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224734_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858771"> <IDENTIFIERS> <PRIMARY_ID>SRX13858771</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224734_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733260"> <IDENTIFIERS> <PRIMARY_ID>SRS11733260</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960924</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224734</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="305" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>178</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>78</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224742_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858772"> <IDENTIFIERS> <PRIMARY_ID>SRX13858772</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224742_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733261"> <IDENTIFIERS> <PRIMARY_ID>SRS11733261</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960925</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224742</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="343" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>128</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>65</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224729_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858773"> <IDENTIFIERS> <PRIMARY_ID>SRX13858773</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224729_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733262"> <IDENTIFIERS> <PRIMARY_ID>SRS11733262</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960926</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224729</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="330" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>179</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>85</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224765_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858774"> <IDENTIFIERS> <PRIMARY_ID>SRX13858774</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224765_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733263"> <IDENTIFIERS> <PRIMARY_ID>SRS11733263</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960927</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224765</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="297" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>180</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>80</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224733_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858775"> <IDENTIFIERS> <PRIMARY_ID>SRX13858775</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224733_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733264"> <IDENTIFIERS> <PRIMARY_ID>SRS11733264</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960928</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224733</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="315" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224739_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858776"> <IDENTIFIERS> <PRIMARY_ID>SRX13858776</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224739_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733265"> <IDENTIFIERS> <PRIMARY_ID>SRS11733265</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960929</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224739</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="356" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>154</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>78</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224737_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858777"> <IDENTIFIERS> <PRIMARY_ID>SRX13858777</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224737_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733266"> <IDENTIFIERS> <PRIMARY_ID>SRS11733266</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960930</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224737</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="320" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>138</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>67</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224736_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858778"> <IDENTIFIERS> <PRIMARY_ID>SRX13858778</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224736_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733267"> <IDENTIFIERS> <PRIMARY_ID>SRS11733267</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960931</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224736</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="332" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>128</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>65</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224768_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858779"> <IDENTIFIERS> <PRIMARY_ID>SRX13858779</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224768_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733268"> <IDENTIFIERS> <PRIMARY_ID>SRS11733268</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960932</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224768</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="315" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>77</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>39</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224719_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858780"> <IDENTIFIERS> <PRIMARY_ID>SRX13858780</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224719_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733269"> <IDENTIFIERS> <PRIMARY_ID>SRS11733269</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960933</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224719</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="312" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224766_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858781"> <IDENTIFIERS> <PRIMARY_ID>SRX13858781</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224766_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733270"> <IDENTIFIERS> <PRIMARY_ID>SRS11733270</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960934</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224766</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="345" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224718_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858782"> <IDENTIFIERS> <PRIMARY_ID>SRX13858782</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224718_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733271"> <IDENTIFIERS> <PRIMARY_ID>SRS11733271</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960935</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224718</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="300" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>180</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228306_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858783"> <IDENTIFIERS> <PRIMARY_ID>SRX13858783</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228306_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733273"> <IDENTIFIERS> <PRIMARY_ID>SRS11733273</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960936</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228306</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="359" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228300_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858784"> <IDENTIFIERS> <PRIMARY_ID>SRX13858784</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228300_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733272"> <IDENTIFIERS> <PRIMARY_ID>SRS11733272</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960937</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228300</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="368" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>94</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>48</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228334_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858785"> <IDENTIFIERS> <PRIMARY_ID>SRX13858785</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228334_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733275"> <IDENTIFIERS> <PRIMARY_ID>SRS11733275</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960938</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228334</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="329" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>84</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>43</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228351_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858786"> <IDENTIFIERS> <PRIMARY_ID>SRX13858786</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228351_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733274"> <IDENTIFIERS> <PRIMARY_ID>SRS11733274</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960939</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228351</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="361" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>140</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>71</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228292_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858787"> <IDENTIFIERS> <PRIMARY_ID>SRX13858787</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228292_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733276"> <IDENTIFIERS> <PRIMARY_ID>SRS11733276</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960940</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228292</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="358" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228342_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858788"> <IDENTIFIERS> <PRIMARY_ID>SRX13858788</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228342_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733277"> <IDENTIFIERS> <PRIMARY_ID>SRS11733277</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960941</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228342</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="343" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>59</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>36</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228350_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858789"> <IDENTIFIERS> <PRIMARY_ID>SRX13858789</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228350_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733278"> <IDENTIFIERS> <PRIMARY_ID>SRS11733278</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960942</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228350</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="341" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>114</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>58</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228337_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858792"> <IDENTIFIERS> <PRIMARY_ID>SRX13858792</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228337_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733281"> <IDENTIFIERS> <PRIMARY_ID>SRS11733281</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960943</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228337</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="366" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228284_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858799"> <IDENTIFIERS> <PRIMARY_ID>SRX13858799</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228284_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733288"> <IDENTIFIERS> <PRIMARY_ID>SRS11733288</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960944</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228284</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="371" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>137</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>63</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228290_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858800"> <IDENTIFIERS> <PRIMARY_ID>SRX13858800</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228290_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733289"> <IDENTIFIERS> <PRIMARY_ID>SRS11733289</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960945</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228290</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="357" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>194</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>94</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228332_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858801"> <IDENTIFIERS> <PRIMARY_ID>SRX13858801</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228332_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733290"> <IDENTIFIERS> <PRIMARY_ID>SRS11733290</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960946</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228332</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="330" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228344_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858802"> <IDENTIFIERS> <PRIMARY_ID>SRX13858802</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228344_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733291"> <IDENTIFIERS> <PRIMARY_ID>SRS11733291</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960947</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228344</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="391" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>162</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>82</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228343_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858803"> <IDENTIFIERS> <PRIMARY_ID>SRX13858803</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228343_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733292"> <IDENTIFIERS> <PRIMARY_ID>SRS11733292</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960948</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228343</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="376" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>101</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>54</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228339_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858804"> <IDENTIFIERS> <PRIMARY_ID>SRX13858804</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228339_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733293"> <IDENTIFIERS> <PRIMARY_ID>SRS11733293</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960949</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228339</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="364" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>128</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>65</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228333_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858805"> <IDENTIFIERS> <PRIMARY_ID>SRX13858805</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228333_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733294"> <IDENTIFIERS> <PRIMARY_ID>SRS11733294</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960950</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228333</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="372" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>110</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>55</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228335_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858806"> <IDENTIFIERS> <PRIMARY_ID>SRX13858806</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228335_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733295"> <IDENTIFIERS> <PRIMARY_ID>SRS11733295</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960951</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228335</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="374" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228338_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858814"> <IDENTIFIERS> <PRIMARY_ID>SRX13858814</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228338_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733303"> <IDENTIFIERS> <PRIMARY_ID>SRS11733303</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960952</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228338</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="350" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>150</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>76</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228298_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858818"> <IDENTIFIERS> <PRIMARY_ID>SRX13858818</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228298_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733307"> <IDENTIFIERS> <PRIMARY_ID>SRS11733307</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960953</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228298</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="340" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>161</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>75</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228299_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858819"> <IDENTIFIERS> <PRIMARY_ID>SRX13858819</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228299_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733308"> <IDENTIFIERS> <PRIMARY_ID>SRS11733308</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960954</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228299</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="316" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228352_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13858820"> <IDENTIFIERS> <PRIMARY_ID>SRX13858820</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228352_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733309"> <IDENTIFIERS> <PRIMARY_ID>SRS11733309</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960955</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228352</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="386" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>180</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>80</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228345_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859314"> <IDENTIFIERS> <PRIMARY_ID>SRX13859314</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228345_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733551"> <IDENTIFIERS> <PRIMARY_ID>SRS11733551</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960957</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228345</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="387" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>143</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>60</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228307_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859315"> <IDENTIFIERS> <PRIMARY_ID>SRX13859315</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228307_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733552"> <IDENTIFIERS> <PRIMARY_ID>SRS11733552</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960958</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228307</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="346" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>124</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>63</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224703_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859316"> <IDENTIFIERS> <PRIMARY_ID>SRX13859316</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224703_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733553"> <IDENTIFIERS> <PRIMARY_ID>SRS11733553</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960959</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224703</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="372" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>99</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>42</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228341_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859317"> <IDENTIFIERS> <PRIMARY_ID>SRX13859317</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228341_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733554"> <IDENTIFIERS> <PRIMARY_ID>SRS11733554</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960960</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228341</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="393" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>186</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228346_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859318"> <IDENTIFIERS> <PRIMARY_ID>SRX13859318</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228346_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733555"> <IDENTIFIERS> <PRIMARY_ID>SRS11733555</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960961</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228346</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="357" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>173</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224704_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859319"> <IDENTIFIERS> <PRIMARY_ID>SRX13859319</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224704_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733556"> <IDENTIFIERS> <PRIMARY_ID>SRS11733556</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960962</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224704</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="331" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>92</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>47</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224702_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859320"> <IDENTIFIERS> <PRIMARY_ID>SRX13859320</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224702_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733557"> <IDENTIFIERS> <PRIMARY_ID>SRS11733557</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960963</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224702</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="361" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224769_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859321"> <IDENTIFIERS> <PRIMARY_ID>SRX13859321</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224769_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733558"> <IDENTIFIERS> <PRIMARY_ID>SRS11733558</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960964</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224769</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="338" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>176</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>89</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224767_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859322"> <IDENTIFIERS> <PRIMARY_ID>SRX13859322</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224767_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733559"> <IDENTIFIERS> <PRIMARY_ID>SRS11733559</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960965</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224767</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="318" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>135</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>81</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224731_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859324"> <IDENTIFIERS> <PRIMARY_ID>SRX13859324</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224731_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733561"> <IDENTIFIERS> <PRIMARY_ID>SRS11733561</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960966</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224731</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="342" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224735_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859325"> <IDENTIFIERS> <PRIMARY_ID>SRX13859325</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224735_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733562"> <IDENTIFIERS> <PRIMARY_ID>SRS11733562</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960967</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224735</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="332" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>154</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>78</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224741_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859326"> <IDENTIFIERS> <PRIMARY_ID>SRX13859326</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224741_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733563"> <IDENTIFIERS> <PRIMARY_ID>SRS11733563</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960968</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224741</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="318" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>200</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224740_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859327"> <IDENTIFIERS> <PRIMARY_ID>SRX13859327</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224740_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733564"> <IDENTIFIERS> <PRIMARY_ID>SRS11733564</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960969</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224740</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="364" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224770_