<?xml version="1.0" encoding="ISO-8859-1"?>
<GTH_output xmlns="http://www.genomethreader.org/GTH_output/" GTH_XML_version="1.1">
  <header xmlns="http://www.genomethreader.org/GTH_output/header/">
    <source program="GenomeThreader" version="0.9.54" build_date="2006-07-28 11:55:15" run_date="2009-01-16 02:25:03"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" type="ESTcDNA"/>
    </reference_files>
    <splice_site_parameters parameter_type="Bayesian" species="arabidopsis"/>
    <parameters>
      <parameter name="bssmfile" value="arabidopsis"/>
      <parameter name="scorematrixfile" value="BLOSUM62"/>
      <parameter name="searchmode" value="forward=True,reverse=True)"/>
      <parameter name="translationtable" value="1"/>
      <parameter name="frompos" value="0"/>
      <parameter name="topos" value="0"/>
      <parameter name="width" value="0"/>
      <parameter name="verbose" value="False"/>
      <parameter name="skipalignmentout" value="False"/>
      <parameter name="showintronmaxlen" value="120"/>
      <parameter name="minorflen" value="64"/>
      <parameter name="showseqnums" value="False"/>
      <parameter name="gs2out" value="False"/>
      <parameter name="maskpolyatails" value="False"/>
      <parameter name="noautoindex" value="False"/>
      <parameter name="minmatchlen" value="20"/>
      <parameter name="seedlength" value="16"/>
      <parameter name="exdrop" value="2"/>
      <parameter name="online" value="False"/>
      <parameter name="inverse" value="False"/>
      <parameter name="exact" value="False"/>
      <parameter name="chainwf" value="0.500000"/>
      <parameter name="gcmaxgapwidth" value="1000000"/>
      <parameter name="gcmincoverage" value="50"/>
      <parameter name="introncutout" value="False"/>
      <parameter name="autointroncutout" value="0"/>
      <parameter name="icinitialdelta" value="50"/>
      <parameter name="iciterations" value="2"/>
      <parameter name="icdeltaincrease" value="50"/>
      <parameter name="icminremintronlen" value="10"/>
      <parameter name="nou12intronmodel" value="False"/>
      <parameter name="u12donorprob" value="0.990000"/>
      <parameter name="u12donorprob1mism" value="0.900000"/>
      <parameter name="probies" value="0.500000"/>
      <parameter name="probdelgen" value="0.030000"/>
      <parameter name="identityweight" value="2.000000"/>
      <parameter name="mismatchweight" value="-2.000000"/>
      <parameter name="undetcharweight" value="0.000000"/>
      <parameter name="deletionweight" value="-4.000000"/>
      <parameter name="dpminexonlen" value="5"/>
      <parameter name="dpminintronlen" value="50"/>
      <parameter name="shortexonpenal" value="100"/>
      <parameter name="shortintronpenal" value="100"/>
      <parameter name="wzerotransition" value="80"/>
      <parameter name="wdecreasedoutput" value="80"/>
      <parameter name="leadcutoffsmode" value="RELAXED"/>
      <parameter name="termcutoffsmode" value="STRICT"/>
      <parameter name="cutoffsminexonlen" value="5"/>
      <parameter name="scoreminexonlen" value="50"/>
      <parameter name="minaveragessp" value="0.500000"/>
      <parameter name="minalignmentscore" value="0.900000"/>
      <parameter name="maxalignmentscore" value="1.000000"/>
      <parameter name="mincoverage" value="0.900000"/>
      <parameter name="maxcoverage" value="100.000000"/>
      <parameter name="intermediate" value="False"/>
      <parameter name="sortags" value="False"/>
      <parameter name="sortagswf" value="1.000000"/>
      <parameter name="first" value="0"/>
      <parameter name="exondistri" value="False"/>
      <parameter name="introndistri" value="False"/>
      <parameter name="refseqcovdistri" value="False"/>
    </parameters>
    <overall_reference_type>ESTcDNA</overall_reference_type>
  </header>
  <alignment_module>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E360470" ref_strand="+" ref_description="SGN-E360470 [cLPP-8-C20]">
      <seq>tcaggcttcactctctccttttcttagattcctcttgcataatcttctttcagtgctctttaaccaaagggatcaccaacaagaaggagaaatggggctgtcattcaccaagcttttcagccggcttttcgccaagaaagaaatgccgaattctcatggttggaccttgatgccagctggtaagaccaccatattgtacaagctcaagctgggcgagatcgttactacctattcctaccattggtttcaatgtggagactgttgagtacaagaacatcagcttcactgtttgggatgtcgggggtcaggacaagattcgtccattatggaggcactatttccagaaccactcagggtctcattttcgtggttgatagcaatgacagagatcgtgttgtggaggcaagagatgagttgcataggatgttaaatgaggaccagcttcgggatgctgtgcttcttgtttttgctaacaaacaagatcttcccaatgcaatgaatgctgccgaaataactgataagcttggactgcactctcttaggcagcgtcact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="37233" stop="42015"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="37533" g_stop="37584" g_length="52"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="53" r_length="53" r_score="0.904"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="37585" i_stop="38531" i_length="947">
            <donor d_prob="1.000" d_score="0.90"/>
            <acceptor a_prob="0.913" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="38532" g_stop="38717" g_length="186"/>
          <reference_exon_boundary r_type="cDNA" r_start="54" r_stop="243" r_length="190" r_score="0.930"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.96"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="244" r_stop="314" r_length="71" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.955" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="315" r_stop="435" r_length="121" r_score="0.975"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.935" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="41598" g_stop="41715" g_length="118"/>
          <reference_exon_boundary r_type="cDNA" r_start="436" r_stop="553" r_length="118" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E360470" ref_strand="+">
        <total_alignment_score>0.958</total_alignment_score>
        <cumulative_length_of_scored_exons>547</cumulative_length_of_scored_exons>
        <coverage percentage="0.989" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E360470" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="37533" e_stop="37584"/>
          <exon e_start="38532" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41715"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAGGCTTCACACTCTCCTTTT-TTAGATCCCTCTTCCATAATCTTCTTTCAGGTAACAAACATCGCTATGTTTTATCATTCAAAAATTCAAATTTATATTTCATTAATTGTATAAAAACTTATGTAATAACACTTTGTGTTTTTTTTAAAAAAAAATAATCAGTAGTTTTCTCTAAATTTGAGATAGCTTTTTTATTATTCTTATATATAGAAATTGTATTGTTAAAATAAAAAATTTTCTTTTGTTTTGGTTGAATTTTTTGGGCTACATTTATCGTTTTCTGCTATTTGCATTTGATTTTGAGGTTATTCAATCGCATTTTTTGTTTTATTTATGATCTGAATTTCTGTTGTTTTGTTATGATCTAAAGATCAAATCGTATTAACTTCGAATTTTGAATTTGAATCTTTGAATTTGATTTCTGGCAAATTGCTTTCTCATTCAGATCCATTTCATGATACGATGGATTTTGAAATAAATCAATACTTCCATTCCGTTTTATATGAGGATATTTCCAAGGGAATTGAGTTAAAGATGTTAAATTGAGTTATATATAATGGAAGAGAAATATTATAGTGATAGTCGAAGATTTAGTTTCATTGAAGAACATCATATAAGGATTGAAAGTTTCAATAGCTTAATGGATTTGAATGTGTTCTGCATTGACAGTTTGATGATTTTGTTTCAGTGTTAAGATTGACAATCATGTCTAATTGTTGTTGAAATAAGTAATATAGAGTAAGGATTGAGACACTTGTGAAGGAAAATATTTTCGGTGTAATTGAAGTTAGCTTTCTACTTTCTGTAACACAAAAAATCAGATAATGAATGTCATGAAAGTGTTTTCCTTTATGCAACACATACTAGTTCTGAGAATATTAAACATTCGAAAATAGACAGTTGTGATATAAATTGTGGAGTCGAGAGTACATACTATTTCATTACTTGTTTTTTGACTCATATATAGATTCGTTAATATATTTTATTATATCATTTAGTGCTCTTTTAACATAGGGATCACCAACAAGAAGGAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATG-CGAATTCTCATGGTTGGA-CTTGATG-CAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTA-CTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAA-CACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTCTCTTAGGCAGCGTCACT</genome_strand>
        <mrna_strand>TCAGGCTTCACTCTCTCCTTTTCTTAGATTCCTCTTGCATAATCTTCTTTCAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGCTCTTTAACCAAAGGGATCACCAACAAGAAGGAGAAATGGGGCTGTCATTCACCAAGCTTTTCAGCCGGCTTTTCGCCAAGAAAGAAATGCCGAATTCTCATGGTTGGACCTTGATGCCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACCTATTCCTACCATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAG.............................................................................................................................................................................................ATTCGTCCATTATGGAGGCACTATTTCCAGAACCACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGTGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GACCAGCTTCGGGATGCTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTCTCTTAGGCAGCGTCACT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E359985" ref_strand="+" ref_description="SGN-E359985 [cLPP-9-I12]">
      <seq>tcttctttcagtgctctttaacaaagggatcaccaacaagaaggagaaatggggctgtcattcaccaagcttttcagccggcttttcgccaagaaagaaatgcgaattctcatggttggacttgatgcagctggtaagaccaccatattgtacaagctcaagctgggcgagatcgttactactattcctaccattggtttcaatgtggagactgttgagtacaagaacatcagcttcactgtttgggatgtcgggggtcaggacaagattcgtccattatggaggcactatttccagaacactcagggtctcattttcgtggttgatagcaatgacagagatcgtgttgtggaggcaagagatgagttgcataggatgttaaatga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38220" stop="40289"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38532" g_stop="38717" g_length="186"/>
          <reference_exon_boundary r_type="cDNA" r_start="12" r_stop="196" r_length="185" r_score="0.978"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="197" r_stop="267" r_length="71" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.955" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39989" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="268" r_stop="386" r_length="119" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E359985" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>376</cumulative_length_of_scored_exons>
        <coverage percentage="0.974" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E359985" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38532" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39989"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCTCTTTTAACATAGGGATCACCAACAAGAAGGAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGA</genome_strand>
        <mrna_strand>TGCTCTT-TAACAAAGGGATCACCAACAAGAAGGAGAAATGGGGCTGTCATTCACCAAGCTTTTCAGCCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAG.............................................................................................................................................................................................ATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGTGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E344699" ref_strand="+" ref_description="SGN-E344699 [cTOF-14-P6]">
      <seq>cctcattctaaaagctcttttcagggatcatcatcaaggaagcgtgatggggctcacattcaccaagctcttcagtcggcttttcgccaagaaggaaatgcgcattctaatggttggtcttgatgcagctggtaagaccaccatattgtacaagttgaagctgggagagatcgtgactactattcctaccattggtttcaatgtggagactgttgagtacaagaacatcagcttcactgtttgggatgtcggaggtcaggacaagatccgtccattgtggaggcactacttccagaacactcagggtctcatttttgtggttgatagcaatgatagagaccgtgttgtagaagcaagagatgaattgcataggatgttgaacgaggatgaacttcgggatgctgtgcttctagtatttgctaacaaacaagatcttcctaacgcaatgaatgctgctgaaataactgataagcttggactgcactccctcaggcagcgtcactggtacatccagagcacttgtgcaacttctggcgaggggctttatgagggacttgattggctttctaacaacattgctaacaaggcttaaagtgatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38246" stop="42019"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38548" g_stop="38717" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="25" r_stop="194" r_length="170" r_score="0.888"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.92"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="195" r_stop="265" r_length="71" r_score="0.986"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.955" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="266" r_stop="385" r_length="120" r_score="0.900"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.90"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41716" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="386" r_stop="504" r_length="119" r_score="0.916"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="41717" i_stop="41788" i_length="72">
            <donor d_prob="0.233" d_score="0.94"/>
            <acceptor a_prob="0.874" a_score="0.84"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="41789" g_stop="41870" g_length="82"/>
          <reference_exon_boundary r_type="cDNA" r_start="505" r_stop="586" r_length="82" r_score="0.854"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="41871" i_stop="41980" i_length="110">
            <donor d_prob="0.935" d_score="0.88"/>
            <acceptor a_prob="0.981" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="41981" g_stop="41993" g_length="13"/>
          <reference_exon_boundary r_type="cDNA" r_start="587" r_stop="599" r_length="13" r_score="0.615"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E344699" ref_strand="+">
        <total_alignment_score>0.904</total_alignment_score>
        <cumulative_length_of_scored_exons>575</cumulative_length_of_scored_exons>
        <coverage percentage="0.960" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E344699" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38548" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41716"/>
          <exon e_start="41789" e_stop="41870"/>
          <exon e_start="41981" e_stop="41993"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATCACCAACAAGAAGGAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTCTCTTAGGCAGCGTCACTGGTAGGCACACTGGCTAGCAGTTGTGAAAGCTTCCCTGCTGGATGCACTAAATTTGGTCACGACTACTTTCAGGTACATTCAGAGCACCTGCGCAACATCAGGAGAGGGACTTTATGAGGGTCTTGATTGGTTGTCTAACAACATAGCTAACAAAGTACGAGTACACTTTTAATTGATTAAATTGGCCTTAGATCTTTTCCTTTGATGTTCAGATAAACTTTGTGCACTCGTTGTTTCTCTTGTCTTTGAATCCTCTTTTTATAGTCCTAAGGCAATG</genome_strand>
        <mrna_strand>GGATCATCATCAAGGAAGCGTGATGGGGCTCACATTCACCAAGCTCTTCAGTCGGCTTTTCGCCAAGAAGGAAATGCGCATTCTAATGGTTGGTCTTGATGCAGCTGGTAAGACCACCATATTGTACAAGTTGAAGCTGGGAGAGATCGTGACTACTATTCCTACCATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGAGGTCAGGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTACTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGATAGAGACCGTGTTGTAGAAGCAAGAGATGAATTGCATAGGATGTTGAACGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAACTTCGGGATGCTGTGCTTCTAGTATTTGCTAACAAACAAGATCTTCCTAACGCAATGAATGCTGCTGAAATAACTGATAAGCTTGGACTGCACTCCCTCAGGCAGCGTCACTG........................................................................GTACATCCAGAGCACTTGTGCAACTTCTGGCGAGGGGCTTTATGAGGGACTTGATTGGCTTTCTAACAACATTGCTAACAAG..............................................................................................................GCTTAAAGTGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E353182" ref_strand="+" ref_description="SGN-E353182 [cTOS-14-E16]">
      <seq>aggtttctctctcaatagatccctcattctaaaagctcttttcagggatcatcatcaaggaagcgtgatggggctcacattcaccaagctcttcagtcggcttttcgccaagaaggaaatgcgcattctaatggttggtcttgatgcagctggtaagaccaccatattgtacaagttgaagctgggagagatcgtgactactattcctaccattggtttcaatgtggagactgttgagtacaagaacatcagcttcactgtttgggatgtcggaggtcaggacaagatccgtccattgtggaggcactacttccagaacactcagggtctcatttttgtggttgatagcaatgatagagaccgtgttgtagaagcaagagatgaattgcataggatgttgaacgaggatgaacttcgggatgctgtgcttctagtatttgctaacaaacaagatcttcctaacgcaatgaatgctgctgaaataactgataagcttggactgcactccctcaggcagcgtcactggtacatccagagcacttgtgcaacttctggcgaggggctttatgagggactttgattggcttctaacaacattgct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38246" stop="42019"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38548" g_stop="38717" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="46" r_stop="215" r_length="170" r_score="0.888"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.92"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="216" r_stop="286" r_length="71" r_score="0.986"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.955" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="287" r_stop="406" r_length="120" r_score="0.900"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.90"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41716" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="407" r_stop="525" r_length="119" r_score="0.916"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="41717" i_stop="41788" i_length="72">
