<?xml version="1.0" encoding="UTF-8"?>
<EXPERIMENT_SET xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance">
  <EXPERIMENT accession="SRX1736206" alias="EXT00183809">
    <IDENTIFIERS>
      <PRIMARY_ID>SRX1736206</PRIMARY_ID>
      <EXTERNAL_ID namespace="CFSAN">EXT00183809</EXTERNAL_ID>
    </IDENTIFIERS>
    <TITLE>Whole genome shotgun sequencing of Escherichia coli by Illumina NextSeq 500</TITLE>
    <STUDY_REF accession="SRP058582">
      <IDENTIFIERS>
        <PRIMARY_ID>SRP058582</PRIMARY_ID>
        <SUBMITTER_ID namespace="BioProject">PRJNA230969</SUBMITTER_ID>
      </IDENTIFIERS>
    </STUDY_REF>
    <DESIGN>
      <DESIGN_DESCRIPTION>MiSeq deep shotgun sequencing of cultured isolate.</DESIGN_DESCRIPTION>
      <SAMPLE_DESCRIPTOR accession="SRS1416983">
        <IDENTIFIERS>
          <PRIMARY_ID>SRS1416983</PRIMARY_ID>
          <EXTERNAL_ID namespace="BioSample">SAMN04279471</EXTERNAL_ID>
        </IDENTIFIERS>
      </SAMPLE_DESCRIPTOR>
      <LIBRARY_DESCRIPTOR>
        <LIBRARY_NAME>Escherichia coli Nextera shotgun</LIBRARY_NAME>
        <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
        <LIBRARY_SOURCE>GENOMIC</LIBRARY_SOURCE>
        <LIBRARY_SELECTION>RANDOM</LIBRARY_SELECTION>
        <LIBRARY_LAYOUT>
          <PAIRED NOMINAL_LENGTH="300"/>
        </LIBRARY_LAYOUT>
        <LIBRARY_CONSTRUCTION_PROTOCOL>Illumina Nextera library created for Escherichia coli.</LIBRARY_CONSTRUCTION_PROTOCOL>
      </LIBRARY_DESCRIPTOR>
      <SPOT_DESCRIPTOR>
        <SPOT_DECODE_SPEC>
          <SPOT_LENGTH>302</SPOT_LENGTH>
          <READ_SPEC>
            <READ_INDEX>0</READ_INDEX>
            <READ_CLASS>Application Read</READ_CLASS>
            <READ_TYPE>Forward</READ_TYPE>
            <BASE_COORD>1</BASE_COORD>
          </READ_SPEC>
          <READ_SPEC>
            <READ_INDEX>1</READ_INDEX>
            <READ_CLASS>Application Read</READ_CLASS>
            <READ_TYPE>Reverse</READ_TYPE>
            <BASE_COORD>151</BASE_COORD>
          </READ_SPEC>
        </SPOT_DECODE_SPEC>
      </SPOT_DESCRIPTOR>
    </DESIGN>
    <PLATFORM>
      <ILLUMINA>
        <INSTRUMENT_MODEL>NextSeq 500</INSTRUMENT_MODEL>
      </ILLUMINA>
    </PLATFORM>
    <PROCESSING>
      <PIPELINE>
        <PIPE_SECTION section_name="base caller">
          <STEP_INDEX>0</STEP_INDEX>
          <PREV_STEP_INDEX>NULL</PREV_STEP_INDEX>
          <PROGRAM>RTA</PROGRAM>
          <VERSION>1.8.5</VERSION>
        </PIPE_SECTION>
        <PIPE_SECTION section_name="demultiplexer">
          <STEP_INDEX>1</STEP_INDEX>
          <PREV_STEP_INDEX>0</PREV_STEP_INDEX>
          <PROGRAM>Bcl2fastq</PROGRAM>
          <VERSION>2.1</VERSION>
        </PIPE_SECTION>
      </PIPELINE>
    </PROCESSING>
  </EXPERIMENT>
</EXPERIMENT_SET>