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859328"> <IDENTIFIERS> <PRIMARY_ID>SRX13859328</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224770_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733565"> <IDENTIFIERS> <PRIMARY_ID>SRS11733565</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960970</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224770</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="313" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224743_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859329"> <IDENTIFIERS> <PRIMARY_ID>SRX13859329</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224743_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733566"> <IDENTIFIERS> <PRIMARY_ID>SRS11733566</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960971</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224743</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="310" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224732_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859330"> <IDENTIFIERS> <PRIMARY_ID>SRX13859330</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224732_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733567"> <IDENTIFIERS> <PRIMARY_ID>SRS11733567</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960972</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224732</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="336" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>122</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>62</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224720_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859331"> <IDENTIFIERS> <PRIMARY_ID>SRX13859331</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224720_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733568"> <IDENTIFIERS> <PRIMARY_ID>SRS11733568</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960973</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224720</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="350" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>128</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>65</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224759_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859332"> <IDENTIFIERS> <PRIMARY_ID>SRX13859332</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224759_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733569"> <IDENTIFIERS> <PRIMARY_ID>SRS11733569</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960974</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224759</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="330" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>63</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>36</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224764_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859333"> <IDENTIFIERS> <PRIMARY_ID>SRX13859333</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224764_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733570"> <IDENTIFIERS> <PRIMARY_ID>SRS11733570</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960975</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224764</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="376" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>88</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>45</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224738_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859334"> <IDENTIFIERS> <PRIMARY_ID>SRX13859334</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224738_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733571"> <IDENTIFIERS> <PRIMARY_ID>SRS11733571</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960976</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224738</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="275" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224699_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859335"> <IDENTIFIERS> <PRIMARY_ID>SRX13859335</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224699_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733572"> <IDENTIFIERS> <PRIMARY_ID>SRS11733572</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960977</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224699</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="302" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>136</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>62</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224758_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859336"> <IDENTIFIERS> <PRIMARY_ID>SRX13859336</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224758_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733573"> <IDENTIFIERS> <PRIMARY_ID>SRS11733573</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960978</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224758</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="327" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>78</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>40</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224755_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859337"> <IDENTIFIERS> <PRIMARY_ID>SRX13859337</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224755_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733574"> <IDENTIFIERS> <PRIMARY_ID>SRS11733574</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960979</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224755</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="351" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>110</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>56</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228184_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859338"> <IDENTIFIERS> <PRIMARY_ID>SRX13859338</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228184_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733575"> <IDENTIFIERS> <PRIMARY_ID>SRS11733575</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960980</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228184</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="362" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>98</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>50</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228251_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859339"> <IDENTIFIERS> <PRIMARY_ID>SRX13859339</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228251_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733576"> <IDENTIFIERS> <PRIMARY_ID>SRS11733576</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960981</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228251</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="323" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>40</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>33</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228425_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13859340"> <IDENTIFIERS> <PRIMARY_ID>SRX13859340</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228425_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733577"> <IDENTIFIERS> <PRIMARY_ID>SRS11733577</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960982</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228425</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="369" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225052_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13859341"> <IDENTIFIERS> <PRIMARY_ID>SRX13859341</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225052_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733578"> <IDENTIFIERS> <PRIMARY_ID>SRS11733578</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960983</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225052</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="460" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>195</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225053_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13859342"> <IDENTIFIERS> <PRIMARY_ID>SRX13859342</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225053_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733579"> <IDENTIFIERS> <PRIMARY_ID>SRS11733579</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960984</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225053</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="355" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>60</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>34</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225048_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13859343"> <IDENTIFIERS> <PRIMARY_ID>SRX13859343</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225048_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733580"> <IDENTIFIERS> <PRIMARY_ID>SRS11733580</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960985</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225048</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="330" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>62</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>32</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225046_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13859344"> <IDENTIFIERS> <PRIMARY_ID>SRX13859344</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225046_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733581"> <IDENTIFIERS> <PRIMARY_ID>SRS11733581</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960986</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225046</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="380" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>125</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>76</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225056_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13859345"> <IDENTIFIERS> <PRIMARY_ID>SRX13859345</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225056_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733582"> <IDENTIFIERS> <PRIMARY_ID>SRS11733582</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960987</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225056</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="402" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>126</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>64</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225050_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13859346"> <IDENTIFIERS> <PRIMARY_ID>SRX13859346</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225050_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733583"> <IDENTIFIERS> <PRIMARY_ID>SRS11733583</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960988</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225050</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="367" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>126</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>61</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225367_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859347"> <IDENTIFIERS> <PRIMARY_ID>SRX13859347</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225367_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733584"> <IDENTIFIERS> <PRIMARY_ID>SRS11733584</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960989</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225367</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="281" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>136</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>69</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225045_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13859348"> <IDENTIFIERS> <PRIMARY_ID>SRX13859348</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225045_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733585"> <IDENTIFIERS> <PRIMARY_ID>SRS11733585</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960990</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225045</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="461" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>176</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>89</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225357_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859349"> <IDENTIFIERS> <PRIMARY_ID>SRX13859349</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225357_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733586"> <IDENTIFIERS> <PRIMARY_ID>SRS11733586</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960991</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225357</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="323" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>94</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>48</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225384_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859350"> <IDENTIFIERS> <PRIMARY_ID>SRX13859350</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225384_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733587"> <IDENTIFIERS> <PRIMARY_ID>SRS11733587</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960992</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225384</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="339" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>98</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>49</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225377_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859351"> <IDENTIFIERS> <PRIMARY_ID>SRX13859351</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225377_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733588"> <IDENTIFIERS> <PRIMARY_ID>SRS11733588</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960993</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225377</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="305" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>74</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>38</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225369_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859352"> <IDENTIFIERS> <PRIMARY_ID>SRX13859352</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225369_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733589"> <IDENTIFIERS> <PRIMARY_ID>SRS11733589</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960994</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225369</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="350" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>55</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>13</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225393_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859353"> <IDENTIFIERS> <PRIMARY_ID>SRX13859353</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225393_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733590"> <IDENTIFIERS> <PRIMARY_ID>SRS11733590</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960995</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225393</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="308" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>113</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>62</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225358_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859354"> <IDENTIFIERS> <PRIMARY_ID>SRX13859354</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225358_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733591"> <IDENTIFIERS> <PRIMARY_ID>SRS11733591</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960996</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225358</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="350" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>130</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>66</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225389_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859355"> <IDENTIFIERS> <PRIMARY_ID>SRX13859355</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225389_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733592"> <IDENTIFIERS> <PRIMARY_ID>SRS11733592</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960997</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225389</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="312" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>201</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>101</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225360_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859356"> <IDENTIFIERS> <PRIMARY_ID>SRX13859356</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225360_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733593"> <IDENTIFIERS> <PRIMARY_ID>SRS11733593</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960998</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225360</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="341" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>66</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>34</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225375_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859367"> <IDENTIFIERS> <PRIMARY_ID>SRX13859367</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225375_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733604"> <IDENTIFIERS> <PRIMARY_ID>SRS11733604</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960999</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225375</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="362" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>84</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>40</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225383_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859368"> <IDENTIFIERS> <PRIMARY_ID>SRX13859368</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225383_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733605"> <IDENTIFIERS> <PRIMARY_ID>SRS11733605</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961000</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225383</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="310" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>140</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>71</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225359_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859369"> <IDENTIFIERS> <PRIMARY_ID>SRX13859369</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225359_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733606"> <IDENTIFIERS> <PRIMARY_ID>SRS11733606</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961001</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225359</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="353" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225394_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859370"> <IDENTIFIERS> <PRIMARY_ID>SRX13859370</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225394_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733607"> <IDENTIFIERS> <PRIMARY_ID>SRS11733607</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961002</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225394</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="343" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>74</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>50</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225376_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859371"> <IDENTIFIERS> <PRIMARY_ID>SRX13859371</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225376_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733608"> <IDENTIFIERS> <PRIMARY_ID>SRS11733608</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961003</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225376</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="321" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225368_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859372"> <IDENTIFIERS> <PRIMARY_ID>SRX13859372</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225368_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733609"> <IDENTIFIERS> <PRIMARY_ID>SRS11733609</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961004</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225368</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="331" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>116</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>59</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225055_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13859373"> <IDENTIFIERS> <PRIMARY_ID>SRX13859373</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225055_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733610"> <IDENTIFIERS> <PRIMARY_ID>SRS11733610</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961005</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225055</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="259" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>92</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>47</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225370_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859374"> <IDENTIFIERS> <PRIMARY_ID>SRX13859374</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225370_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733611"> <IDENTIFIERS> <PRIMARY_ID>SRS11733611</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961006</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225370</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="306" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225386_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859375"> <IDENTIFIERS> <PRIMARY_ID>SRX13859375</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225386_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733612"> <IDENTIFIERS> <PRIMARY_ID>SRS11733612</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961007</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225386</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="320" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>133</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>68</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225051_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13859376"> <IDENTIFIERS> <PRIMARY_ID>SRX13859376</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225051_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733613"> <IDENTIFIERS> <PRIMARY_ID>SRS11733613</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961008</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225051</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="294" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>128</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>65</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225054_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13859377"> <IDENTIFIERS> <PRIMARY_ID>SRX13859377</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225054_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733614"> <IDENTIFIERS> <PRIMARY_ID>SRS11733614</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961009</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225054</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="384" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>174</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>96</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225382_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859379"> <IDENTIFIERS> <PRIMARY_ID>SRX13859379</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225382_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733616"> <IDENTIFIERS> <PRIMARY_ID>SRS11733616</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961010</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225382</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="389" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>83</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>32</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225366_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859383"> <IDENTIFIERS> <PRIMARY_ID>SRX13859383</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225366_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733620"> <IDENTIFIERS> <PRIMARY_ID>SRS11733620</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961011</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225366</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="334" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>64</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>33</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225373_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859384"> <IDENTIFIERS> <PRIMARY_ID>SRX13859384</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225373_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733621"> <IDENTIFIERS> <PRIMARY_ID>SRS11733621</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961012</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225373</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="327" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>153</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>65</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225387_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859385"> <IDENTIFIERS> <PRIMARY_ID>SRX13859385</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225387_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733622"> <IDENTIFIERS> <PRIMARY_ID>SRS11733622</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961013</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225387</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="424" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>37</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>5</