            <donor d_prob="0.233" d_score="0.94"/>
            <acceptor a_prob="0.874" a_score="0.84"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="41789" g_stop="41864" g_length="76"/>
          <reference_exon_boundary r_type="cDNA" r_start="526" r_stop="601" r_length="76" r_score="0.829"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E353182" ref_strand="+">
        <total_alignment_score>0.901</total_alignment_score>
        <cumulative_length_of_scored_exons>556</cumulative_length_of_scored_exons>
        <coverage percentage="0.925" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E353182" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38548" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41716"/>
          <exon e_start="41789" e_stop="41864"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATCACCAACAAGAAGGAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTCTCTTAGGCAGCGTCACTGGTAGGCACACTGGCTAGCAGTTGTGAAAGCTTCCCTGCTGGATGCACTAAATTTGGTCACGACTACTTTCAGGTACATTCAGAGCACCTGCGCAACATCAGGAGAGGGACTTTATGAGGGTC-TTGATTGGTTGTCTAACAACATAGCT</genome_strand>
        <mrna_strand>GGATCATCATCAAGGAAGCGTGATGGGGCTCACATTCACCAAGCTCTTCAGTCGGCTTTTCGCCAAGAAGGAAATGCGCATTCTAATGGTTGGTCTTGATGCAGCTGGTAAGACCACCATATTGTACAAGTTGAAGCTGGGAGAGATCGTGACTACTATTCCTACCATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGAGGTCAGGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTACTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGATAGAGACCGTGTTGTAGAAGCAAGAGATGAATTGCATAGGATGTTGAACGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAACTTCGGGATGCTGTGCTTCTAGTATTTGCTAACAAACAAGATCTTCCTAACGCAATGAATGCTGCTGAAATAACTGATAAGCTTGGACTGCACTCCCTCAGGCAGCGTCACTG........................................................................GTACATCCAGAGCACTTGTGCAACTTCTGGCGAGGGGCTTTATGAGGGACTTTGATTGGCT-TCTAACAACATTGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E297999" ref_strand="+" ref_description="SGN-E297999 [cLET-38-L12]">
      <seq>ctcaggtttctctctcaatagatccctcattctaaaagctcttttcagggatcatcatcaaggaagcgtgatggggctcacattcaccaagctcttcagtcggcttttcgccaagaaggaaatgcgcattctaatggttggtcttgatgcagctggtaagaccaccatattgtacaagttgaagctgggagagatcgtgactactattcctaccattggtttcaatgtggagactgttgagtacaagaacatcagcttcactgtttgggatgtcggaggtcaggacaagatccgtccattgtggaggcactacttccagaacactcagggtctcatttttgtggttgatagcaatgatagagaccgtgttgtagaagcaagagatgaattgcataggatgttgaacgaggatgaacttcgggatgctgtgcttctagtatttgctaacaaacaagatcttcctaacgcaatgaatgctgctgaaataactgataagcttggactgcactccctcaggcagcgtcactggtacatccagagcacttgtgcaacttctggcgaggggctttatgagggacttgattggctttctaacaacattgct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38246" stop="42019"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38548" g_stop="38717" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="49" r_stop="218" r_length="170" r_score="0.888"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.92"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="219" r_stop="289" r_length="71" r_score="0.986"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.955" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="290" r_stop="409" r_length="120" r_score="0.900"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.90"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41716" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="410" r_stop="528" r_length="119" r_score="0.916"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="41717" i_stop="41788" i_length="72">
            <donor d_prob="0.233" d_score="0.94"/>
            <acceptor a_prob="0.874" a_score="0.84"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="41789" g_stop="41864" g_length="76"/>
          <reference_exon_boundary r_type="cDNA" r_start="529" r_stop="604" r_length="76" r_score="0.855"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E297999" ref_strand="+">
        <total_alignment_score>0.905</total_alignment_score>
        <cumulative_length_of_scored_exons>556</cumulative_length_of_scored_exons>
        <coverage percentage="0.921" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E297999" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38548" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41716"/>
          <exon e_start="41789" e_stop="41864"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATCACCAACAAGAAGGAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTCTCTTAGGCAGCGTCACTGGTAGGCACACTGGCTAGCAGTTGTGAAAGCTTCCCTGCTGGATGCACTAAATTTGGTCACGACTACTTTCAGGTACATTCAGAGCACCTGCGCAACATCAGGAGAGGGACTTTATGAGGGTCTTGATTGGTTGTCTAACAACATAGCT</genome_strand>
        <mrna_strand>GGATCATCATCAAGGAAGCGTGATGGGGCTCACATTCACCAAGCTCTTCAGTCGGCTTTTCGCCAAGAAGGAAATGCGCATTCTAATGGTTGGTCTTGATGCAGCTGGTAAGACCACCATATTGTACAAGTTGAAGCTGGGAGAGATCGTGACTACTATTCCTACCATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGAGGTCAGGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTACTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGATAGAGACCGTGTTGTAGAAGCAAGAGATGAATTGCATAGGATGTTGAACGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAACTTCGGGATGCTGTGCTTCTAGTATTTGCTAACAAACAAGATCTTCCTAACGCAATGAATGCTGCTGAAATAACTGATAAGCTTGGACTGCACTCCCTCAGGCAGCGTCACTG........................................................................GTACATCCAGAGCACTTGTGCAACTTCTGGCGAGGGGCTTTATGAGGGACTTGATTGGCTTTCTAACAACATTGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E362610" ref_strand="+" ref_description="SGN-E362610 [cLPP-1-P15]">
      <seq>ttcttcagggatcgttaagaagaaagagaaatggggttgacattcaccaagcttttcagccggctatttgccaagaaggaaatgcgcatcctcatggttggactcgatgcagctggtaagaccaccatattgtacaagctcaagctgggagaaatcgtcaccaccattccaactattggtttcaatgtggaaactgttgaatacaagaacatcagcttcaccgtttgggatgtcgggggtcaagacaagatccgtccattgtggaggcactatttccagaacactcagggtctcatttttgtggttgatagcaatgacagagaccgtgtaggggaggcaagagatgaattgcacaggatgttgaatgaggatgagcttcgggatgctgtgttgcttgtttttgctaacaaacaagatcttcctaatgcaatgaatgctgctgaaataaccgacaagcttggactccactccctcaggcagcgtcactggtacatccagagcacttgtgcaacttctggagagggactctatgagggtcttgattggctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38256" stop="42148"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38548" g_stop="38717" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="9" r_stop="178" r_length="170" r_score="0.876"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.86"/>
            <acceptor a_prob="0.996" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="179" r_stop="249" r_length="71" r_score="0.944"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.94"/>
            <acceptor a_prob="0.955" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="250" r_stop="369" r_length="120" r_score="0.917"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41716" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="370" r_stop="488" r_length="119" r_score="0.908"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="41717" i_stop="41788" i_length="72">
            <donor d_prob="0.233" d_score="0.88"/>
            <acceptor a_prob="0.874" a_score="0.88"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="41789" g_stop="41849" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="489" r_stop="549" r_length="61" r_score="0.869"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E362610" ref_strand="+">
        <total_alignment_score>0.900</total_alignment_score>
        <cumulative_length_of_scored_exons>541</cumulative_length_of_scored_exons>
        <coverage percentage="0.985" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E362610" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38548" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41716"/>
          <exon e_start="41789" e_stop="41849"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATCACCAACAAGAAGGAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTCTCTTAGGCAGCGTCACTGGTAGGCACACTGGCTAGCAGTTGTGAAAGCTTCCCTGCTGGATGCACTAAATTTGGTCACGACTACTTTCAGGTACATTCAGAGCACCTGCGCAACATCAGGAGAGGGACTTTATGAGGGTCTTGATTGGTTG</genome_strand>
        <mrna_strand>GGATCGTTAAGAAGAAAGAGAAATGGGGTTGACATTCACCAAGCTTTTCAGCCGGCTATTTGCCAAGAAGGAAATGCGCATCCTCATGGTTGGACTCGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGAGAAATCGTCACCACCATTCCAACTATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAAACTGTTGAATACAAGAACATCAGCTTCACCGTTTGGGATGTCGGGGGTCAAGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGACAGAGACCGTGTAGGGGAGGCAAGAGATGAATTGCACAGGATGTTGAATGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAGCTTCGGGATGCTGTGTTGCTTGTTTTTGCTAACAAACAAGATCTTCCTAATGCAATGAATGCTGCTGAAATAACCGACAAGCTTGGACTCCACTCCCTCAGGCAGCGTCACTG........................................................................GTACATCCAGAGCACTTGTGCAACTTCTGGAGAGGGACTCTATGAGGGTCTTGATTGGCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E272682" ref_strand="+" ref_description="SGN-E272682 [cLEM-21-K21]">
      <seq>ggatcgttaagaagaaagagaaatggggttgacattcaccaagcttttcagccggctatttgccaagaaggaaatgcgcatcctcatggttggactcgatgcagctggtaagaccaccatattgtacaagctcaagctgggagaaatcgtcaccaccattccaactattggtttcaatgtggaaactgttgaatacaagaacatcagcttcaccgtttgggatgtcgggggtcaagacaagatccgtccattgtggaggcactatttccagaacactcagggtctcatttttgtggttgatagcaatgacagagaccgtgtaggggaggcaagagatgaattgcacaggatgttgaatgaggatgagcttcgggatgctgtgttgcttgtttttgctaacaaacaagatcttcctaatgcaatgaatgctgctgaaataaccgacaagcttggactccactccctcaggcagcgtcactggtacatccaaagcacttgtgcaacttctggagagggactctatgagggtcttgattg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38256" stop="42145"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38548" g_stop="38717" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="170" r_length="170" r_score="0.876"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.86"/>
            <acceptor a_prob="0.996" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="171" r_stop="241" r_length="71" r_score="0.944"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.94"/>
            <acceptor a_prob="0.955" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="242" r_stop="361" r_length="120" r_score="0.917"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41716" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="362" r_stop="480" r_length="119" r_score="0.908"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="41717" i_stop="41788" i_length="72">
            <donor d_prob="0.233" d_score="0.88"/>
            <acceptor a_prob="0.874" a_score="0.86"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="41789" g_stop="41845" g_length="57"/>
          <reference_exon_boundary r_type="cDNA" r_start="481" r_stop="537" r_length="57" r_score="0.877"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E272682" ref_strand="+">
        <total_alignment_score>0.901</total_alignment_score>
        <cumulative_length_of_scored_exons>537</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E272682" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38548" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41716"/>
          <exon e_start="41789" e_stop="41845"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATCACCAACAAGAAGGAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTCTCTTAGGCAGCGTCACTGGTAGGCACACTGGCTAGCAGTTGTGAAAGCTTCCCTGCTGGATGCACTAAATTTGGTCACGACTACTTTCAGGTACATTCAGAGCACCTGCGCAACATCAGGAGAGGGACTTTATGAGGGTCTTGATTG</genome_strand>
        <mrna_strand>GGATCGTTAAGAAGAAAGAGAAATGGGGTTGACATTCACCAAGCTTTTCAGCCGGCTATTTGCCAAGAAGGAAATGCGCATCCTCATGGTTGGACTCGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGAGAAATCGTCACCACCATTCCAACTATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAAACTGTTGAATACAAGAACATCAGCTTCACCGTTTGGGATGTCGGGGGTCAAGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGACAGAGACCGTGTAGGGGAGGCAAGAGATGAATTGCACAGGATGTTGAATGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAGCTTCGGGATGCTGTGTTGCTTGTTTTTGCTAACAAACAAGATCTTCCTAATGCAATGAATGCTGCTGAAATAACCGACAAGCTTGGACTCCACTCCCTCAGGCAGCGTCACTG........................................................................GTACATCCAAAGCACTTGTGCAACTTCTGGAGAGGGACTCTATGAGGGTCTTGATTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E303478" ref_strand="+" ref_description="SGN-E303478 [cLEX-2-O1]">
      <seq>tagatccctcattctaaaagctcttttcagggatcatcatcaaggaagcgtgatggggctcacattcaccaagctcttcagtcggcttttcgccaagaaggaaatgcgcattctaatggttggtcttgatgcagctggtaagaccaccatattgtacaagttgaagctgggagagatcgtgactactattcctaccattggtttcaatgtggagactgttgagtacaagaacatcagcttcactgtttgggatgtcggaggtcaggacaagatccgtccattgtggaggcactacttccagaacactcagggtctcatttttgtggttgatagcaatgatagagaccgtgttgtagaagcaagagatgaattgcataggatgttgaacgaggatgaacttcgggatgctgtgcttctagtatttgctaacaaacaagatcttcctaacgcaatgaatgctgctgaaataactgataagcttggactgcactccctcaggcagcgtcactggtacatccagagcacttgtgcaacttctggcaaggggctttatgagggac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38246" stop="42019"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38548" g_stop="38717" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="31" r_stop="200" r_length="170" r_score="0.888"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.92"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="201" r_stop="271" r_length="71" r_score="0.986"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.955" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="272" r_stop="391" r_length="120" r_score="0.900"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.90"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41716" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="392" r_stop="510" r_length="119" r_score="0.916"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="41717" i_stop="41788" i_length="72">
            <donor d_prob="0.233" d_score="0.94"/>
            <acceptor a_prob="0.874" a_score="0.82"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="41789" g_stop="41838" g_length="50"/>
          <reference_exon_boundary r_type="cDNA" r_start="511" r_stop="560" r_length="50" r_score="0.820"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E303478" ref_strand="+">
        <total_alignment_score>0.904</total_alignment_score>
        <cumulative_length_of_scored_exons>530</cumulative_length_of_scored_exons>
        <coverage percentage="0.946" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E303478" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38548" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41716"/>
          <exon e_start="41789" e_stop="41838"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATCACCAACAAGAAGGAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTCTCTTAGGCAGCGTCACTGGTAGGCACACTGGCTAGCAGTTGTGAAAGCTTCCCTGCTGGATGCACTAAATTTGGTCACGACTACTTTCAGGTACATTCAGAGCACCTGCGCAACATCAGGAGAGGGACTTTATGAGGGTC</genome_strand>
        <mrna_strand>GGATCATCATCAAGGAAGCGTGATGGGGCTCACATTCACCAAGCTCTTCAGTCGGCTTTTCGCCAAGAAGGAAATGCGCATTCTAATGGTTGGTCTTGATGCAGCTGGTAAGACCACCATATTGTACAAGTTGAAGCTGGGAGAGATCGTGACTACTATTCCTACCATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGAGGTCAGGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTACTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGATAGAGACCGTGTTGTAGAAGCAAGAGATGAATTGCATAGGATGTTGAACGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAACTTCGGGATGCTGTGCTTCTAGTATTTGCTAACAAACAAGATCTTCCTAACGCAATGAATGCTGCTGAAATAACTGATAAGCTTGGACTGCACTCCCTCAGGCAGCGTCACTG........................................................................GTACATCCAGAGCACTTGTGCAACTTCTGGCAAGGGGCTTTATGAGGGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E367162" ref_strand="+" ref_description="SGN-E367162 [cLPT-5-H14]">
