SRX5624174 Illumina WGS SRP190140 PRJNA526487 The PCR-free shotgun library was constructed with the Library Construction kit from Kapa Biosystems. The mate-pair libraries were constructed with the Nextera Mate Pair library Sample Prep kit (Illumina, CA), followed by the TruSeq DNA Sample Prep kit. The libraries were quantitated by qPCR, pooled and sequenced on one lane (mate-pairs) and 3 lanes (shotgun) for 151 cycles from each end of the fragments on a HiSeq2500 using a TruSeqRapid SBS sequencing chemistry version 13. The fastq files were generated and demultiplexed with Casava1.8.2 SRS4569339 7710_Genome Illumina WGS WGS GENOMIC RANDOM PCR Illumina HiSeq 2500 SRX5624175 Illumina 5kb Mate Pair SRP190140 PRJNA526487 The PCR-free shotgun library was constructed with the Library Construction kit from Kapa Biosystems. The mate-pair libraries were constructed with the Nextera Mate Pair library Sample Prep kit (Illumina, CA), followed by the TruSeq DNA Sample Prep kit. The libraries were quantitated by qPCR, pooled and sequenced on one lane (mate-pairs) and 3 lanes (shotgun) for 151 cycles from each end of the fragments on a HiSeq2500 using a TruSeqRapid SBS sequencing chemistry version 13. The fastq files were generated and demultiplexed with Casava1.8.2 SRS4569339 7710_Genome Illumina 5kb Mate Pair WGS GENOMIC RANDOM PCR Illumina HiSeq 2500 SRX5624176 Illumina 10kb Mate Pair SRP190140 PRJNA526487 The PCR-free shotgun library was constructed with the Library Construction kit from Kapa Biosystems. The mate-pair libraries were constructed with the Nextera Mate Pair library Sample Prep kit (Illumina, CA), followed by the TruSeq DNA Sample Prep kit. The libraries were quantitated by qPCR, pooled and sequenced on one lane (mate-pairs) and 3 lanes (shotgun) for 151 cycles from each end of the fragments on a HiSeq2500 using a TruSeqRapid SBS sequencing chemistry version 13. The fastq files were generated and demultiplexed with Casava1.8.2 SRS4569339 7710_Genome Illumina 10kb Mate Pair WGS GENOMIC RANDOM PCR Illumina HiSeq 2500 SRX5624177 RSII PacBio SRP190140 PRJNA526487 A large insert DNA library for PacBio sequencing was generated at the UC Davis Genome Center using the PacBio SMRT Library Prep for RSII followed by BluePippin size selection for fragments >10 kb. The library was sequenced with 12 PacBio SMRT cells using the RSII chemistry after a titration cell to determine optimal loading. SRS4569339 7710_Genome RSII PacBio WGS GENOMIC RANDOM PacBio RS II