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225378_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859386"> <IDENTIFIERS> <PRIMARY_ID>SRX13859386</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225378_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733623"> <IDENTIFIERS> <PRIMARY_ID>SRS11733623</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961014</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225378</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="290" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>142</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>72</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225362_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859387"> <IDENTIFIERS> <PRIMARY_ID>SRX13859387</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225362_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733624"> <IDENTIFIERS> <PRIMARY_ID>SRS11733624</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961015</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225362</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="313" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>172</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>84</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225385_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859388"> <IDENTIFIERS> <PRIMARY_ID>SRX13859388</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225385_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733625"> <IDENTIFIERS> <PRIMARY_ID>SRS11733625</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961016</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225385</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="344" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>152</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>77</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228297_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859389"> <IDENTIFIERS> <PRIMARY_ID>SRX13859389</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228297_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11733626"> <IDENTIFIERS> <PRIMARY_ID>SRS11733626</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24960956</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228297</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="344" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>95</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>45</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225379_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859942"> <IDENTIFIERS> <PRIMARY_ID>SRX13859942</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225379_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734179"> <IDENTIFIERS> <PRIMARY_ID>SRS11734179</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961018</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225379</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="335" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225371_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859943"> <IDENTIFIERS> <PRIMARY_ID>SRX13859943</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225371_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734180"> <IDENTIFIERS> <PRIMARY_ID>SRS11734180</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961019</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225371</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="305" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>190</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225374_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859944"> <IDENTIFIERS> <PRIMARY_ID>SRX13859944</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225374_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734181"> <IDENTIFIERS> <PRIMARY_ID>SRS11734181</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961020</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225374</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="328" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>44</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>32</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225392_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859945"> <IDENTIFIERS> <PRIMARY_ID>SRX13859945</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225392_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734182"> <IDENTIFIERS> <PRIMARY_ID>SRS11734182</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961021</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225392</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="342" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>174</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225388_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859946"> <IDENTIFIERS> <PRIMARY_ID>SRX13859946</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225388_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734183"> <IDENTIFIERS> <PRIMARY_ID>SRS11734183</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961022</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225388</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="351" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>54</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>31</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225363_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859947"> <IDENTIFIERS> <PRIMARY_ID>SRX13859947</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225363_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734184"> <IDENTIFIERS> <PRIMARY_ID>SRS11734184</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961023</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225363</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="317" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>77</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>49</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225449_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859948"> <IDENTIFIERS> <PRIMARY_ID>SRX13859948</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225449_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734185"> <IDENTIFIERS> <PRIMARY_ID>SRS11734185</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961024</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225449</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="368" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225365_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859949"> <IDENTIFIERS> <PRIMARY_ID>SRX13859949</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225365_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734187"> <IDENTIFIERS> <PRIMARY_ID>SRS11734187</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961025</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225365</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="343" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>178</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>78</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225390_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859950"> <IDENTIFIERS> <PRIMARY_ID>SRX13859950</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225390_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734186"> <IDENTIFIERS> <PRIMARY_ID>SRS11734186</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961026</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225390</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="350" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>132</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>67</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225391_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859951"> <IDENTIFIERS> <PRIMARY_ID>SRX13859951</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225391_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734188"> <IDENTIFIERS> <PRIMARY_ID>SRS11734188</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961027</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225391</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="358" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225364_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859952"> <IDENTIFIERS> <PRIMARY_ID>SRX13859952</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225364_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734189"> <IDENTIFIERS> <PRIMARY_ID>SRS11734189</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961028</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225364</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="299" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>86</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>44</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225372_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13859953"> <IDENTIFIERS> <PRIMARY_ID>SRX13859953</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225372_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734190"> <IDENTIFIERS> <PRIMARY_ID>SRS11734190</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961029</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225372</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="327" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>158</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>80</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224687_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859954"> <IDENTIFIERS> <PRIMARY_ID>SRX13859954</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224687_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734191"> <IDENTIFIERS> <PRIMARY_ID>SRS11734191</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961030</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224687</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="353" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>96</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>49</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224694_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859955"> <IDENTIFIERS> <PRIMARY_ID>SRX13859955</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224694_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734192"> <IDENTIFIERS> <PRIMARY_ID>SRS11734192</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961031</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224694</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="390" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>78</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>29</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224696_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859956"> <IDENTIFIERS> <PRIMARY_ID>SRX13859956</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224696_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734193"> <IDENTIFIERS> <PRIMARY_ID>SRS11734193</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961032</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224696</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="361" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>166</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>84</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224688_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859957"> <IDENTIFIERS> <PRIMARY_ID>SRX13859957</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224688_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734194"> <IDENTIFIERS> <PRIMARY_ID>SRS11734194</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961033</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224688</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="377" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>179</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>79</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224685_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859958"> <IDENTIFIERS> <PRIMARY_ID>SRX13859958</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224685_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734195"> <IDENTIFIERS> <PRIMARY_ID>SRS11734195</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961034</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224685</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="412" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>137</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>69</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224679_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859959"> <IDENTIFIERS> <PRIMARY_ID>SRX13859959</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224679_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734196"> <IDENTIFIERS> <PRIMARY_ID>SRS11734196</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961035</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224679</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="320" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>110</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>56</