      <seq>tcattctaaaagctcttttcagggatcatcatcaaggaagcgtgatggggctcacattcaccaagctcttcagtcggcttttcgccaagaaggaaatgcgcattctaatggttggtcttgatgcagctggtaagaccaccatattatacaagttgaagctgggagagatcgtgactactattcctaccattggtttcaatgtggagactgttgagtacaagaacatcagcttcactgtttgggatgtcggaggtcaggacaagatccgtccattgtggaagcactacttccagaacactcagggtctcatttttgtggttgatagcaatgatagagaccgtgttgtagaagcaagagatgaattgcataggatgttgaacgaggatgaacttcgggatgctgtgcttctagtatttgctaacaaacaagatcttcctaatgcaatgaatgctgctgaaataactgataagcttggactgcactccctcaggcagcgtcactggtacatccagagcacttgtgcaacttctggtgaggggcttta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38246" stop="42019"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38548" g_stop="38717" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="23" r_stop="192" r_length="170" r_score="0.882"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.90"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="193" r_stop="263" r_length="71" r_score="0.986"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.955" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="264" r_stop="383" r_length="120" r_score="0.892"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.90"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41716" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="384" r_stop="502" r_length="119" r_score="0.924"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="41717" i_stop="41788" i_length="72">
            <donor d_prob="0.233" d_score="0.94"/>
            <acceptor a_prob="0.874" a_score="0.83"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="41789" g_stop="41830" g_length="42"/>
          <reference_exon_boundary r_type="cDNA" r_start="503" r_stop="544" r_length="42" r_score="0.833"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E367162" ref_strand="+">
        <total_alignment_score>0.910</total_alignment_score>
        <cumulative_length_of_scored_exons>522</cumulative_length_of_scored_exons>
        <coverage percentage="0.960" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E367162" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38548" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41716"/>
          <exon e_start="41789" e_stop="41830"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATCACCAACAAGAAGGAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTCTCTTAGGCAGCGTCACTGGTAGGCACACTGGCTAGCAGTTGTGAAAGCTTCCCTGCTGGATGCACTAAATTTGGTCACGACTACTTTCAGGTACATTCAGAGCACCTGCGCAACATCAGGAGAGGGACTTTA</genome_strand>
        <mrna_strand>GGATCATCATCAAGGAAGCGTGATGGGGCTCACATTCACCAAGCTCTTCAGTCGGCTTTTCGCCAAGAAGGAAATGCGCATTCTAATGGTTGGTCTTGATGCAGCTGGTAAGACCACCATATTATACAAGTTGAAGCTGGGAGAGATCGTGACTACTATTCCTACCATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGAGGTCAGGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAAGCACTACTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGATAGAGACCGTGTTGTAGAAGCAAGAGATGAATTGCATAGGATGTTGAACGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAACTTCGGGATGCTGTGCTTCTAGTATTTGCTAACAAACAAGATCTTCCTAATGCAATGAATGCTGCTGAAATAACTGATAAGCTTGGACTGCACTCCCTCAGGCAGCGTCACTG........................................................................GTACATCCAGAGCACTTGTGCAACTTCTGGTGAGGGGCTTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E261223" ref_strand="+" ref_description="SGN-E261223 [cLEG-65-N17]">
      <seq>ctttctctcactagatccctctttgcccaagctgttcttcagggatcgttaagaagaaagagaaatggggttgacattcaccaagcttttcagccggctatttgccaagaaggaaatgcgcatcctcatggttggactcgatgcagctggtaagaccaccatattgtacaagctcaagctgggagaaatcgtcaccaccattccaactattggtttcaatgtggaaactgttgaatacaagaacatcagcttcaccgtttgggatgtcaggggtcaagacaagatccgtccattgtggaggcactatttccagaacactcagggtctcatttttgtggttgatagcaatgacagagaccgtgtaggggaggcaagagatgaattgcacaggatgttgaatgaggatgagcttcgggatgctgtgttgcttgtttttgctaacaaacaagatcttcctaatgcaatgaatgctgctgaaataaccgacaagcttggactccactccctcaggcagcgtcactggtacatccaaagcacttgtgcaacttctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38256" stop="42019"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38548" g_stop="38717" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="212" r_length="170" r_score="0.876"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.86"/>
            <acceptor a_prob="0.996" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="213" r_stop="283" r_length="71" r_score="0.930"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.92"/>
            <acceptor a_prob="0.955" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="284" r_stop="403" r_length="120" r_score="0.917"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41716" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="404" r_stop="522" r_length="119" r_score="0.908"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="41717" i_stop="41788" i_length="72">
            <donor d_prob="0.233" d_score="0.88"/>
            <acceptor a_prob="0.874" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="41789" g_stop="41817" g_length="29"/>
          <reference_exon_boundary r_type="cDNA" r_start="523" r_stop="551" r_length="29" r_score="0.793"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E261223" ref_strand="+">
        <total_alignment_score>0.902</total_alignment_score>
        <cumulative_length_of_scored_exons>509</cumulative_length_of_scored_exons>
        <coverage percentage="0.924" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E261223" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38548" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41716"/>
          <exon e_start="41789" e_stop="41817"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATCACCAACAAGAAGGAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTCTCTTAGGCAGCGTCACTGGTAGGCACACTGGCTAGCAGTTGTGAAAGCTTCCCTGCTGGATGCACTAAATTTGGTCACGACTACTTTCAGGTACATTCAGAGCACCTGCGCAACATCAG</genome_strand>
        <mrna_strand>GGATCGTTAAGAAGAAAGAGAAATGGGGTTGACATTCACCAAGCTTTTCAGCCGGCTATTTGCCAAGAAGGAAATGCGCATCCTCATGGTTGGACTCGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGAGAAATCGTCACCACCATTCCAACTATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAAACTGTTGAATACAAGAACATCAGCTTCACCGTTTGGGATGTCAGGGGTCAAGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGACAGAGACCGTGTAGGGGAGGCAAGAGATGAATTGCACAGGATGTTGAATGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAGCTTCGGGATGCTGTGTTGCTTGTTTTTGCTAACAAACAAGATCTTCCTAATGCAATGAATGCTGCTGAAATAACCGACAAGCTTGGACTCCACTCCCTCAGGCAGCGTCACTG........................................................................GTACATCCAAAGCACTTGTGCAACTTCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E290015" ref_strand="+" ref_description="SGN-E290015 [cLET-5-E23]">
      <seq>gctttctctcactagatccctctttgcccaagctgttcttcagggatcgttaagaagaaagagaaatggggttgacattcaccaagcttttcagccggctatttgccaagaaggaaatgcgcatcctcatggttggactcgatgcagctggtaagaccaccatattgtacaagctcaagctgggagaaatcgtcaccaccattccaactattggtttcaatgtggaaactgttgaatacaagaacatcagcttcaccgtttgggatgtcgggggtcaagacaagatccgtccattgtggaggcactatttccagaacactcagggtctcatttttgtggttgatagcaatgacagagaccgtgtaggggaggcaagagatgaattgcacaggatgttgaatgaggatgagcttcgggatgctgtgttgcttgtttttgctaacaaacaagatcttcctaatgcaatgaatgctgctgaaataaccgacaagcttggactccactccctcaggcagcgtcactggtacatccaaagcacttgtgcaacttctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38256" stop="42019"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38548" g_stop="38717" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="44" r_stop="213" r_length="170" r_score="0.876"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.86"/>
            <acceptor a_prob="0.996" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="214" r_stop="284" r_length="71" r_score="0.944"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.94"/>
            <acceptor a_prob="0.955" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="285" r_stop="404" r_length="120" r_score="0.917"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41716" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="405" r_stop="523" r_length="119" r_score="0.908"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="41717" i_stop="41788" i_length="72">
            <donor d_prob="0.233" d_score="0.88"/>
            <acceptor a_prob="0.874" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="41789" g_stop="41817" g_length="29"/>
          <reference_exon_boundary r_type="cDNA" r_start="524" r_stop="552" r_length="29" r_score="0.793"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E290015" ref_strand="+">
        <total_alignment_score>0.904</total_alignment_score>
        <cumulative_length_of_scored_exons>509</cumulative_length_of_scored_exons>
        <coverage percentage="0.922" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E290015" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38548" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41716"/>
          <exon e_start="41789" e_stop="41817"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATCACCAACAAGAAGGAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTCTCTTAGGCAGCGTCACTGGTAGGCACACTGGCTAGCAGTTGTGAAAGCTTCCCTGCTGGATGCACTAAATTTGGTCACGACTACTTTCAGGTACATTCAGAGCACCTGCGCAACATCAG</genome_strand>
        <mrna_strand>GGATCGTTAAGAAGAAAGAGAAATGGGGTTGACATTCACCAAGCTTTTCAGCCGGCTATTTGCCAAGAAGGAAATGCGCATCCTCATGGTTGGACTCGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGAGAAATCGTCACCACCATTCCAACTATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAAACTGTTGAATACAAGAACATCAGCTTCACCGTTTGGGATGTCGGGGGTCAAGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGACAGAGACCGTGTAGGGGAGGCAAGAGATGAATTGCACAGGATGTTGAATGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAGCTTCGGGATGCTGTGTTGCTTGTTTTTGCTAACAAACAAGATCTTCCTAATGCAATGAATGCTGCTGAAATAACCGACAAGCTTGGACTCCACTCCCTCAGGCAGCGTCACTG........................................................................GTACATCCAAAGCACTTGTGCAACTTCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E208966" ref_strand="+" ref_description="SGN-E208966 [cLEC-38-C22]">
      <seq>tcgtgctttctctcactagatccctctttgcccaagctgttcttcagggatcgttaagaagaaagagaaatggggttgacattcaccaagcttttcagccggctatttgccaagaaggaaatgcgcatcctcatggttggactcgatgcagctggtaagaccaccatattgtacaagctcaagctgggagaaatcgtcaccaccattccaactattggtttcaatgtggaaactgttgaatacaagaacatcagcttcaccgtttgggatgtcgggggtcaagacaagatccgtccattgtggaggcactatttccagaacactcagggtctcatttttgtggttgatagcaatgacagagaccgtgtaggggaggcaagagatgaattgcacaggatgttgaatgaggatgagcttcgggatgctgtgttgcttgtttttgctaacaaacaagatcttcctaatgcaatgaatgctgctgaaataaccgacaagcttggactccactccctcaggcagcgtcactggtacatccaaagcacttgtg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38256" stop="42019"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38548" g_stop="38717" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="48" r_stop="217" r_length="170" r_score="0.876"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.86"/>
            <acceptor a_prob="0.996" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="218" r_stop="288" r_length="71" r_score="0.944"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.94"/>
            <acceptor a_prob="0.955" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="289" r_stop="408" r_length="120" r_score="0.917"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41716" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="409" r_stop="527" r_length="119" r_score="0.908"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="41717" i_stop="41788" i_length="72">
            <donor d_prob="0.233" d_score="0.88"/>
            <acceptor a_prob="0.874" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="41789" g_stop="41808" g_length="20"/>
          <reference_exon_boundary r_type="cDNA" r_start="528" r_stop="547" r_length="20" r_score="0.800"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E208966" ref_strand="+">
        <total_alignment_score>0.904</total_alignment_score>
        <cumulative_length_of_scored_exons>500</cumulative_length_of_scored_exons>
        <coverage percentage="0.914" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E208966" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38548" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41716"/>
          <exon e_start="41789" e_stop="41808"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATCACCAACAAGAAGGAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTCTCTTAGGCAGCGTCACTGGTAGGCACACTGGCTAGCAGTTGTGAAAGCTTCCCTGCTGGATGCACTAAATTTGGTCACGACTACTTTCAGGTACATTCAGAGCACCTGCG</genome_strand>
        <mrna_strand>GGATCGTTAAGAAGAAAGAGAAATGGGGTTGACATTCACCAAGCTTTTCAGCCGGCTATTTGCCAAGAAGGAAATGCGCATCCTCATGGTTGGACTCGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGAGAAATCGTCACCACCATTCCAACTATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAAACTGTTGAATACAAGAACATCAGCTTCACCGTTTGGGATGTCGGGGGTCAAGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGACAGAGACCGTGTAGGGGAGGCAAGAGATGAATTGCACAGGATGTTGAATGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAGCTTCGGGATGCTGTGTTGCTTGTTTTTGCTAACAAACAAGATCTTCCTAATGCAATGAATGCTGCTGAAATAACCGACAAGCTTGGACTCCACTCCCTCAGGCAGCGTCACTG........................................................................GTACATCCAAAGCACTTGTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E206440" ref_strand="+" ref_description="SGN-E206440 [cLEC-23-K21]">
      <seq>tttctctcactagatccctctttgcccaagctgttcttcggggatcgttaagaagaaagagaaatggggttgacattcaccaagcttttcagccggctatttgccaagaaggaaatgcgcatcctcatggttggactcgatgcagctggtaagaccaccatattgtacaagctcaagctgggagaaatcgtcaccaccattccaactattggtttcaatgtggaaactgttgaatacaagaacatcagcttcaccgtttgggatgtcgggggtcaagacaagatccgtccattgtggaggcactatttccagaacactcagggtctcatttttgtggttgatagcaatgacagagaccgtgtaggggaggcaagagatgaattgcacaggatgttgaatgaggatgagcttcgggatgctgtgttgcttgtttttgctaacaaacaagatcttcctaatgcaatgaatgctgctgaaataaccgacaagcttggactccactccctcaggcagcgtcactggtacatccaaagcactt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38256" stop="42019"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38548" g_stop="38717" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="211" r_length="170" r_score="0.876"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.86"/>
            <acceptor a_prob="0.996" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="212" r_stop="282" r_length="71" r_score="0.944"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.94"/>
            <acceptor a_prob="0.955" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="283" r_stop="402" r_length="120" r_score="0.917"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41716" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="403" r_stop="521" r_length="119" r_score="0.908"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="41717" i_stop="41788" i_length="72">
            <donor d_prob="0.233" d_score="0.88"/>
            <acceptor a_prob="0.874" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="41789" g_stop="41805" g_length="17"/>
          <reference_exon_boundary r_type="cDNA" r_start="522" r_stop="538" r_length="17" r_score="0.824"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E206440" ref_strand="+">
        <total_alignment_score>0.904</total_alignment_score>
        <cumulative_length_of_scored_exons>497</cumulative_length_of_scored_exons>
        <coverage percentage="0.924" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E206440" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38548" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41716"/>
          <exon e_start="41789" e_stop="41805"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATCACCAACAAGAAGGAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTCTCTTAGGCAGCGTCACTGGTAGGCACACTGGCTAGCAGTTGTGAAAGCTTCCCTGCTGGATGCACTAAATTTGGTCACGACTACTTTCAGGTACATTCAGAGCACCT</genome_strand>
        <mrna_strand>GGATCGTTAAGAAGAAAGAGAAATGGGGTTGACATTCACCAAGCTTTTCAGCCGGCTATTTGCCAAGAAGGAAATGCGCATCCTCATGGTTGGACTCGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGAGAAATCGTCACCACCATTCCAACTATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAAACTGTTGAATACAAGAACATCAGCTTCACCGTTTGGGATGTCGGGGGTCAAGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGACAGAGACCGTGTAGGGGAGGCAAGAGATGAATTGCACAGGATGTTGAATGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAGCTTCGGGATGCTGTGTTGCTTGTTTTTGCTAACAAACAAGATCTTCCTAATGCAATGAATGCTGCTGAAATAACCGACAAGCTTGGACTCCACTCCCTCAGGCAGCGTCACTG........................................................................GTACATCCAAAGCACTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E266002" ref_strand="+" ref_description="SGN-E266002 [cLEI-6-D8]">
      <seq>ctttgcccaagctgttcttcagggatcgttaagaagaaagagaaatggggttgacattcaccaagcttttcagccggctatttgccaagaaggaaatgcgcatcctcatggttggactcgatgcagctggtaagaccaccatattgtacaagctcaagctgggagaaatcgtcaccaccattccaactattggtttcaatgtggaaactgttgaatacaagaacatcagcttcaccgtttgggatgtcgggggtcaagacaagatccgtccattgtggaggcactatttccagaacactcagggtctcatttttgtggttgatagcaatgacagagaccgtgtaggggaggcaagagatgaattgcacaggatgttgaatgaggatgagcttcgggatgctgtgttgcttgtttttgctaacaaacaagatcttcctaatgcaatgaatgctgctgaaataaccgacaagcttggactccactccctcaggcagcgtcactggtacatccaaagcactt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38256" stop="42019"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38548" g_stop="38717" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="23" r_stop="192" r_length="170" r_score="0.876"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.86"/>
            <acceptor a_prob="0.996" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="193" r_stop="263" r_length="71" r_score="0.944"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.94"/>
            <acceptor a_prob="0.955" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="264" r_stop="383" r_length="120" r_score="0.917"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41716" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="384" r_stop="502" r_length="119" r_score="0.908"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="41717" i_stop="41788" i_length="72">
            <donor d_prob="0.233" d_score="0.88"/>
            <acceptor a_prob="0.874" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="41789" g_stop="41805" g_length="17"/>
          <reference_exon_boundary r_type="cDNA" r_start="503" r_stop="519" r_length="17" r_score="0.824"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E266002" ref_strand="+">
        <total_alignment_score>0.904</total_alignment_score>
        <cumulative_length_of_scored_exons>497</cumulative_length_of_scored_exons>
        <coverage percentage="0.958" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E266002" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38548" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41716"/>
          <exon e_start="41789" e_stop="41805"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATCACCAACAAGAAGGAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTCTCTTAGGCAGCGTCACTGGTAGGCACACTGGCTAGCAGTTGTGAAAGCTTCCCTGCTGGATGCACTAAATTTGGTCACGACTACTTTCAGGTACATTCAGAGCACCT</genome_strand>
        <mrna_strand>GGATCGTTAAGAAGAAAGAGAAATGGGGTTGACATTCACCAAGCTTTTCAGCCGGCTATTTGCCAAGAAGGAAATGCGCATCCTCATGGTTGGACTCGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGAGAAATCGTCACCACCATTCCAACTATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAAACTGTTGAATACAAGAACATCAGCTTCACCGTTTGGGATGTCGGGGGTCAAGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGACAGAGACCGTGTAGGGGAGGCAAGAGATGAATTGCACAGGATGTTGAATGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAGCTTCGGGATGCTGTGTTGCTTGTTTTTGCTAACAAACAAGATCTTCCTAATGCAATGAATGCTGCTGAAATAACCGACAAGCTTGGACTCCACTCCCTCAGGCAGCGTCACTG........................................................................GTACATCCAAAGCACTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E231142" ref_strand="+" ref_description="SGN-E231142 [cLED-5-I15]">
      <seq>attctcgtgctttctctcactagatccctctttgcccaagctgttcttcagggatcgttaagaagaaagagaaatggggttgacattcaccaagcttttcagccggctatttgccaagaaggaaatgcgcatcctcatggttggactcgatgcagctggtaagaccaccatattgtacaagctcaagctgggagaaatcgtcaccaccattccaactattggtttcaatgtggaaactgttgaatacaagaacatcagcttcaccgtttgggatgtcgggggtcaagacaagatccgtccattgtggaggcactatttccagaacactcagggtctcatttttgtggttgatagcaatgacagagaccgtgtaggggaggcaagagatgaattgcacaggatgttgaatgaggatgagcttcgggatgctgtgttgcttgtttttgctaacaaacaagatcttcctaatgcaatgaatgctgctgaaataaccgacaagctnggactccactccctcaggcagcgtcactggtaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38256" stop="42019"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38548" g_stop="38717" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="52" r_stop="221" r_length="170" r_score="0.876"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.86"/>
            <acceptor a_prob="0.996" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="222" r_stop="292" r_length="71" r_score="0.944"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.94"/>
            <acceptor a_prob="0.955" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="293" r_stop="412" r_length="120" r_score="0.917"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41716" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="413" r_stop="531" r_length="119" r_score="0.899"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="41717" i_stop="41788" i_length="72">
            <donor d_prob="0.233" d_score="0.86"/>
            <acceptor a_prob="0.874" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="41789" g_stop="41793" g_length="5"/>
          <reference_exon_boundary r_type="cDNA" r_start="532" r_stop="536" r_length="5" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E231142" ref_strand="+">
        <total_alignment_score>0.902</total_alignment_score>
        <cumulative_length_of_scored_exons>485</cumulative_length_of_scored_exons>
        <coverage percentage="0.905" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E231142" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38548" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41716"/>
          <exon e_start="41789" e_stop="41793"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATCACCAACAAGAAGGAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTCTCTTAGGCAGCGTCACTGGTAGGCACACTGGCTAGCAGTTGTGAAAGCTTCCCTGCTGGATGCACTAAATTTGGTCACGACTACTTTCAGGTACA</genome_strand>
        <mrna_strand>GGATCGTTAAGAAGAAAGAGAAATGGGGTTGACATTCACCAAGCTTTTCAGCCGGCTATTTGCCAAGAAGGAAATGCGCATCCTCATGGTTGGACTCGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGAGAAATCGTCACCACCATTCCAACTATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAAACTGTTGAATACAAGAACATCAGCTTCACCGTTTGGGATGTCGGGGGTCAAGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGACAGAGACCGTGTAGGGGAGGCAAGAGATGAATTGCACAGGATGTTGAATGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAGCTTCGGGATGCTGTGTTGCTTGTTTTTGCTAACAAACAAGATCTTCCTAATGCAATGAATGCTGCTGAAATAACCGACAAGCTNGGACTCCACTCCCTCAGGCAGCGTCACTG........................................................................GTACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E336418" ref_strand="+" ref_description="SGN-E336418 [cTOE-4-K3]">
      <seq>tttgcccaagctgttcttcagggatcgttaagaagaaagagaaatggggttgacattcaccaagcttttcagccggctatttgccaagaaggaaatgcgcatcctcatggttggactcgatgcagctggtaagaccaccatattgtacaagctcaagctgggagaaatcgtcaccaccattccaactattggtttcaatgtggaaactgttgaatacaagaacatcagcttcaccgtttgggatgtcgggggtcaagacaagatccgtccattgtggaggcactatttccagaacactcagggtctcatttttgtggttgatagcaatgacagagaccgtgtaggggaggcaagagatgaattgcacaggatgttgaatgaggatgagcttcgggatgctgtgttgcttgtttttgctaacaaacaagatcttcctaatgcaatgaatgctgctgaaataaccgacaagcttggactccactccctcaggcagcgtcact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38256" stop="42015"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38548" g_stop="38717" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="22" r_stop="191" r_length="170" r_score="0.876"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.86"/>
            <acceptor a_prob="0.996" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="192" r_stop="262" r_length="71" r_score="0.944"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.94"/>
            <acceptor a_prob="0.955" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="263" r_stop="382" r_length="120" r_score="0.917"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41715" g_length="118"/>
          <reference_exon_boundary r_type="cDNA" r_start="383" r_stop="500" r_length="118" r_score="0.907"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E336418" ref_strand="+">
        <total_alignment_score>0.904</total_alignment_score>
        <cumulative_length_of_scored_exons>479</cumulative_length_of_scored_exons>
        <coverage percentage="0.958" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E336418" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38548" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41715"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATCACCAACAAGAAGGAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTCTCTTAGGCAGCGTCACT</genome_strand>
        <mrna_strand>GGATCGTTAAGAAGAAAGAGAAATGGGGTTGACATTCACCAAGCTTTTCAGCCGGCTATTTGCCAAGAAGGAAATGCGCATCCTCATGGTTGGACTCGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGAGAAATCGTCACCACCATTCCAACTATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAAACTGTTGAATACAAGAACATCAGCTTCACCGTTTGGGATGTCGGGGGTCAAGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGACAGAGACCGTGTAGGGGAGGCAAGAGATGAATTGCACAGGATGTTGAATGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAGCTTCGGGATGCTGTGTTGCTTGTTTTTGCTAACAAACAAGATCTTCCTAATGCAATGAATGCTGCTGAAATAACCGACAAGCTTGGACTCCACTCCCTCAGGCAGCGTCACT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E293397" ref_strand="+" ref_description="SGN-E293397 [cLET-18-N7]">
      <seq>aggtttctctctcaatagatccctcattctaaaagctcttttcagggatcatcatcaaggaagcgtgatggggctcacattcaccaagctcttcagtcggcttttcgccaagaaggaaatgcgcattctaatggttggtcttgatgcagctggtaagaccaccatattgtacaagttgaagctgggagagatcgtgactactattcctaccattggtttcaatgtggagactgttgagtacaagaacatcagcttcactgtttgggatgtcggaggtcaggacaagatccgtccattgtggaggcactacttccagaacactcagggtctcatttttgtggttgatagcaatgatagagaccgtgttgtagaagcaagagatgaattgcataggatgttgaacgaggatgaacttcgggatgctgggcttctagtatttgctaacaaacaagatcttcctaacgcaatgaatgctgctgaaataactgataagcttggactgcactccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38246" stop="42000"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38548" g_stop="38717" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="46" r_stop="215" r_length="170" r_score="0.888"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.92"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="216" r_stop="286" r_length="71" r_score="0.986"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.955" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="287" r_stop="406" r_length="120" r_score="0.900"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.88"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41700" g_length="103"/>
          <reference_exon_boundary r_type="cDNA" r_start="407" r_stop="509" r_length="103" r_score="0.903"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E293397" ref_strand="+">
        <total_alignment_score>0.909</total_alignment_score>
        <cumulative_length_of_scored_exons>464</cumulative_length_of_scored_exons>
        <coverage percentage="0.912" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E293397" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38548" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41700"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATCACCAACAAGAAGGAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTCTC</genome_strand>
        <mrna_strand>GGATCATCATCAAGGAAGCGTGATGGGGCTCACATTCACCAAGCTCTTCAGTCGGCTTTTCGCCAAGAAGGAAATGCGCATTCTAATGGTTGGTCTTGATGCAGCTGGTAAGACCACCATATTGTACAAGTTGAAGCTGGGAGAGATCGTGACTACTATTCCTACCATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGAGGTCAGGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTACTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGATAGAGACCGTGTTGTAGAAGCAAGAGATGAATTGCATAGGATGTTGAACGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAACTTCGGGATGCTGGGCTTCTAGTATTTGCTAACAAACAAGATCTTCCTAACGCAATGAATGCTGCTGAAATAACTGATAAGCTTGGACTGCACTCCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E247878" ref_strand="+" ref_description="SGN-E247878 [cLEF-47-I18]">
      <seq>tcaggtttctctctcaatagatccctcattctaaaagctcttttcagggatcatcatcaaggaagcgtgatggggctcacattcaccaagctcttcagtcggcttttcgccaagaaggaaatgcgcattctaatggttggtcttgatgcagctggtaagaccaccatattgtacaagttgaagctgggagagatcgtgactactattcctaccattggtttcaatgtggagactgttgagtacaagaacatcagcttcactgtttgggatgtcggaggtcaggacaagatccgtccattgtggaggcactacttccagaacactcagggtctcatttttgtggttgatagcaatgatagagaccgtgttgtagaagcaagagatgaattgcataggatgttgaacgaggatgaacttcgggatgctgtgcttctagtatttgctaacaaacaagatcttcctaacgcaatgaatgctgctgaaataactgataagcttggactgcactccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38246" stop="42000"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38548" g_stop="38717" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="48" r_stop="217" r_length="170" r_score="0.888"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.92"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="218" r_stop="288" r_length="71" r_score="0.986"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.955" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="289" r_stop="408" r_length="120" r_score="0.900"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.90"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41700" g_length="103"/>
          <reference_exon_boundary r_type="cDNA" r_start="409" r_stop="511" r_length="103" r_score="0.913"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E247878" ref_strand="+">
        <total_alignment_score>0.912</total_alignment_score>
        <cumulative_length_of_scored_exons>464</cumulative_length_of_scored_exons>
        <coverage percentage="0.908" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E247878" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38548" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41700"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATCACCAACAAGAAGGAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTCTC</genome_strand>
        <mrna_strand>GGATCATCATCAAGGAAGCGTGATGGGGCTCACATTCACCAAGCTCTTCAGTCGGCTTTTCGCCAAGAAGGAAATGCGCATTCTAATGGTTGGTCTTGATGCAGCTGGTAAGACCACCATATTGTACAAGTTGAAGCTGGGAGAGATCGTGACTACTATTCCTACCATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGAGGTCAGGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTACTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGATAGAGACCGTGTTGTAGAAGCAAGAGATGAATTGCATAGGATGTTGAACGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAACTTCGGGATGCTGTGCTTCTAGTATTTGCTAACAAACAAGATCTTCCTAACGCAATGAATGCTGCTGAAATAACTGATAAGCTTGGACTGCACTCCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E254510" ref_strand="+" ref_description="SGN-E254510 [cLEG-29-A24]">
      <seq>ctttctctcactagatccctctttgcccaagctgttcttcagggatcgttaagaagaaagagaaatggggttgacattcaccaagcttttcagccggctatttgccaagaaggaaatgcgcatcctcatggttggactcgatgcagctggtaagaccaccatattgtacaagctcaagctgggagaaatcgtcaccaccattccaactattggtttcaatgtggaaactgttgaatacaagaacatcagcttcaccgtttgggatgtcgggggtcaagacaagatccgtccattgtggaggcactatttccagaacactcagggtctcatttttgtggttgatagcaatgacagagaccgtgtaggggaggcaagagatgaattgcacaggatgttgaatgaggatgagcttcgggatgctgtgttgcttgtttttgctaacaaacaagatcttcctaatgcaatgaatgctgctgaaataaccgacaagcttggactccact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38256" stop="41997"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38548" g_stop="38717" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="212" r_length="170" r_score="0.876"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.86"/>
            <acceptor a_prob="0.996" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="213" r_stop="283" r_length="71" r_score="0.944"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.94"/>