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224686_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859960"> <IDENTIFIERS> <PRIMARY_ID>SRX13859960</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224686_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734197"> <IDENTIFIERS> <PRIMARY_ID>SRS11734197</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961036</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224686</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="324" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>88</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>46</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224695_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859961"> <IDENTIFIERS> <PRIMARY_ID>SRX13859961</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224695_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734198"> <IDENTIFIERS> <PRIMARY_ID>SRS11734198</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961037</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224695</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="303" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>166</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>81</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224689_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859962"> <IDENTIFIERS> <PRIMARY_ID>SRX13859962</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224689_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734199"> <IDENTIFIERS> <PRIMARY_ID>SRS11734199</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961038</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224689</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="290" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>174</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>74</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224698_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859963"> <IDENTIFIERS> <PRIMARY_ID>SRX13859963</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224698_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734200"> <IDENTIFIERS> <PRIMARY_ID>SRS11734200</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961039</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224698</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="381" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>140</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>71</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224697_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859964"> <IDENTIFIERS> <PRIMARY_ID>SRX13859964</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224697_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734201"> <IDENTIFIERS> <PRIMARY_ID>SRS11734201</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961040</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224697</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="303" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224690_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859965"> <IDENTIFIERS> <PRIMARY_ID>SRX13859965</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224690_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734202"> <IDENTIFIERS> <PRIMARY_ID>SRS11734202</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961041</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224690</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="347" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>172</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>87</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224680_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859966"> <IDENTIFIERS> <PRIMARY_ID>SRX13859966</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224680_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734203"> <IDENTIFIERS> <PRIMARY_ID>SRS11734203</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961042</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224680</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="362" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>63</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>26</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224692_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859967"> <IDENTIFIERS> <PRIMARY_ID>SRX13859967</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224692_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734204"> <IDENTIFIERS> <PRIMARY_ID>SRS11734204</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961043</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224692</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="326" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>196</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224693_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859968"> <IDENTIFIERS> <PRIMARY_ID>SRX13859968</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224693_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734205"> <IDENTIFIERS> <PRIMARY_ID>SRS11734205</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961044</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224693</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="326" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>130</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>66</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224691_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859969"> <IDENTIFIERS> <PRIMARY_ID>SRX13859969</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224691_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734206"> <IDENTIFIERS> <PRIMARY_ID>SRS11734206</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961045</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224691</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="420" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>66</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>34</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224684_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859970"> <IDENTIFIERS> <PRIMARY_ID>SRX13859970</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224684_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734207"> <IDENTIFIERS> <PRIMARY_ID>SRS11734207</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961046</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224684</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="363" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>196</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224678_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859971"> <IDENTIFIERS> <PRIMARY_ID>SRX13859971</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224678_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734208"> <IDENTIFIERS> <PRIMARY_ID>SRS11734208</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961047</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224678</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="307" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>74</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>26</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224683_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859972"> <IDENTIFIERS> <PRIMARY_ID>SRX13859972</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224683_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734209"> <IDENTIFIERS> <PRIMARY_ID>SRS11734209</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961048</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224683</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="385" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>59</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>39</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224681_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859973"> <IDENTIFIERS> <PRIMARY_ID>SRX13859973</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224681_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734210"> <IDENTIFIERS> <PRIMARY_ID>SRS11734210</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961049</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224681</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="306" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>168</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>85</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224682_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13859974"> <IDENTIFIERS> <PRIMARY_ID>SRX13859974</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224682_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734211"> <IDENTIFIERS> <PRIMARY_ID>SRS11734211</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961050</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224682</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="363" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>92</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>47</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228586_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13859975"> <IDENTIFIERS> <PRIMARY_ID>SRX13859975</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228586_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734212"> <IDENTIFIERS> <PRIMARY_ID>SRS11734212</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961051</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228586</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="333" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228596_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13859976"> <IDENTIFIERS> <PRIMARY_ID>SRX13859976</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228596_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734213"> <IDENTIFIERS> <PRIMARY_ID>SRS11734213</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961052</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228596</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="362" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>143</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>66</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228603_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13859977"> <IDENTIFIERS> <PRIMARY_ID>SRX13859977</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228603_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734214"> <IDENTIFIERS> <PRIMARY_ID>SRS11734214</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961053</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228603</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="369" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228584_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13859978"> <IDENTIFIERS> <PRIMARY_ID>SRX13859978</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228584_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734215"> <IDENTIFIERS> <PRIMARY_ID>SRS11734215</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961054</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228584</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="337" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>142</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>72</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228600_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13859979"> <IDENTIFIERS> <PRIMARY_ID>SRX13859979</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228600_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734216"> <IDENTIFIERS> <PRIMARY_ID>SRS11734216</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961055</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228600</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="348" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>161</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>77</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228593_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13859980"> <IDENTIFIERS> <PRIMARY_ID>SRX13859980</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228593_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734217"> <IDENTIFIERS> <PRIMARY_ID>SRS11734217</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961056</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228593</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="319" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228639_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13859981"> <IDENTIFIERS> <PRIMARY_ID>SRX13859981</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228639_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734218"> <IDENTIFIERS> <PRIMARY_ID>SRS11734218</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961057</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228639</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="298" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>76</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>39</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228591_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13859