            <acceptor a_prob="0.955" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="284" r_stop="403" r_length="120" r_score="0.917"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41697" g_length="100"/>
          <reference_exon_boundary r_type="cDNA" r_start="404" r_stop="503" r_length="100" r_score="0.910"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E254510" ref_strand="+">
        <total_alignment_score>0.905</total_alignment_score>
        <cumulative_length_of_scored_exons>461</cumulative_length_of_scored_exons>
        <coverage percentage="0.917" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E254510" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38548" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41697"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATCACCAACAAGAAGGAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACT</genome_strand>
        <mrna_strand>GGATCGTTAAGAAGAAAGAGAAATGGGGTTGACATTCACCAAGCTTTTCAGCCGGCTATTTGCCAAGAAGGAAATGCGCATCCTCATGGTTGGACTCGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGAGAAATCGTCACCACCATTCCAACTATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAAACTGTTGAATACAAGAACATCAGCTTCACCGTTTGGGATGTCGGGGGTCAAGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGACAGAGACCGTGTAGGGGAGGCAAGAGATGAATTGCACAGGATGTTGAATGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAGCTTCGGGATGCTGTGTTGCTTGTTTTTGCTAACAAACAAGATCTTCCTAATGCAATGAATGCTGCTGAAATAACCGACAAGCTTGGACTCCACT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E361733" ref_strand="+" ref_description="SGN-E361733 [cLPP-12-J12]">
      <seq>ttcttcagggatcgttaagaagaaagagaaatggggttgacattcaccaagcttttcagccggctatttgccaagaaggaaatgcgcatcctcatggttggactcgatgcagctggtaagaccaccatattgtacaagctcaagctgggagaaatcgtcaccaccattccaactattggtttcaatgtggaaactgttgaatacaagaacatcagcttcaccgtttgggatgtcgggggtcaagacaagatccgtccattgtggaggcactatttccagaacactcanggtctcatttttgtggttgatagcaatgacagagaccgtgtaggggaggcaagagatgaattgcacaggatgttgaatgaggatgagcttcgggatgctgtgttgcttgtttttgctaacaaacaagatcttcctaatgcaatgaatgctgctgaaataaccgacaagcttggactccac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38256" stop="41996"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38548" g_stop="38717" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="9" r_stop="178" r_length="170" r_score="0.876"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.86"/>
            <acceptor a_prob="0.996" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="179" r_stop="249" r_length="71" r_score="0.944"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.94"/>
            <acceptor a_prob="0.955" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="250" r_stop="369" r_length="120" r_score="0.908"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41696" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="370" r_stop="468" r_length="99" r_score="0.909"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E361733" ref_strand="+">
        <total_alignment_score>0.902</total_alignment_score>
        <cumulative_length_of_scored_exons>460</cumulative_length_of_scored_exons>
        <coverage percentage="0.983" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E361733" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38548" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41696"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATCACCAACAAGAAGGAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCAC</genome_strand>
        <mrna_strand>GGATCGTTAAGAAGAAAGAGAAATGGGGTTGACATTCACCAAGCTTTTCAGCCGGCTATTTGCCAAGAAGGAAATGCGCATCCTCATGGTTGGACTCGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGAGAAATCGTCACCACCATTCCAACTATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAAACTGTTGAATACAAGAACATCAGCTTCACCGTTTGGGATGTCGGGGGTCAAGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTATTTCCAGAACACTCANGGTCTCATTTTTGTGGTTGATAGCAATGACAGAGACCGTGTAGGGGAGGCAAGAGATGAATTGCACAGGATGTTGAATGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAGCTTCGGGATGCTGTGTTGCTTGTTTTTGCTAACAAACAAGATCTTCCTAATGCAATGAATGCTGCTGAAATAACCGACAAGCTTGGACTCCAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E246761" ref_strand="+" ref_description="SGN-E246761 [cLEF-45-F10]">
      <seq>cgtgctttctctcactagatccctctttgcccaagctgttcttcagggatcgttaagaagaaagagaaatggggttgacattcaccaagcttttcagccggctatttgccaagaaggaaatgcgcatcctcatggttggactcgatgcagctggtaagaccaccatattgtacaagctcaagctgggagaaatcgtcaccaccattccaactattggtttcaatgtggaaactgttgaatacaagaacatcagcttcaccgtttgggatgtcgggggtcaagacaagatccgtccattgtggaggcactatttccagaacactcagggtctcatttttgtggttgatagcaatgacagagaccgtgtaggggaggcaagagatgaattgcacaggatgttgaatgaggatgagcttcnggatgctgtgttgcttgtttttgctaacaaacaagatcttcctaatgcaatgaatgctgctgaaataaccgacaagcttggac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38256" stop="41991"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38548" g_stop="38717" g_length="170"/>
          <reference_exon_boundary r_type="cDNA" r_start="47" r_stop="216" r_length="170" r_score="0.876"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.86"/>
            <acceptor a_prob="0.996" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="217" r_stop="287" r_length="71" r_score="0.944"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.94"/>
            <acceptor a_prob="0.955" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="288" r_stop="407" r_length="120" r_score="0.917"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.90"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41691" g_length="94"/>
          <reference_exon_boundary r_type="cDNA" r_start="408" r_stop="501" r_length="94" r_score="0.904"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E246761" ref_strand="+">
        <total_alignment_score>0.903</total_alignment_score>
        <cumulative_length_of_scored_exons>455</cumulative_length_of_scored_exons>
        <coverage percentage="0.908" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E246761" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38548" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41691"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATCACCAACAAGAAGGAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGAC</genome_strand>
        <mrna_strand>GGATCGTTAAGAAGAAAGAGAAATGGGGTTGACATTCACCAAGCTTTTCAGCCGGCTATTTGCCAAGAAGGAAATGCGCATCCTCATGGTTGGACTCGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGAGAAATCGTCACCACCATTCCAACTATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAAACTGTTGAATACAAGAACATCAGCTTCACCGTTTGGGATGTCGGGGGTCAAGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGACAGAGACCGTGTAGGGGAGGCAAGAGATGAATTGCACAGGATGTTGAATGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAGCTTCNGGATGCTGTGTTGCTTGTTTTTGCTAACAAACAAGATCTTCCTAATGCAATGAATGCTGCTGAAATAACCGACAAGCTTGGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E337638" ref_strand="+" ref_description="SGN-E337638 [cTOE-11-H18]">
      <seq>gaaagagaaatggggttgacattcaccaagcttttcagccggctatttgccaagaaggaaatgcgcatcctcatggttggactcgatgcagctggtaagaccaccatattgtacaagctcaagctgggagaaatcgtcaccaccattccaactattggtttcaatgtggaaactgttgaatacaagaacatcagcttcaccgtttgggatgtcgggggtcaagacaagatccgtccattgtggaggcactatttccagaacactcagggtctcatttttgtggttgatagcaatgacagagaccgtgtaggggaggcaagagatgaattgcacaggatgttgaatgaggatgagcttcgggatgctgtgttgcttgtttttgctaacaaacaagatcttcctaatgcaatgaatgctgctgaaataaccgacaagcttggactccactccctcaggcagcgtcactggtacatccaaagcacttgtgcaacttctggagagggactctatgagggtcttgattggctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38261" stop="42148"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38561" g_stop="38717" g_length="157"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="157" r_length="157" r_score="0.892"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.86"/>
            <acceptor a_prob="0.996" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="158" r_stop="228" r_length="71" r_score="0.944"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.94"/>
            <acceptor a_prob="0.955" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="229" r_stop="348" r_length="120" r_score="0.917"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41716" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="349" r_stop="467" r_length="119" r_score="0.908"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="41717" i_stop="41788" i_length="72">
            <donor d_prob="0.233" d_score="0.88"/>
            <acceptor a_prob="0.874" a_score="0.86"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="41789" g_stop="41849" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="468" r_stop="528" r_length="61" r_score="0.852"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E337638" ref_strand="+">
        <total_alignment_score>0.903</total_alignment_score>
        <cumulative_length_of_scored_exons>528</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E337638" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38561" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41716"/>
          <exon e_start="41789" e_stop="41849"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAGGAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTCTCTTAGGCAGCGTCACTGGTAGGCACACTGGCTAGCAGTTGTGAAAGCTTCCCTGCTGGATGCACTAAATTTGGTCACGACTACTTTCAGGTACATTCAGAGCACCTGCGCAACATCAGGAGAGGGACTTTATGAGGGTCTTGATTGGTTG</genome_strand>
        <mrna_strand>GAAAGAGAAATGGGGTTGACATTCACCAAGCTTTTCAGCCGGCTATTTGCCAAGAAGGAAATGCGCATCCTCATGGTTGGACTCGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGAGAAATCGTCACCACCATTCCAACTATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAAACTGTTGAATACAAGAACATCAGCTTCACCGTTTGGGATGTCGGGGGTCAAGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGACAGAGACCGTGTAGGGGAGGCAAGAGATGAATTGCACAGGATGTTGAATGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAGCTTCGGGATGCTGTGTTGCTTGTTTTTGCTAACAAACAAGATCTTCCTAATGCAATGAATGCTGCTGAAATAACCGACAAGCTTGGACTCCACTCCCTCAGGCAGCGTCACTG........................................................................GTACATCCAAAGCACTTGTGCAACTTCTGGAGAGGGACTCTATGAGGGTCTTGATTGGCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E271764" ref_strand="+" ref_description="SGN-E271764 [cLEM-8-E9]">
      <seq>gcgtgatggggctcacattcaccaagctcttcagtcggcttttcgccaagaaggaaatgcgcattctaatggttggtcttgatgcagctggtaagaccaccatattgtacaagttgaagctgggagagatcgtgactactattcctaccattggtttcaatgtggagactgttgagtacaagaacatcagcttcactgtttgggatgtcggaggtcaggacaagatccgtccattgtggaggcactacttccagaacactcagggtctcatttttgtggttgatagcaatgatagagaccgtgttgtagaagcaagagatgaattgcataggatgttgaacgaggatgaacttcgggatgctgtgcttctagtatttgctaacaaacaagatcttcctaacgcaatgaatgctgctgaaataactgataagcttggactgcactccctcaggcagcgtcactg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38265" stop="42016"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38565" g_stop="38717" g_length="153"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="153" r_length="153" r_score="0.902"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.92"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="154" r_stop="224" r_length="71" r_score="0.986"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.955" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="225" r_stop="344" r_length="120" r_score="0.900"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.90"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41716" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="345" r_stop="463" r_length="119" r_score="0.916"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E271764" ref_strand="+">
        <total_alignment_score>0.918</total_alignment_score>
        <cumulative_length_of_scored_exons>463</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E271764" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38565" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41716"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTCTCTTAGGCAGCGTCACTG</genome_strand>
        <mrna_strand>GCGTGATGGGGCTCACATTCACCAAGCTCTTCAGTCGGCTTTTCGCCAAGAAGGAAATGCGCATTCTAATGGTTGGTCTTGATGCAGCTGGTAAGACCACCATATTGTACAAGTTGAAGCTGGGAGAGATCGTGACTACTATTCCTACCATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGAGGTCAGGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTACTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGATAGAGACCGTGTTGTAGAAGCAAGAGATGAATTGCATAGGATGTTGAACGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAACTTCGGGATGCTGTGCTTCTAGTATTTGCTAACAAACAAGATCTTCCTAACGCAATGAATGCTGCTGAAATAACTGATAAGCTTGGACTGCACTCCCTCAGGCAGCGTCACTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E362954" ref_strand="+" ref_description="SGN-E362954 [cLPP-2-C2]">
      <seq>agaaatggggttgacattcaccaagcttttcagccggctatttgccaagaaggaaatgcgcatcctcatggttggactcgatgcatctggtaagaccaccatattgtacaagctcaagctgggagaaatcgtcaccaccattccaactattggtttcaatgtggaaactgttgaatacaagaacatcagcttcaccgtttgggatgtcgggggtcaagacaagatccgtccattgtggaggcactatttccagaacactcagggtctcatttttgtggttgatagcaatgacagagaccgtgtaggggaggcaagagatgaattgcacaggatgttgaatgaggatgagcttcgggatgctgtgttgcttgtttttgctaacaaacaagatcttcctaatgcaatgaatgctgctgaaataaccgacaagcttggactccactccctcaggcagcgtcactggtacatccagagcacttgtgcaacttctggagagggactctatgagggtcttgattggctttctaacaacatcgccaataaggcctaagtcgaaatagagttgttgcggattcatcctggatgcaggcgggtttttatctagttccatttacttttatttcgtcttttttctttcagacattctctgaatct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38266" stop="42171"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38566" g_stop="38717" g_length="152"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="152" r_length="152" r_score="0.888"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.86"/>
            <acceptor a_prob="0.996" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="153" r_stop="223" r_length="71" r_score="0.944"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.94"/>
            <acceptor a_prob="0.955" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="224" r_stop="343" r_length="120" r_score="0.917"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41716" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="344" r_stop="462" r_length="119" r_score="0.908"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="41717" i_stop="41788" i_length="72">
            <donor d_prob="0.233" d_score="0.88"/>
            <acceptor a_prob="0.874" a_score="0.88"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="41789" g_stop="41870" g_length="82"/>
          <reference_exon_boundary r_type="cDNA" r_start="463" r_stop="544" r_length="82" r_score="0.854"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="41871" i_stop="41980" i_length="110">
            <donor d_prob="0.935" d_score="0.86"/>
            <acceptor a_prob="0.981" a_score="0.76"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="41981" g_stop="42029" g_length="49"/>
          <reference_exon_boundary r_type="cDNA" r_start="545" r_stop="592" r_length="48" r_score="0.755"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E362954" ref_strand="+">
        <total_alignment_score>0.901</total_alignment_score>
        <cumulative_length_of_scored_exons>593</cumulative_length_of_scored_exons>
        <coverage percentage="0.907" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E362954" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38566" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41716"/>
          <exon e_start="41789" e_stop="41870"/>
          <exon e_start="41981" e_stop="42029"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTCTCTTAGGCAGCGTCACTGGTAGGCACACTGGCTAGCAGTTGTGAAAGCTTCCCTGCTGGATGCACTAAATTTGGTCACGACTACTTTCAGGTACATTCAGAGCACCTGCGCAACATCAGGAGAGGGACTTTATGAGGGTCTTGATTGGTTGTCTAACAACATAGCTAACAAAGTACGAGTACACTTTTAATTGATTAAATTGGCCTTAGATCTTTTCCTTTGATGTTCAGATAAACTTTGTGCACTCGTTGTTTCTCTTGTCTTTGAATCCTCTTTTTATAGTCCTAAGGCAATGGAAGAGTTCTTGCGGGTTGATACTGGATGCAGGCAG</genome_strand>
        <mrna_strand>AGAAATGGGGTTGACATTCACCAAGCTTTTCAGCCGGCTATTTGCCAAGAAGGAAATGCGCATCCTCATGGTTGGACTCGATGCATCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGAGAAATCGTCACCACCATTCCAACTATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAAACTGTTGAATACAAGAACATCAGCTTCACCGTTTGGGATGTCGGGGGTCAAGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGACAGAGACCGTGTAGGGGAGGCAAGAGATGAATTGCACAGGATGTTGAATGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAGCTTCGGGATGCTGTGTTGCTTGTTTTTGCTAACAAACAAGATCTTCCTAATGCAATGAATGCTGCTGAAATAACCGACAAGCTTGGACTCCACTCCCTCAGGCAGCGTCACTG........................................................................GTACATCCAGAGCACTTGTGCAACTTCTGGAGAGGGACTCTATGAGGGTCTTGATTGGCTTTCTAACAACATCGCCAATAAG..............................................................................................................GCCTAAGTCGA-AATAGAGTTGTTGCGGATTCATCCTGGATGCAGGCGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E203874" ref_strand="+" ref_description="SGN-E203874 [cLEC-17-M8]">
      <seq>tgacattcaccaagcttttcagccggctatttgccaagaaggaaatgcgcatcctcatggttggactcgatgcagctggtaagaccaccatattgtacaagctcaagctgggagaaatcgtcaccaccattccaactattggtttcaatgtggaaactgttgaatacaagaacatcagcttcaccgtttgggatgtcgggggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38277" stop="39972"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38577" g_stop="38717" g_length="141"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="141" r_length="141" r_score="0.894"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.86"/>
            <acceptor a_prob="0.996" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39672" g_length="62"/>
          <reference_exon_boundary r_type="cDNA" r_start="142" r_stop="203" r_length="62" r_score="0.952"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E203874" ref_strand="+">
        <total_alignment_score>0.911</total_alignment_score>
        <cumulative_length_of_scored_exons>203</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E203874" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38577" e_stop="38717"/>
          <exon e_start="39611" e_stop="39672"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGT</genome_strand>
        <mrna_strand>TGACATTCACCAAGCTTTTCAGCCGGCTATTTGCCAAGAAGGAAATGCGCATCCTCATGGTTGGACTCGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGAGAAATCGTCACCACCATTCCAACTATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAAACTGTTGAATACAAGAACATCAGCTTCACCGTTTGGGATGTCGGGGGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E257870" ref_strand="+" ref_description="SGN-E257870 [cLEG-39-L21]">
      <seq>tttcagccggctatttgccaagaaggaaatgcgcatcctcatgggtggactctatgcagctggtaagaccaccatattgtacaagctcaagctgggagaaatcgtcaccaccattccaactattggtttcaatgtggaaactgttgaatacaagaacatcagcttcaccgtttgggatgtcgggggtcaagacaagatccgtccattgtggaggcactatttccagaacactcagggtctcatttttgtggttgatagcaatgacagagaccgtgtaggggaggcaagagatgaattgcacaggatgttgaatgag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38293" stop="40290"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38593" g_stop="38717" g_length="125"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="125" r_length="125" r_score="0.872"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.86"/>
            <acceptor a_prob="0.996" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="126" r_stop="196" r_length="71" r_score="0.944"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.94"/>
            <acceptor a_prob="0.955" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="197" r_stop="316" r_length="120" r_score="0.917"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E257870" ref_strand="+">
        <total_alignment_score>0.905</total_alignment_score>
        <cumulative_length_of_scored_exons>316</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E257870" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38593" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAG</genome_strand>
        <mrna_strand>TTTCAGCCGGCTATTTGCCAAGAAGGAAATGCGCATCCTCATGGGTGGACTCTATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGAGAAATCGTCACCACCATTCCAACTATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAAACTGTTGAATACAAGAACATCAGCTTCACCGTTTGGGATGTCGGGGGTCAAGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGACAGAGACCGTGTAGGGGAGGCAAGAGATGAATTGCACAGGATGTTGAATGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E231291" ref_strand="+" ref_description="SGN-E231291 [cLED-5-L14]">
      <seq>ggctatttgccaagaaggaaatgcgcatcctcatggttggactcgatgcagctggtaagaccaccatattgtacaagctcaagctgggagaaatcgtcaccaccattccaactattggtttcaatgtggaaactgttgaatacaagaacatcagcttcaccgtttgggatgtcgggggtcaagacaagatccgtccattgtggaggcactatttccagaacactcagggtctcatttttgtggttgatagcaatgacagagaccgtgtaggggaggcaagagatgaattgcacaggatgttgaatgaggatgagcttcgggatgctgtgttgcttgtttttgctaacaaacaagatcttcctaatgcaatgaatgctgctgaaataaccgacaagcttggactccactc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38301" stop="41998"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38601" g_stop="38717" g_length="117"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="117" r_length="117" r_score="0.889"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.86"/>
            <acceptor a_prob="0.996" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="118" r_stop="188" r_length="71" r_score="0.944"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.94"/>
            <acceptor a_prob="0.955" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="189" r_stop="308" r_length="120" r_score="0.917"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41698" g_length="101"/>
          <reference_exon_boundary r_type="cDNA" r_start="309" r_stop="409" r_length="101" r_score="0.911"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E231291" ref_strand="+">
        <total_alignment_score>0.912</total_alignment_score>
        <cumulative_length_of_scored_exons>409</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E231291" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38601" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41698"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTC</genome_strand>
        <mrna_strand>GGCTATTTGCCAAGAAGGAAATGCGCATCCTCATGGTTGGACTCGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGAGAAATCGTCACCACCATTCCAACTATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAAACTGTTGAATACAAGAACATCAGCTTCACCGTTTGGGATGTCGGGGGTCAAGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGACAGAGACCGTGTAGGGGAGGCAAGAGATGAATTGCACAGGATGTTGAATGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAGCTTCGGGATGCTGTGTTGCTTGTTTTTGCTAACAAACAAGATCTTCCTAATGCAATGAATGCTGCTGAAATAACCGACAAGCTTGGACTCCACTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E239933" ref_strand="+" ref_description="SGN-E239933 [cLED-29-K8]">
      <seq>caagaaggaaatgcgcatcctcatggttggactcgatgcagctggtaagaccaccatattgtacaagctcaagctgggagaaatcgtcaccaccattccaactattggtttcaatgtggaaactgttgaatacaagaacatcagcttcaccgtttgggatgtcgggggtcaagacaagatccgtccattgtggaggcactatttccagaacactcagggtctcatttttgtggttgatagcaatgacagagaccgtgtaggggaggcaagagatgaattgcacaggatgttgaatgaggatgagcttccggatgctgcgttgcttgtttttgctaacaaacaagatcttcctaatgcaatgaatgctgctgaaataaccgacaagcttggactccaactccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38311" stop="42000"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38611" g_stop="38717" g_length="107"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="107" r_length="107" r_score="0.897"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.86"/>
            <acceptor a_prob="0.996" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="108" r_stop="178" r_length="71" r_score="0.944"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.94"/>
            <acceptor a_prob="0.955" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="179" r_stop="298" r_length="120" r_score="0.917"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.88"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41700" g_length="103"/>
          <reference_exon_boundary r_type="cDNA" r_start="299" r_stop="402" r_length="104" r_score="0.864"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E239933" ref_strand="+">
        <total_alignment_score>0.903</total_alignment_score>
        <cumulative_length_of_scored_exons>401</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E239933" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38611" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41700"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGC-ACTCTC</genome_strand>
        <mrna_strand>CAAGAAGGAAATGCGCATCCTCATGGTTGGACTCGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGAGAAATCGTCACCACCATTCCAACTATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAAACTGTTGAATACAAGAACATCAGCTTCACCGTTTGGGATGTCGGGGGTCAAGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGACAGAGACCGTGTAGGGGAGGCAAGAGATGAATTGCACAGGATGTTGAATGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAGCTTCCGGATGCTGCGTTGCTTGTTTTTGCTAACAAACAAGATCTTCCTAATGCAATGAATGCTGCTGAAATAACCGACAAGCTTGGACTCCAACTCCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E204728" ref_strand="+" ref_description="SGN-E204728 [cLEC-14-F12]">
      <seq>ggaaatgcgcatcctcatggttggactcgatgcagctggtaagaccaccatattgtacaagctcaagctgggagaaatcgtcaccaccattccaactattggtttcaatgtggaaactgttgaatacaagaacatcagcttcaccgtttgggatgtcgggggtcaagacaagatccgtccattgtggaggcactatttccagaacactcagggtctcatttttgtggttgatagcaatgacagagaccgtgtaggggaggcaagagatgaattgcacaggatgttgaatgaggatgagcttcgggatgctgtgttgcttgtttttgctaacaaacaagatcttnctaatgcaatgaatgctgctgaaataaccgacaagcttggactccactccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="38318" stop="42000"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38617" g_stop="38717" g_length="101"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="101" r_length="101" r_score="0.891"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893">
            <donor d_prob="1.000" d_score="0.86"/>
            <acceptor a_prob="0.996" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39611" g_stop="39681" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="102" r_stop="172" r_length="71" r_score="0.944"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189">
            <donor d_prob="0.999" d_score="0.94"/>
            <acceptor a_prob="0.955" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39871" g_stop="39990" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="173" r_stop="292" r_length="120" r_score="0.917"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.935" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="41598" g_stop="41700" g_length="103"/>
          <reference_exon_boundary r_type="cDNA" r_start="293" r_stop="395" r_length="103" r_score="0.893"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E204728" ref_strand="+">
        <total_alignment_score>0.909</total_alignment_score>
        <cumulative_length_of_scored_exons>395</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E204728" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38617" e_stop="38717"/>
          <exon e_start="39611" e_stop="39681"/>
          <exon e_start="39871" e_stop="39990"/>
          <exon e_start="41598" e_stop="41700"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTGGTACGTACTTCACTTATATGCATATCTGTACTTACAAATTAACTGTTCAAACTATAGTTTATAACTTTCAAAAAATGCATCTAATGTACCTGTGATGAATATAGTATTGGAAGATAACATTAGAAATCCATAAATGTAAGCTATGGTTGGATTTTCTTCCTCAGAAGAGAATTCATTATGGGTGAATTATGAGTCTGCTAAAATGCTAGAATTTTAGATAAAATAATGTATCGATTTGAAGCTTAATTGAATGTTAGCATTCATTTTTTTATTGTTTGACTGGTTACAAAGGACATTACAGAAGTTACTTTTGAATTAAAATTATACTATTATCTTTTATCATAATATGTTGCTGTATATCATAAAAAGGATATTCATGGACGTCTGATGCAATAGAGTAGGGGTATGTATATAATCCTTTTATCATCTAAAATTCTATAGGGGGCTATTCTACGGCTTGACTTTCTATATTAAAAACTAAGAAAGGGGCTTTGATATGAAAGATTAAATTACATTATGCTAATTAATCTCTATTCTCTGCTCGATCAACATTTTATAATAGAATTAGGTTGATTTTTTCGTTTTCTTTTGGGATTACATGGCAGTAGGAAATTGTTTATGCTTTTCTAAACCAATATTTTGGTTTTAAGATGAGTAAGTTTTTCATAATTCTTAAGAAAACATTTCTATGAATGCACCAAAAGAGAGCCTTTAAAGTGAACTAAAGAAAGGAAGTATGTTATGTTTTTTCTATGCGCTTTTTTTCACAACCTTGTTGGAACTGTTGCGATGAATAGATAATCAGCTCTGTCTGAAGCTTACTCTAATCTCTGTAATTGTATACTTATAATATTACTGCTTGGATGCTGTCAATAATAATTGATAATTTGTAGGTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAGGTATAATTTTTTTTAGTGTAAGGAATATAAGTTAATTTTGAGTTTGTTATTTGTTTATGATAAACCGGGAGCAAGTCTTTATCTATGTTTGCTGACCTTAACTTTCCCCTTTCCTCGACTTATGTGCTTCATAGAATTAGGCCTTTGATTTAACTGTTTAAAGCACAACCACCATTTATTTTTTTCCAGATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAGGTAATAATTTTCACACCTTTTTTATATTGTTTTTAGTTTTCACGAAATGAGATTCAACTTTTAAAGCTTTAAGCTGCATGGCAAAAAAAAAGTCTGTGACTATTTTAAGTGAACAGTACTGAAATCTGCATTGTATACTAATTAGCTCTTCAAGCTGATACCCGAGCCATTGAACTAATCACAAGCATTTGCAATAGTCGTTTTCATCTAGAGTGATTACAACTTGTGGTTATGACACTGTATATCTGTCTACCAAAAGTCTCTCTTTCTTAAACTCCTCATACTAAGTTAAACCATCCATATAATTTTAAATGTAGGAAGTACTTTTTTCCCTCCATCTTGTCACATAATGCTTGGAAGAAATTATTAAAACTAAAATATGAATTATTTTTCCATTTTTGTTTTGTTCTTTTTTAAACTACAAAGCGATGACTCTTAATTTGCTGAAAATCCCTGAACATGGACTAATAATAAATCAAAACCATGGATGAGAAAAACAAAATACTTTTATCCCTCCCAATAATCTTGGATATAACTTCATTTTCAGATAAAAACAAATTGGATATAACTTAATTTTATGTAATTCAGAGTTCCTAAATGGAGCCTTGAGCATATTGGCAAATTCTTATTTGAAATGAATTTTGGCTAATGTGTGCTAATTTTTAACTTCCTTTATTTTGAGTAGCCCTAATTCAAAATCTTAGTTTGGTAATTTTCTTATCTCATTTGCCATAGCCATAAGCTAAAGTAGTTTCCATTAGGAGGAGTTAATGAGTTAGATTTAAACCTTACTGTAATCCTCATTAAGGAGTATGCCAAATGTCTGATACCATACACGAATAATCTATGTTATGTTATCAATTTCTATAGCGAAGATTTACAGTCAACAACAATGTCAATGGTATCGCAGCTTGAATAAAGATAAAAGAACTGTGCTTGCAAAGTAAAAGAAAACTGTATAACTCTTGTATAACTCTTGACTGTACTGACTGCACTAATTTTATTCAATTTTTTGGAGCTTTAAGTGGAGCCAAAGATGATGTTTCAGTGATTCAAAATTGTCAAACATTTTTCCTTGAACTTATGGAGTGTGTCATATCGTCCAATCATTTTGTCCCTCCGTCTTTGAAATGCTATTTAGGATGTTATTGTTAGTAAGATGAATGTCATAATTGGAACTATTCATCAACTTTGATCCATTGTTGAATGGGACAGTTGGTTATTTATGGTTTAACCGTTAGTAGGTGAAGTACCTGTAGGAGTTCAGGGAGAATAGCTCAAAGAGGAGATTTTACCATCTGCTTGTCATTTAATTAAAATAGTAGAGAGAACTGGCAATACTTCACTTTATGTTTGCACAGGTCAACGTGTCCATATATTGTTTCTTAGGAAAAGAACACATAAAAATAGTGAACGGTGAGTAGGAGCAGGGAGCTTCTACACTGAACCACAGTACCCAAATGCTTTTTCTGCTCATAGCTCATGCTTAATATGCTCATAGTTACATTAATTGTTAAATGACAAAGTGAAAGGATTTTGTTCTTAAGTTTGACTTAAACTTTGCCGACTGACCTGTGGAGTTTAATAGTCTTTACTCTCTGTTCTAGGACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTCTC</genome_strand>
        <mrna_strand>GGAAATGCGCATCCTCATGGTTGGACTCGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGAGAAATCGTCACCACCATTCCAACTATTG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCAATGTGGAAACTGTTGAATACAAGAACATCAGCTTCACCGTTTGGGATGTCGGGGGTCAAGACAAG.............................................................................................................................................................................................ATCCGTCCATTGTGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTTGTGGTTGATAGCAATGACAGAGACCGTGTAGGGGAGGCAAGAGATGAATTGCACAGGATGTTGAATGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGAGCTTCGGGATGCTGTGTTGCTTGTTTTTGCTAACAAACAAGATCTTNCTAATGCAATGAATGCTGCTGAAATAACCGACAAGCTTGGACTCCACTCCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E546519" ref_strand="-" ref_description="SGN-E546519 [TUS-69-O20]">
      <seq>caaggcaatnatagtcagttttcaaggtccacacaacagttccaaggaaatctgttcaaagatgtatgcagaggtttttgagtgaagaaatgcagaagagaccacctacggagcttgtgacggtccgtcatgcttgtgacggtacgtaggtggcagcatagtgcagctgctgaaggaatatggggaagtctgaccaagtgtggggttacggagtccatgacggtccttcgtgtctatgacggtccgtcctgcaggttcttcatgaagttcagagaagtaatcccagtacccatattccaagagtttaagtgttttggaacgaagaccctcgacggaccgttgtgcctttgacggtccgtcatacttgccgtcgagggtaatgaagagagaagcagaagaaatttcatcaagtatgggacgacggagtccatgacggtccgtcgtgaccacgatgatccgtcgcgaggtccgttgacccagccgcgttttgacaaatttccagcaaatagagtccttatttaattaggtttttaatttctataaatagttcaaaaaaacctcatttttgaggttagactctggataattattagactctgtgtattagtgttagacttttgattatcattagactttttgtgagattcttgattactttgaaattcttgcaagtgattgttggtgattaatcaagaaaactttcggattttaaaaaaaaaaaaaaaaaaactcgagactagtctctctctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="+" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="60948" stop="70949"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="61256" g_stop="61350" g_length="95"/>