987"> <IDENTIFIERS> <PRIMARY_ID>SRX13859987</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228591_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734223"> <IDENTIFIERS> <PRIMARY_ID>SRS11734223</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961058</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228591</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="331" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>38</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>33</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228588_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13859990"> <IDENTIFIERS> <PRIMARY_ID>SRX13859990</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228588_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734227"> <IDENTIFIERS> <PRIMARY_ID>SRS11734227</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961059</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228588</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="314" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>196</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228561_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13859991"> <IDENTIFIERS> <PRIMARY_ID>SRX13859991</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228561_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734228"> <IDENTIFIERS> <PRIMARY_ID>SRS11734228</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961060</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228561</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="356" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>181</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>81</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228585_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13859992"> <IDENTIFIERS> <PRIMARY_ID>SRX13859992</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228585_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734229"> <IDENTIFIERS> <PRIMARY_ID>SRS11734229</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961061</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228585</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="362" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>116</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>60</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228637_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13859993"> <IDENTIFIERS> <PRIMARY_ID>SRX13859993</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228637_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734230"> <IDENTIFIERS> <PRIMARY_ID>SRS11734230</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961062</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228637</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="280" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>126</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>64</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228641_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13859994"> <IDENTIFIERS> <PRIMARY_ID>SRX13859994</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228641_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734231"> <IDENTIFIERS> <PRIMARY_ID>SRS11734231</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961063</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228641</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="357" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>100</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>51</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228531_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13859995"> <IDENTIFIERS> <PRIMARY_ID>SRX13859995</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228531_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734232"> <IDENTIFIERS> <PRIMARY_ID>SRS11734232</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961064</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228531</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="327" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228522_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13859996"> <IDENTIFIERS> <PRIMARY_ID>SRX13859996</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228522_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734233"> <IDENTIFIERS> <PRIMARY_ID>SRS11734233</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961065</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228522</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="326" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>171</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>95</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228524_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13859997"> <IDENTIFIERS> <PRIMARY_ID>SRX13859997</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228524_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734234"> <IDENTIFIERS> <PRIMARY_ID>SRS11734234</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961066</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228524</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="342" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>158</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>77</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228466_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13859998"> <IDENTIFIERS> <PRIMARY_ID>SRX13859998</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228466_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734235"> <IDENTIFIERS> <PRIMARY_ID>SRS11734235</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961067</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228466</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="321" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>180</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>80</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228533_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13859999"> <IDENTIFIERS> <PRIMARY_ID>SRX13859999</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228533_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734236"> <IDENTIFIERS> <PRIMARY_ID>SRS11734236</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961068</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228533</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="283" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>37</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>32</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228539_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13860000"> <IDENTIFIERS> <PRIMARY_ID>SRX13860000</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228539_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734237"> <IDENTIFIERS> <PRIMARY_ID>SRS11734237</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961069</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228539</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="285" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>32</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>17</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228470_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13860007"> <IDENTIFIERS> <PRIMARY_ID>SRX13860007</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228470_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734244"> <IDENTIFIERS> <PRIMARY_ID>SRS11734244</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961070</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228470</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="313" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>54</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>16</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225361_A00904_20220106_L1_experiment" center_name="UMIGS" accession="SRX13860008"> <IDENTIFIERS> <PRIMARY_ID>SRX13860008</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225361_A00904_20220106_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734245"> <IDENTIFIERS> <PRIMARY_ID>SRS11734245</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961017</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225361</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="355" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>196</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228525_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13860343"> <IDENTIFIERS> <PRIMARY_ID>SRX13860343</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228525_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734544"> <IDENTIFIERS> <PRIMARY_ID>SRS11734544</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961072</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228525</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="333" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228532_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13860344"> <IDENTIFIERS> <PRIMARY_ID>SRX13860344</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228532_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734545"> <IDENTIFIERS> <PRIMARY_ID>SRS11734545</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961073</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228532</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="286" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>135</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>35</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228538_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13860345"> <IDENTIFIERS> <PRIMARY_ID>SRX13860345</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228538_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734546"> <IDENTIFIERS> <PRIMARY_ID>SRS11734546</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961074</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228538</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="336" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>188</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>91</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228462_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13860346"> <IDENTIFIERS> <PRIMARY_ID>SRX13860346</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228462_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734547"> <IDENTIFIERS> <PRIMARY_ID>SRS11734547</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961075</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228462</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="322" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>88</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>42</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228471_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13860347"> <IDENTIFIERS> <PRIMARY_ID>SRX13860347</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228471_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734548"> <IDENTIFIERS> <PRIMARY_ID>SRS11734548</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961076</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228471</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="273" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>39</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>39</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228528_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13860348"> <IDENTIFIERS> <PRIMARY_ID>SRX13860348</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228528_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734549"> <IDENTIFIERS> <PRIMARY_ID>SRS11734549</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961077</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228528</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="270" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>124</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>63</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228521_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13860349"> <IDENTIFIERS> <PRIMARY_ID>SRX13860349</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228521_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734551"> <IDENTIFIERS> <PRIMARY_ID>SRS11734551</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961078</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228521</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="370" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>201</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>101</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228467_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13860350"> <IDENTIFIERS> <PRIMARY_ID>SRX13860350</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228467_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734550"> <IDENTIFIERS> <PRIMARY_ID>SRS11734550</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961079</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228467</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="266" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