          <reference_exon_boundary r_type="cDNA" r_start="47" r_stop="141" r_length="95" r_score="0.895"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="61351" i_stop="70062" i_length="8712">
            <donor d_prob="0.000" d_score="0.94"/>
            <acceptor a_prob="0.000" a_score="0.90"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="70063" g_stop="70649" g_length="587"/>
          <reference_exon_boundary r_type="cDNA" r_start="142" r_stop="711" r_length="570" r_score="0.901"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="712" polyA_stop="730"/>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="+" ref_id="SGN-E546519" ref_strand="-">
        <total_alignment_score>0.900</total_alignment_score>
        <cumulative_length_of_scored_exons>682</cumulative_length_of_scored_exons>
        <coverage percentage="0.909" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E546519" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="61256" e_stop="61350"/>
          <exon e_start="70063" e_stop="70649"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAAACTGTTCAAAGATGTATGTGGAGGTTTTTGAGCAAAAATATGTAGAAGGGACCACCTACGGAGCTTGTGACGGTCCATCATGCTTGTGACGGTCTGTAGGTGGCAGCGTAGTCCATGACGGCCCAGTACCCATATTCCAAGAGTTTAGGTGTTTTGGAATGAAGACCCTCGACAGATCATTGTGCCTATGACGGTCCGTCATACTTGTCGTCCAGGGTAATGAAGAGAGCAGCAGAAGAAATTTCATCAAATATGGGACGACGGAGTCCATGACGGTCCGTCGTGACCACGACGATCCGTCGCGAGATCCGTCGACCCAGCCGCGTTTTGACAGATTTCCAGCAAATAGAGTCCTTGTTTAATTAGGTTTTTATTTTCTATAAATAGTTCGAAAAATATCATTTTTGAGGTTAGACTCTGTATTATTAGTTAGACTCTGGATAATTATAAGACTGTGTGTATTAGTGTAAGACTTTTGATTATCCTTAGGCTTTTTGTGAGATTCTTGATTACTTTGAGATTCTTGCAAGTGATTGTTGGTGATTAATCAAGAAAACTTTCAGACTTTAATCTTTCTCATTGAAGTAAGTATATGAATTCTTATGTAATATATTTGAATATTGTGATTATGACTATGGAAAACTAAACTCCATAACTACGGTTGTGGGAACCATACGCAAATAATGGGATAAAATCTAACGAAAATAACAATTCTAGAATACTGTCTTGCATGCATTAATAATTCTTTCACTTAGAAGTCTTTTTAACGGATGGCCAACGTTAGAACTCGCCTTAATGCTACTTGCCGGACCAAGGAGGTAGATAATAGGAAAATAATTATCAACATAGACTTAGTGTATATTATCTAATAGGCTAGTATTGATTGGTACGAGGTAATAACTTAGTCAAATATTGAATACGATGCTTAATATGAGGTAACGATAAGGGTTAGGATAGCAACACACGTAGTCGGACCAAGGTGCGGAGTGAGATTTTCTAGATGCCGGACCAAGGATTTAGAAATATATAACTTATCACTTTGCATGCAAGATACTAGGAAAGAATTGTTATAGTTAGAATTATCAAGTTATGAAGCTGTGGGGAACACGTAAACCCTAGTTACTTTGATTAATTGATTAAACTCCAACATTCAAAGTTGTTAAGTGCCTCTGTTAATTTCGTTAGTTATTTTCATTCATTTAGAAATAGAAACCCACCATTTTATTGTTTTTGCTTCCCAAGGAAGTAATTTACCGAACAATAGTAATAATAGGTTAAAGTTAAGTCTAAACTATTTTCCTCGTGAGAACGATCCAACCTCACTAGTTGGGTTATTTACTTGACACGACCACTTTACTTCTTATTTGAGAAGTAAGTTTGAGCATATCAAATTTTGGCGCCGCTGACGGGGATTATAGCTATTAGATTAACTTGAACTTATTACTATTGTTTAGTTGATTTTTTCTTGATTTTACTTTGTTTTATTGTTTTTGATTTTTTTCCAGAACTATCCTCCTTGTATGCCAAATACACGGAGAGAAAGAGAACCCTTGTTTCCCTATGATCACGAATTTAGAGCGTACACTACGCAATATGAATCGAAACTTGGGAATAAATGATGATGACCCAAACTAGAACTTTCCAGCTTCGGTTGATGTTCATGGTCAGTTGTTACTCGATGCTCCGGGTGAACACCAACAAAGGGGACAAAATTCCGTTCCACGAACCAAGCATACTATAGAGGCTATGATAACATAGAAGACTATGATGGACCACTTGTCTTACCTCCTCTACCCACATGCCACACCTTTGTGGTAACTAGTAGCCTGATGCAAATGCTCACTGCCAGAGGTTTGTTTTCAGGGCTACCTTCTGAGGATCCACATGCCCATATAGCTAAGGTAAGGGCAGTGTGTAAAAGTTGCGTAGGGAGGCCAGATTTGGATTTAGATGTAATAGGGCTTAGAGTGTTTTCTCTCTCACTAACGGGAGAGGCTGCTATATGGTTCACTGAGCTCCCATACAACTCAACCTTCACTTGGAACTAACTAAGGGATGTTTTCTTAGCACGCTACTATCCGGTGTCCAAGAAACTAAACCACAACGACAAAGTTAATAACTTTGTGGCACTACCAGGAGAGTAAGTTAGTAGTTCTTGGGATAGATTCACCTCGTTCTTGAGAAGTGTCCCAAATCACCGTATAGATGATGAGTCACTGAAGGAATACTTCTATCGGGGACAGGATGATAATAATAAAGAGGTGTTGGACACTATAGTAGGTGGATCTTATGGGGAATGTCCTTATGCTGAGATTGCCAAAAAATTAGAGAAAATCTCCTGGAATAATAAAGCTTGGAGTACTAGGAAGTCTGATACAGGGAGAAACACCGTCGCAGTACAGTCCACTCAGAACCCAGCCACGGATGAGATTCGCGAAGAAATGGCTCAGATGAGAACTGAGCTTGGGTTGGTACTAAAACATGTCACTGGGGGTGCAGAAAAGATAAATGCAGTCTACTACTTGTCGAAACCACCATCTAATGATGAATGCTATTATGCGGAGGACTCATATGCTGTAAATGAGAAGACGGGGGGTTTCTGACCAAGCGCCCAAAGCTCAAATAAGGATAATTGGCGCCAAGGTCAATTGAACCAAGGTCGGAACTATGGTAACTATAACTGTGAGGGTCATAATGTCCGAGATTGAAATTACAACCGCGACAACAACTTTAATAGGGGTAACTACGGTAACAGAAATGATAGGAATGGGCCCTATGTCCCTCCTCAAAATCGTGAAGTTACTCCTAGGGATGGTGGAGATAGTATAGCGCGAGTTGAGGATATGTTGCACAAAATGATGAGGAGGTTCGATGCTAGTGATGAGCACATTATAGAGTTAAGGGGTGATTTAGCTAGTACTGGGCAAAAAGTTGATACATATGCAATATCGATTAAACAGATCGAATTGCAAATGGCCCAATTATCTGCGACAGTGAACACACGGCAACCGAGCACTCTTCCTAGCAACACTGTCCAAAATCCAAAAAATGATGCGCACTGTATGAAAATCACTACTCAGGGTGGGAAGCAAACCATTGACCCACCTATGCCGTCTAATGAGGAAAATGTGAGAAAGGATGATGATAAGGTTGTAAAGGGTAGTGTTGAGGAAGAAGAGCGCAATGGAAAAATGCAGAAGTCCCTATAAAGGTAATTCCCATGCCTAGACCACCACCACCCTTCCCTTAGAGATTATTGAAAAAGACCAAGGATTGTAAATATCGGGGTTTTATGACAATGCTGAAGCAGCTCTCTATCAATGTACCTTTGGTAGAATCTCTAGAACAAATGCCCGGTTATGCCAAGTTTATGAAAGATCTGGTCACAAAGAAAAGATCGGTCACTTTTGAGGATGATGATAGACTGCAGCATTGTAGTGCTATTGCTACAAATCCCTCGTACAAAAGAAAGATGATCCCGGTGCGTTCACTATTCCTTGTATAGTTGGGTCATTACATTTTGCGAAAGCATTATGTGATCTCGGGGCAAGCATAAATCTCATGCCCCTCTCGATCTACAAGAAGTTGGGTTTGGGGGATCCAAAACCCACTGCGATGCGGCTACTGATGGCTGATCGGACATTGAAAAGGCCTATAGGGATACTCCATGATGTGCTCATAAAAGTGGAGTCATTCATCTTTCCGGCTGATTTTGTTATTCTTGATTGTGAAGTCGATTTTGAAGTGCCTATTATTCTTGGGAGGCCATTCCTTGCTGCAGGTAGAGCCTTAGTTGATATGGATATGGGAAAGATGAAATTTCGGTTGAACAATGAAGAAGCGACCTTCAACATTTGTAGGACCTTGAGGCAAAGGGGCGAGCTCCAATTTGTATTTGCCAAATCCCACAAAGAAAAGATGAAGAAGGAAAATGAACAAAAAATTGCAAAACAAGATTTTATGGTTGGGGATTTAGTGCTTTTAGACAGTTCTGGGTCGCCTTGTCTTCCAGGCAAGCTCCAGTCCAAATGGACTGGCCCTTACATGATTACCCAAGTATTCCCTCATGGAGCAGTTGAGTTAAAAGCTAAGAAGGGAGTGTGGTTTAAGATGAACAGAGAATGAATAAAACTCTATTTTGGGAACAAAGCATCGGGGAATGAAGTGATAGAGGCATACCATCTTGATGAAGTTTAAGTAATCAAGTGTCCCCAGTCGTACCGCGACATTAAATCAGGCGCTTGTTGGGAGTCAACCCAATACTTATAGTCTTTTTAGTAATTGTAGAATTTTTCTACTAATGGGTTTTTTAATTTGCAGGCACATCACCAGGAAATTCTGCAGAAAATTACTCTGCAGCTGGCCGACGGATGCATATGACGGTCCGTCGCAGGTGCAACGGTCTGTCGCTGTATCCGTCAGTGACGATGGACCGTCGCTGTATCCGTTAGTGACTGGTACGTCTTTCTGTTATTTTCAAACTAGGGCACACCCGATGGAACCAACGACTAATCATTACAACTGAGAAGGACCGTCGTCGGGGAATCGTCGCGTCATTAATGAGGCATACTCGACCCGGTTGGAGTTTTTTTATAAAATGTCACCATTTAAACTCCTCAACCCCTCATTTCACCCCATTCCTTAACTATTCCTCTTATTTCCCTCCTTTTTAAACTTCCACAATCTCTCCCTCTATCAACCGATCATTGTGCCCCTAAAATCCTCCAAAGCCCTAAAAGTATCTTCTACTAGTCGGAGTTGCTGCTGTGGGTGTCTTCTCAGTCACCAAATACTTTTCCATCTTGTTTTTCTCCAATTCTCAGGTATGTGTCTCTAATGTCTAAATTTCCGTGTCTACAACCCTAGACATAGGTGCTTTTGCAATTACTAGTTTACTAGGTATTTGGTTTAGACAAATTTAGGTCCAAAACACTACAAATTCGATTTGGGTCATCGGGGATGAATGGGGTACCCCCAGTTCTGTCACTGATCTACAGAATGAGACTTCGATGATGGACATCGTACCCACGACGGACCATCGTTGGGTCCGTTCCAAAAGCCCTAACACCCCACTACCCATTTTTTTCCAAGTGTTCTCCAACGGACACATGTGACGGACCATCGTCTTCACGACGGTCCGTCCTGCACATCCGTTCTGGTTGTCAAAGACCCGATTTCTGAGGGTCTCTCATTTTTTTCTAAGTGTCCTCCAACGGACACATGTGACAGACCATCGTCTTTACGACGGTCCGTCCTGCACAACCGTTCTGGCTGCCAGAGACCCTATTTCTAAGGGTCTCTCTCCATTTTTCTAAGTGTCCTCAAACAGACGAGTACAATGGACCATCATACCCACGACGGTCCGTCCTGCATGACCGTTATGACAGTCAGAGACCCATCTCCTAAGGGACTCCATTTTTTTTCAAATGTCCTTTGACAGACACCTACGACAAACCGCCGTACCAATGATGGTCCGTTCTTCACATACCATCATACTTGTCAGAGACTCTCCTTCAGGGTTCTCCATATATACATAGTCTAAGGAAGACACGGACCCCATGACGGTCCTTCAGAGTTATGATGAGCCATCACCAGGCCCGTCGTGTGTCACTATTACTATAGAAATGTCATATTATTTTAATTTTTTGTGTGGTTTTGCTTGTCTTGTTTGCCACTACTCGTACTAATATTGATCCCTTAGGTACTATCTACTATGGCACCCAAGCAAGATTGAATCTATGAACGCGGGTGATTTAAGTCTGTCGCCCTGTCTGCCCGCATGGTCATTGGCTCTGATGATGGGCGGTGACCCAGAGTACGTACCCCCTGGCACTTCCACCCCTTCTCGTACTTCACGTGCCACTAGAGCCACACCCACCAAGGTGGCGTCCGGCGTAGTCACTGCCTCCCAGTCTGATGAGGAGCGCACACTAACCAGCACACCTTCTGGGTCAGCCACAAATGAAGAAGGAGTGTCTGGATCCTTAGGAGTTCCGTGGTCGGAGGAAGCCTTTGGCTCTGCTGAGGTTCCTCCACCTGCCACCGCTGCAGCGTCGGCCTCGTCTGTTGACCAGCTCATGCCCTCACCCCGGCTACGTACCAGCCCAACCGGTGGTGTGTCGACGAGCGATTTCAAGTCCACTCCGACGCCAAGTTCCTGAATGATAAAGGAGTTATGACTCAAACACTCACATTGGAGCGGCGGGTCTTACAGGGAGCCTCTCAAGGATGTCTGAGATCCACAATCTCTTCACTAGGCATCGCCTAAAGTGGACAGCACGTCTGTTGGGACGTTACGGTGAAGAAATGGTCCGAGAGTTCAACGCATCCTATGTAGCGACTCTTTGATCAAAGATTGATAGGCCGGTTGCCCCCGCCAAACAGACCTCATTGGAGCAGGTCCGAGTACGGGGCGTTCAGGTCGACATTTTCCTGCCTGCCATCCATCGGTTTCTATTCGGCGAGGGTGTTGATGCTACTCGGACCCCTCTGACTGCCGAGTTTGATACCGATGGCAGCTTGGTTAAGATGGCCAGTTCCTGCACGAGGCATCGTTGATAGAGACCACCAAGAGGTGTTAGCCTGGCCAGCTCCTCCGGTGGATGTGTCGACTCTTCAGGCTGCAGTCGACAGTCTTCGCGTAGATATTGACACGATCTTAGAGGCTAGGGTGCCAGAGTCTGAGGCCCCTTCTATCGAGCCTGATGAAGACACAGTGTTGGCGGCCCTATTCGCTACTTCAAAGATTCCACCACCTCCCCTCGAGATCATGCTAAGAGGCGTATAGGTCGAGCAGAGGATGTGGCACGAGCACGAAAGAAGGAGCGCTGTGAGATGGAGGTTGCAAGGAGAGCCTCAGTTGCTGAGGAGGCGGCACACCAGACTAGAGCAGGAGATAGCGGCTGGGGCGTCTAGCTCCCGAACTGTGGAGATAGCGGGAGGCACTGCTGATAGTGCGGTTGTTGCTGAGGACACCCCTAAGGGTGTCCAGATTGTAGAGGACGTGGGTTTCGGGGAACCGGACCCACCACCTTGCTGATCGACGACGCTTTGCGCCACAGGTTTGCTTCACCTACCACTCTAGTATTTAAATTTATTATGCATTGGGGCAATTGCATGTTTTTTGGTGGGGGTGGGGTAAATGGAAAGTGAGTGCTAGGGTGAAGTCTGAGTAGCCCAATTCACTATCCTCTTTTGGGGTTTTCTTGCCTTTGTTCTTTTTCCCCAAAAGTCTGATTACTTTTTCTGTTGAACCGGCATATCTATATCTTTTGTACATAGTTTAATTCTGAAGCATGATGGCTAAAATGATATGCTGATAAACTGGAAAATGATGCACGACTAGGCATAGTAACTGATAAATGTGTGGCTCTAAGCATGACATAGAGGTACACTATTGCATTACCCTAAGTCTAAAATTCGAAATAGGTGTCTGATAATGTGGATGAGTGATGAGATGTCAAGTGAGTGTGAAGAAGATTTGAATAGTCCACTATTTATAATGAGCTAGAACTTGCCTGGTTAGTCCTACTAAAAGTAATTTGTAATAGACAATCAGGAAACGATCATATGCCCTTATTCAATATATCCCATTTTTAGCCTGAATAAATGAAAACCAAATGAAATTTATCCTTCTTTGATCCAAATGATCTGAGCTTAAATTAGACCTTTCTTTTTCACCCCAACTGATCTTTTCTGGGAACAATGTGTTGGCCTTGGTCTCTCCTTGGACATGTGCACTGCAGTTTATGCCAAAAGCATAAGTTGAGGGTGGCTAATGTAGTAAAAAACCTTCATTATGGCCCTGACCCAACTTTGGGTATTGTGTACCTTGACTCATGGAAAAGCCATGAGTTGAGGGTGACTATTATGAGGAATGCTCTGGAAAGTGGGGTTGAAAGAACAAAGAGAAATAAAGAACAAAAGTAATGTGACTCAAGAATTAGTTTAAAGATAAGTAAAGAAAAAAAATAAAATAAATACAAGCAAGAAGAAAAGAGAGTCACGTACAAAAATGAAGAAAGAAGAGAAAATAGCAAGGTGAAAGAATATGAGAAATTGGGTGAAATAAAATGATAGAAAATGCTTGTTTAGCCGATATGTCAAGGAGGGAAAAAAGTCACTAAAGTATACCTAAATATACCCTACCTGACCCTGAGCCTATGTTACAAGCTAAGAAAGTCCTATCGTGATCCTAAGGGTTGTATAGCGAACTTAAGGCAGTGAAAATAAGGGCAAGCTTATGGCAATAGGTATGAATGAGTGTGACTTTGTTCTGAGAGCGAGCGTTGAAAAGTAATCGTTATACTCAAATTGAAATCATTGTGTGAAAAATAAGGATTTTGTTTCAAAGTGAGGACACTAGTTGCAATACCGGAAATATTAGCATCTCGGTGAGAAATTGAAGAATATAGGTGTTAGTGCATGGTGAGTCTGTGTCATGTTCAAATCCCACATAATTCAAGCCTAATAGTGATAGCATGCATAGATATGATGAGATTAATCGGGATTGATAGCCAAATGATTTCAAAGGATAAAACATGGATACTATTGTACAGAGATTTTGTATTGAGTCATAGTGTGTTGCTTGAGGATAAACAACGAATTTAAATTGAGGGTGTTGATATACCGTGGTTTCACGGTATTATCAATACTTTTTCCTTAAGTTTAGTGTGTCCAAAAGCCCTTTAGTGCTAATCTGTGTATAAGTTTCTCCTTATTTTGTAGGAAATATGTTCAAAGATGTATGCGGAGGTTTTTGAGCGAAGAAATGCAGAAGAGACCACCTACGGAGCTTGTAAAGGTCCATAGGTGGCAGCGTAGTGCAGCTACTGAAGGAAGATGGGGAAGTCTGACCAAGTGTGGGGTTACGGAGTCCATGACGGTCCGTCGTGTCTATGACGGTCCGTCCAGCAGATTCGTCATGAAGTTCAGAGAAGTAATCCTAGTACTCATATTCCAAGAGTTTAAGTGTTTTGGAACGAAGACCCTCGACGGACCGTTGTACCTATGACGGTTCGTCATACTTGCCGTCGAGGGTAATGAAGAGAGCAGCAGAAGAAATTTCATCAAATATGGGACGACGGAGTCCATGACGGTTCGTCATGACCACGACGATCCATCGCGAGGTCCGTCGACCCAACCGCGTTTTGATAGATTTCCAGTAAATAAAGTCCTTGTTTAATTAGGTTTTTATTTTCTATAAATAGTTC-GAAAAACCTCATTTTTAGGTTAGAATCTGTATTATTAGTTAGAATCTGGATCATTATTAGACTTTGTGTATTAGTGTTAGACTTTTGATTATCATTAGACTTTTTGTGAGATTCTTGATTACGTTGAGATTTTTGCATGTGATTGTTGGTGATTAATCAAGAAAACTTTCAGACTTTA</genome_strand>
        <mrna_strand>GAAATCTGTTCAAAGATGTATGCAGAGGTTTTTGAGTGAAGAAATGCAGAAGAGACCACCTACGGAGCTTGTGACGGTCCGTCATGCTTGTGACG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTACGTAGGTGGCAGCATAGTGCAGCTGCTGAAGGAATATGGGGAAGTCTGACCAAGTGTGGGGTTACGGAGTCCATGACGGTCCTTCGTGTCTATGACGGTCCGTCCTGCAGGTTCTTCATGAAGTTCAGAGAAGTAATCCCAGTACCCATATTCCAAGAGTTTAAGTGTTTTGGAACGAAGACCCTCGACGGACCGTTGTGCCTTTGACGGTCCGTCATACTTGCCGTCGAGGGTAATGAAGAGAGAAGCAGAAGAAATTTCATCAAGTATGGGACGACGGAGTCCATGACGGTCCGTCGTGACCACGATGATCCGTCGCGAGGTCCGTTGACCCAGCCGCGTTTTGACAAATTTCCAGCAAATAGAGTCCTTATTTAATTAGGTTTTTAATTTCTATAAATAGTTCAAAAAAACCTCA--TTT---TT-G-A---G--------GTTAGACTCTGGATAATTATTAGACTCTGTGTATTAGTGTTAGACTTTTGATTATCATTAGACTTTTTGTGAGATTCTTGATTACTTTGAAATTCTTGCAAGTGATTGTTGGTGATTAATCAAGAAAACTTTCGGATTTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E340751" ref_strand="+" ref_description="SGN-E340751 [cTOF-5-K5]">
      <seq>agtagccaggcgggttccttcccctctcccttatcctattatacgaaaattgtactcgaaggccccaggtcgaaatctccctttctctcttgtccttcctctaaaatgggatgtctcccttcgattttctgttgatgatcgtacaaggatagagttggaagcttatgctgaagaagggatttgaatttcgaaatcaaatcccatccattttccgcccaaaaattttcttcccatttttctctcctataaatatcagtgagagaaaagggaaaaaacttctttagcttgaaaaaatattacaaaaagtagaaagattttgagtccatttttgttagcaagaacttacaagaaaaggaattactaggttataatattcatataacaaacatgcgataatttatttttttttgttatttgttgcaaaatttgttggatttctgaatcttaaaggaagatattgaagtctatccaagctcattcctatctctggttctctatacgaagaaggtacaactcgtttctcgataacatactctccttttctcctccgttttctctgtgaaatagcactttgttgctggaaattttctgctgtttgttcatctatttaatgttaattcaatggagatattggtatgacttatatngttgttgattcatttaagtagatatggta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0204I09-AU6pq/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0204I09.1" temp_strand="-" temp_description="C04HBa0204I09.1  CU457754.5 htgs_phase:3 submitted_to_sgn_as:C04HBa0204I09 sequenced_by:sanger upload_account_name:uk">
        <position start="139577" stop="138595"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="139568" g_stop="138895" g_length="674"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="676" r_length="676" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0204I09.1" gen_strand="-" ref_id="SGN-E340751" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>674</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0204I09.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E340751" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="139568" e_stop="138895"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTAGCCAGGCGGGTTCCTTCCCCTCTCCCTTATCCTATTATACGAAAATTGTACTCGAAGGCCCCAGGTCGAAATCTCCCTTTCTCTCTTGTCCTTCCTCTAAAATGGGATGTCTCCCTTCGATTTTCTGTTGATGATCGTACAAGGATAGAGTTGGAAGCTTATGCTGAAG-AGGGATTTGAATTTCGAAATCAAATCCCATCCATTTTCCGCCCAAAAATTTTCTTCCCATTTTTCTCTCCTATAAATATCAGTGAGAGAAAAGGGAAAAAACTTCTTTAGCTTGAAAAAATATTACAAAAAGTAGAAAGATTTTGAGTCCATTTTTGTTAGCAAGAACTTACAAGAAAAGGAATTACTAGGTTATAATATTCATATAACAAACATGCGATAATTTATTTTTTTTTGTTATTTGTTGCAAAATTTGTTGGATTTCTGAATCTTAAAGGAAGATATTGAAGTCTATCCAAGCTCATTCCTATCTCTGGTTCTCTATACGAAGAAGGTACAACTCGTTTCTCGATAACATACTCTCCTTTTCTCCTCCGTTTTCTCTGTGAAATAGCACTTTGTTGCTGGAAATTTTCTGCTGTTTGTTCATCTATTTAATGTTAATTCAATGGAGATATTGGTATGACTTATAT-GTTGTTGATTCATTTAAGTAGATATGGTA</genome_strand>
        <mrna_strand>AGTAGCCAGGCGGGTTCCTTCCCCTCTCCCTTATCCTATTATACGAAAATTGTACTCGAAGGCCCCAGGTCGAAATCTCCCTTTCTCTCTTGTCCTTCCTCTAAAATGGGATGTCTCCCTTCGATTTTCTGTTGATGATCGTACAAGGATAGAGTTGGAAGCTTATGCTGAAGAAGGGATTTGAATTTCGAAATCAAATCCCATCCATTTTCCGCCCAAAAATTTTCTTCCCATTTTTCTCTCCTATAAATATCAGTGAGAGAAAAGGGAAAAAACTTCTTTAGCTTGAAAAAATATTACAAAAAGTAGAAAGATTTTGAGTCCATTTTTGTTAGCAAGAACTTACAAGAAAAGGAATTACTAGGTTATAATATTCATATAACAAACATGCGATAATTTATTTTTTTTTGTTATTTGTTGCAAAATTTGTTGGATTTCTGAATCTTAAAGGAAGATATTGAAGTCTATCCAAGCTCATTCCTATCTCTGGTTCTCTATACGAAGAAGGTACAACTCGTTTCTCGATAACATACTCTCCTTTTCTCCTCCGTTTTCTCTGTGAAATAGCACTTTGTTGCTGGAAATTTTCTGCTGTTTGTTCATCTATTTAATGTTAATTCAATGGAGATATTGGTATGACTTATATNGTTGTTGATTCATTTAAGTAGATATGGTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>31</total_number_ESTs_reported>
    </alignment_module>
  <PGL_module xmlns="http://www.genomethreader.org/GTH_output/PGL_module/">
    <predicted_gene_location>
      <PGL_line PGL_serial="1" PGL_strand="+" PGL_start="37533" PGL_stop="42029"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="37533" e_stop="37584"/>
            <exon e_start="38532" e_stop="38717"/>
            <exon e_start="39611" e_stop="39681"/>
            <exon e_start="39871" e_stop="39990"/>
            <exon e_start="41598" e_stop="41716"/>
            <exon e_start="41789" e_stop="41870"/>
            <exon e_start="41981" e_stop="42029"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.913" e_score="0.904"/>
          <exon-intron don_prob="1.000" acc_prob="0.996" e_score="0.978"/>
          <exon-intron don_prob="0.999" acc_prob="0.955" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.935" e_score="0.992"/>
          <exon-intron don_prob="0.233" acc_prob="0.874" e_score="0.983"/>
          <exon-intron don_prob="0.935" acc_prob="0.981" e_score="0.877"/>
          <exon-only e_score="0.755"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.904">
            <gDNA_exon_boundary e_start="37533" e_stop="37584" e_length="52"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.913">
            <gDNA_intron_boundary i_start="37585" i_stop="38531" i_length="947"/>
          </intron>
          <exon e_serial="2" e_score="0.978">
            <gDNA_exon_boundary e_start="38532" e_stop="38717" e_length="186"/>