>32</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>17</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228529_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13860351"> <IDENTIFIERS> <PRIMARY_ID>SRX13860351</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228529_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734552"> <IDENTIFIERS> <PRIMARY_ID>SRS11734552</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961080</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228529</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="354" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>154</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>67</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228535_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13860352"> <IDENTIFIERS> <PRIMARY_ID>SRX13860352</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228535_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734553"> <IDENTIFIERS> <PRIMARY_ID>SRS11734553</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961081</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228535</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="346" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>115</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>62</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228463_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13860353"> <IDENTIFIERS> <PRIMARY_ID>SRX13860353</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228463_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734555"> <IDENTIFIERS> <PRIMARY_ID>SRS11734555</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961082</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228463</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="318" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>60</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>31</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228469_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13860354"> <IDENTIFIERS> <PRIMARY_ID>SRX13860354</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228469_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734554"> <IDENTIFIERS> <PRIMARY_ID>SRS11734554</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961083</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228469</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="305" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>110</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>56</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228526_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13860355"> <IDENTIFIERS> <PRIMARY_ID>SRX13860355</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228526_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734557"> <IDENTIFIERS> <PRIMARY_ID>SRS11734557</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961084</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228526</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="361" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>68</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>35</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228468_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13860356"> <IDENTIFIERS> <PRIMARY_ID>SRX13860356</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228468_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734556"> <IDENTIFIERS> <PRIMARY_ID>SRS11734556</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961085</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228468</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="320" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>80</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>44</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228465_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13860357"> <IDENTIFIERS> <PRIMARY_ID>SRX13860357</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228465_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734558"> <IDENTIFIERS> <PRIMARY_ID>SRS11734558</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961086</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228465</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="284" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>88</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>45</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228537_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13860358"> <IDENTIFIERS> <PRIMARY_ID>SRX13860358</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228537_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734559"> <IDENTIFIERS> <PRIMARY_ID>SRS11734559</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961087</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228537</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="343" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>90</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>56</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100225034_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13860359"> <IDENTIFIERS> <PRIMARY_ID>SRX13860359</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100225034_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734560"> <IDENTIFIERS> <PRIMARY_ID>SRS11734560</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961088</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100225034</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="279" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>136</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>69</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228568_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13860360"> <IDENTIFIERS> <PRIMARY_ID>SRX13860360</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228568_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734561"> <IDENTIFIERS> <PRIMARY_ID>SRS11734561</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961089</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228568</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="353" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>195</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>95</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228415_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13860361"> <IDENTIFIERS> <PRIMARY_ID>SRX13860361</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228415_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734562"> <IDENTIFIERS> <PRIMARY_ID>SRS11734562</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961090</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228415</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="345" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228424_A00904_20220109_L1_experiment" center_name="UMIGS" accession="SRX13860362"> <IDENTIFIERS> <PRIMARY_ID>SRX13860362</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228424_A00904_20220109_L1_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734563"> <IDENTIFIERS> <PRIMARY_ID>SRS11734563</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961091</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228424</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="340" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>134</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>68</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224749_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13860363"> <IDENTIFIERS> <PRIMARY_ID>SRX13860363</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224749_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734564"> <IDENTIFIERS> <PRIMARY_ID>SRS11734564</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961092</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224749</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="331" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>98</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>50</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224724_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13860364"> <IDENTIFIERS> <PRIMARY_ID>SRX13860364</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224724_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734565"> <IDENTIFIERS> <PRIMARY_ID>SRS11734565</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961093</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224724</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="396" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>142</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>60</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224723_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13860365"> <IDENTIFIERS> <PRIMARY_ID>SRX13860365</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224723_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734566"> <IDENTIFIERS> <PRIMARY_ID>SRS11734566</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961094</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224723</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="374" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>92</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>44</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224716_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13860366"> <IDENTIFIERS> <PRIMARY_ID>SRX13860366</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224716_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734567"> <IDENTIFIERS> <PRIMARY_ID>SRS11734567</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961095</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224716</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="354" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>158</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>80</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224717_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13860367"> <IDENTIFIERS> <PRIMARY_ID>SRX13860367</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224717_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734568"> <IDENTIFIERS> <PRIMARY_ID>SRS11734568</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961096</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224717</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="330" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>90</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>46</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100224746_A00904_20220106_L2_experiment" center_name="UMIGS" accession="SRX13860368"> <IDENTIFIERS> <PRIMARY_ID>SRX13860368</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100224746_A00904_20220106_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734569"> <IDENTIFIERS> <PRIMARY_ID>SRS11734569</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961097</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100224746</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="377" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>202</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>102</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> <EXPERIMENT alias="IL100228540_A00904_20220109_L2_experiment" center_name="UMIGS" accession="SRX13860493"> <IDENTIFIERS> <PRIMARY_ID>SRX13860493</PRIMARY_ID> <SUBMITTER_ID namespace="UMIGS">IL100228540_A00904_20220109_L2_experiment</SUBMITTER_ID> </IDENTIFIERS> <TITLE/> <STUDY_REF accession="SRP310511"> <IDENTIFIERS> <PRIMARY_ID>SRP310511</PRIMARY_ID> <EXTERNAL_ID namespace="BioProject">PRJNA713804</EXTERNAL_ID> </IDENTIFIERS> </STUDY_REF> <DESIGN> <DESIGN_DESCRIPTION>cDNA was generated and genome specific primer pools were used to amplify the genome. Two pools were used to effectively tile across the genome. Pools were then combined and used in library prep for adapter ligation and indexing via PCR.</DESIGN_DESCRIPTION> <SAMPLE_DESCRIPTOR accession="SRS11734635"> <IDENTIFIERS> <PRIMARY_ID>SRS11734635</PRIMARY_ID> <EXTERNAL_ID namespace="BioSample">SAMN24961071</EXTERNAL_ID> </IDENTIFIERS> </SAMPLE_DESCRIPTOR> <LIBRARY_DESCRIPTOR> <LIBRARY_NAME>IL100228540</LIBRARY_NAME> <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY> <LIBRARY_SOURCE>VIRAL RNA</LIBRARY_SOURCE> <LIBRARY_SELECTION>RT-PCR</LIBRARY_SELECTION> <LIBRARY_LAYOUT> <PAIRED NOMINAL_LENGTH="337" NOMINAL_SDEV="0.0E0"/> </LIBRARY_LAYOUT> <LIBRARY_CONSTRUCTION_PROTOCOL>UMIGS-GRC Illumina Construction Protocol Details</LIBRARY_CONSTRUCTION_PROTOCOL> </LIBRARY_DESCRIPTOR> <SPOT_DESCRIPTOR> <SPOT_DECODE_SPEC> <SPOT_LENGTH>126</SPOT_LENGTH> <READ_SPEC> <READ_INDEX>0</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Forward</READ_TYPE> <BASE_COORD>1</BASE_COORD> </READ_SPEC> <READ_SPEC> <READ_INDEX>1</READ_INDEX> <READ_CLASS>Application Read</READ_CLASS> <READ_TYPE>Reverse</READ_TYPE> <BASE_COORD>72</BASE_COORD> </READ_SPEC> </SPOT_DECODE_SPEC> </SPOT_DESCRIPTOR> </DESIGN> <PLATFORM> <ILLUMINA> <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL> </ILLUMINA> </PLATFORM> </EXPERIMENT> </EXPERIMENT_SET>