          </exon>
          <intron i_serial="2" don_prob="1.000" acc_prob="0.996">
            <gDNA_intron_boundary i_start="38718" i_stop="39610" i_length="893"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="39611" e_stop="39681" e_length="71"/>
          </exon>
          <intron i_serial="3" don_prob="0.999" acc_prob="0.955">
            <gDNA_intron_boundary i_start="39682" i_stop="39870" i_length="189"/>
          </intron>
          <exon e_serial="4" e_score="0.992">
            <gDNA_exon_boundary e_start="39871" e_stop="39990" e_length="120"/>
          </exon>
          <intron i_serial="4" don_prob="0.999" acc_prob="0.935">
            <gDNA_intron_boundary i_start="39991" i_stop="41597" i_length="1607"/>
          </intron>
          <exon e_serial="5" e_score="0.983">
            <gDNA_exon_boundary e_start="41598" e_stop="41716" e_length="119"/>
          </exon>
          <intron i_serial="5" don_prob="0.233" acc_prob="0.874">
            <gDNA_intron_boundary i_start="41717" i_stop="41788" i_length="72"/>
          </intron>
          <exon e_serial="6" e_score="0.877">
            <gDNA_exon_boundary e_start="41789" e_stop="41870" e_length="82"/>
          </exon>
          <intron i_serial="6" don_prob="0.935" acc_prob="0.981">
            <gDNA_intron_boundary i_start="41871" i_stop="41980" i_length="110"/>
          </intron>
          <exon e_serial="7" e_score="0.755">
            <gDNA_exon_boundary e_start="41981" e_stop="42029" e_length="49"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="37533" stop="37584"/>
              <exon start="38532" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41715"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E360470" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38532" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39989"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E359985" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38548" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41716"/>
              <exon start="41789" stop="41870"/>
              <exon start="41981" stop="41993"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E344699" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38548" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41716"/>
              <exon start="41789" stop="41864"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E353182" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38548" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41716"/>
              <exon start="41789" stop="41864"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297999" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38548" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41716"/>
              <exon start="41789" stop="41849"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E362610" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38548" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41716"/>
              <exon start="41789" stop="41845"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E272682" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38548" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41716"/>
              <exon start="41789" stop="41838"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E303478" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38548" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41716"/>
              <exon start="41789" stop="41830"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E367162" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38548" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41716"/>
              <exon start="41789" stop="41817"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E261223" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38548" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41716"/>
              <exon start="41789" stop="41817"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E290015" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38548" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41716"/>
              <exon start="41789" stop="41808"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E208966" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38548" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41716"/>
              <exon start="41789" stop="41805"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E206440" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38548" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41716"/>
              <exon start="41789" stop="41805"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E266002" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38548" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41716"/>
              <exon start="41789" stop="41793"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E231142" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38548" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41715"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E336418" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38548" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41700"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293397" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38548" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41700"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E247878" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38548" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41697"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E254510" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38548" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41696"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E361733" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38548" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41691"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E246761" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38561" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41716"/>
              <exon start="41789" stop="41849"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E337638" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38565" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41716"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E271764" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38566" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41716"/>
              <exon start="41789" stop="41870"/>
              <exon start="41981" stop="42029"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E362954" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38577" stop="38717"/>
              <exon start="39611" stop="39672"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E203874" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38593" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E257870" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38601" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41698"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E231291" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38611" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41700"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E239933" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38617" stop="38717"/>
              <exon start="39611" stop="39681"/>
              <exon start="39871" stop="39990"/>
              <exon start="41598" stop="41700"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E204728" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="1" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TCAGGCTTCACACTCTCCTTTTTTAGATCCCTCTTCCATAATCTTCTTTCAG : TGCTCTTTTAACATAGGGATCACCAACAAGAAGGAGAAATGGGGATGTCATTCACCAAGCTTTTCAGTCGGCTTTTCGCCAAGAAAGAAATGCGAATTCTCATGGTTGGACTTGATGCAGCTGGTAAGACCACCATATTGTACAAGCTCAAGCTGGGCGAGATCGTTACTACTATTCCTACCATTG : GTTTCAATGTGGAGACTGTTGAGTACAAGAACATCAGCTTCACTGTTTGGGATGTCGGGGGTCAGGACAAG : ATTCGTCCATTATGGAGGCACTATTTCCAGAACACTCAGGGTCTCATTTTCGTGGTTGATAGCAATGACAGAGATCGCGTTGTGGAGGCAAGAGATGAGTTGCATAGGATGTTAAATGAG : GACGAGCTTCGGGATGTTGTGCTTCTTGTTTTTGCTAACAAACAAGATCTTCCCAATGCAATGAATGCTGCCGAAATAACTGATAAGCTTGGACTGCACTCTCTTAGGCAGCGTCACTG : GTACATTCAGAGCACCTGCGCAACATCAGGAGAGGGACTTTATGAGGGTCTTGATTGGTTGTCTAACAACATAGCTAACAAA : TCCTAAGGCAATGGAAGAGTTCTTGCGGGTTGATACTGGATGCAGGCAG</gDNA_template>
            <first_frame> S  G  F  T  L  S  F  F  R  S  L  F  H  N  L  L  S   : V  L  F  *  H  R  D  H  Q  Q  E  G  E  M  G  M  S  F  T  K  L  F  S  R  L  F  A  K  K  E  M  R  I  L  M  V  G  L  D  A  A  G  K  T  T  I  L  Y  K  L  K  L  G  E  I  V  T  T  I  P  T  I   : G  F  N  V  E  T  V  E  Y  K  N  I  S  F  T  V  W  D  V  G  G  Q  D  K  :  I  R  P  L  W  R  H  Y  F  Q  N  T  Q  G  L  I  F  V  V  D  S  N  D  R  D  R  V  V  E  A  R  D  E  L  H  R  M  L  N  E  :  D  E  L  R  D  V  V  L  L  V  F  A  N  K  Q  D  L  P  N  A  M  N  A  A  E  I  T  D  K  L  G  L  H  S  L  R  Q  R  H  W :   Y  I  Q  S  T  C  A  T  S  G  E  G  L  Y  E  G  L  D  W  L  S  N  N  I  A  N  K  :  S  *  G  N  G  R  V  L  A  G  *  Y  W  M  Q  A  </first_frame>
            <second_frame>  Q  A  S  H  S  P  F  L  D  P  S  S  I  I  F  F  Q  :  C  S  F  N  I  G  I  T  N  K  K  E  K  W  G  C  H  S  P  S  F  S  V  G  F  S  P  R  K  K  C  E  F  S  W  L  D  L  M  Q  L  V  R  P  P  Y  C  T  S  S  S  W  A  R  S  L  L  L  F  L  P  L  :  V  S  M  W  R  L  L  S  T  R  T  S  A  S  L  F  G  M  S  G  V  R  T  R :   F  V  H  Y  G  G  T  I  S  R  T  L  R  V  S  F  S  W  L  I  A  M  T  E  I  A  L  W  R  Q  E  M  S  C  I  G  C  *  M  R :   T  S  F  G  M  L  C  F  L  F  L  L  T  N  K  I  F  P  M  Q  *  M  L  P  K  *  L  I  S  L  D  C  T  L  L  G  S  V  T   : G  T  F  R  A  P  A  Q  H  Q  E  R  D  F  M  R  V  L  I  G  C  L  T  T  *  L  T  N :   P  K  A  M  E  E  F  L  R  V  D  T  G  C  R  Q </second_frame>
            <third_frame>   R  L  H  T  L  L  F  *  I  P  L  P  *  S  S  F  S :   A  L  L  T  *  G  S  P  T  R  R  R  N  G  D  V  I  H  Q  A  F  Q  S  A  F  R  Q  E  R  N  A  N  S  H  G  W  T  *  C  S  W  *  D  H  H  I  V  Q  A  Q  A  G  R  D  R  Y  Y  Y  S  Y  H  W :   F  Q  C  G  D  C  *  V  Q  E  H  Q  L  H  C  L  G  C  R  G  S  G  Q   : D  S  S  I  M  E  A  L  F  P  E  H  S  G  S  H  F  R  G  *  *  Q  *  Q  R  S  R  C  G  G  K  R  *  V  A  *  D  V  K  *   : G  R  A  S  G  C  C  A  S  C  F  C  *  Q  T  R  S  S  Q  C  N  E  C  C  R  N  N  *  *  A  W  T  A  L  S  *  A  A  S  L  :  V  H  S  E  H  L  R  N  I  R  R  G  T  L  *  G  S  *  L  V  V  *  Q  H  S  *  Q   : I  L  R  Q  W  K  S  S  C  G  L  I  L  D  A  G   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0204I09.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="38543" stop="38717"/>
                    <exon start="39611" stop="39681"/>
                    <exon start="39871" stop="39990"/>
                    <exon start="41598" stop="41716"/>
                    <exon start="41789" stop="41870"/>
                    <exon start="41981" stop="41986"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>570</number_coding_nucleotides>
                  <number_encoded_amino_acids>190</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>HRDHQQEGEMGMSFTKLFSRLFAKKEMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDVVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANKS*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="2" PGL_strand="+" PGL_start="61256" PGL_stop="70649"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="61256" e_stop="61350"/>
            <exon e_start="70063" e_stop="70649"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="0.895"/>
          <exon-only e_score="0.901"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.895">
            <gDNA_exon_boundary e_start="61256" e_stop="61350" e_length="95"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="61351" i_stop="70062" i_length="8712"/>
          </intron>
          <exon e_serial="2" e_score="0.901">
            <gDNA_exon_boundary e_start="70063" e_stop="70649" e_length="587"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="61256" stop="61350"/>
              <exon start="70063" stop="70649"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E546519" strand="-"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="2" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>GAAAACTGTTCAAAGATGTATGTGGAGGTTTTTGAGCAAAAATATGTAGAAGGGACCACCTACGGAGCTTGTGACGGTCCATCATGCTTGTGACG : GTCCATAGGTGGCAGCGTAGTGCAGCTACTGAAGGAAGATGGGGAAGTCTGACCAAGTGTGGGGTTACGGAGTCCATGACGGTCCGTCGTGTCTATGACGGTCCGTCCAGCAGATTCGTCATGAAGTTCAGAGAAGTAATCCTAGTACTCATATTCCAAGAGTTTAAGTGTTTTGGAACGAAGACCCTCGACGGACCGTTGTACCTATGACGGTTCGTCATACTTGCCGTCGAGGGTAATGAAGAGAGCAGCAGAAGAAATTTCATCAAATATGGGACGACGGAGTCCATGACGGTTCGTCATGACCACGACGATCCATCGCGAGGTCCGTCGACCCAACCGCGTTTTGATAGATTTCCAGTAAATAAAGTCCTTGTTTAATTAGGTTTTTATTTTCTATAAATAGTTCGAAAAACCTCATTTTTAGGTTAGAATCTGTATTATTAGTTAGAATCTGGATCATTATTAGACTTTGTGTATTAGTGTTAGACTTTTGATTATCATTAGACTTTTTGTGAGATTCTTGATTACGTTGAGATTTTTGCATGTGATTGTTGGTGATTAATCAAGAAAACTTTCAGACTTTA</gDNA_template>
            <first_frame> E  N  C  S  K  M  Y  V  E  V  F  E  Q  K  Y  V  E  G  T  T  Y  G  A  C  D  G  P  S  C  L  *  R :   S  I  G  G  S  V  V  Q  L  L  K  E  D  G  E  V  *  P  S  V  G  L  R  S  P  *  R  S  V  V  S  M  T  V  R  P  A  D  S  S  *  S  S  E  K  *  S  *  Y  S  Y  S  K  S  L  S  V  L  E  R  R  P  S  T  D  R  C  T  Y  D  G  S  S  Y  L  P  S  R  V  M  K  R  A  A  E  E  I  S  S  N  M  G  R  R  S  P  *  R  F  V  M  T  T  T  I  H  R  E  V  R  R  P  N  R  V  L  I  D  F  Q  *  I  K  S  L  F  N  *  V  F  I  F  Y  K  *  F  E  K  P  H  F  *  V  R  I  C  I  I  S  *  N  L  D  H  Y  *  T  L  C  I  S  V  R  L  L  I  I  I  R  L  F  V  R  F  L  I  T  L  R  F  L  H  V  I  V  G  D  *  S  R  K  L  S  D  F  </first_frame>
            <second_frame>  K  T  V  Q  R  C  M  W  R  F  L  S  K  N  M  *  K  G  P  P  T  E  L  V  T  V  H  H  A  C  D   : G  P  *  V  A  A  *  C  S  Y  *  R  K  M  G  K  S  D  Q  V  W  G  Y  G  V  H  D  G  P  S  C  L  *  R  S  V  Q  Q  I  R  H  E  V  Q  R  S  N  P  S  T  H  I  P  R  V  *  V  F  W  N  E  D  P  R  R  T  V  V  P  M  T  V  R  H  T  C  R  R  G  *  *  R  E  Q  Q  K  K  F  H  Q  I  W  D  D  G  V  H  D  G  S  S  *  P  R  R  S  I  A  R  S  V  D  P  T  A  F  *  *  I  S  S  K  *  S  P  C  L  I  R  F  L  F  S  I  N  S  S  K  N  L  I  F  R  L  E  S  V  L  L  V  R  I  W  I  I  I  R  L  C  V  L  V  L  D  F  *  L  S  L  D  F  L  *  D  S  *  L  R  *  D  F  C  M  *  L  L  V  I  N  Q  E  N  F  Q  T  L </second_frame>
            <third_frame>   K  L  F  K  D  V  C  G  G  F  *  A  K  I  C  R  R  D  H  L  R  S  L  *  R  S  I  M  L  V  T  :  V  H  R  W  Q  R  S  A  A  T  E  G  R  W  G  S  L  T  K  C  G  V  T  E  S  M  T  V  R  R  V  Y  D  G  P  S  S  R  F  V  M  K  F  R  E  V  I  L  V  L  I  F  Q  E  F  K  C  F  G  T  K  T  L  D  G  P  L  Y  L  *  R  F  V  I  L  A  V  E  G  N  E  E  S  S  R  R  N  F  I  K  Y  G  T  T  E  S  M  T  V  R  H  D  H  D  D  P  S  R  G  P  S  T  Q  P  R  F  D  R  F  P  V  N  K  V  L  V  *  L  G  F  Y  F  L  *  I  V  R  K  T  S  F  L  G  *  N  L  Y  Y  *  L  E  S  G  S  L  L  D  F  V  Y  *  C  *  T  F  D  Y  H  *  T  F  C  E  I  L  D  Y  V  E  I  F  A  C  D  C  W  *  L  I  K  K  T  F  R  L   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0204I09.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="61330" stop="61350"/>
                    <exon start="70063" stop="70272"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>228</number_coding_nucleotides>
                  <number_encoded_amino_acids>76</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RSIMLVTVHRWQRSAATEGRWGSLTKCGVTESMTVRRVYDGPSSRFVMKFREVILVLIFQEFKCFGTKTLDGPLYL*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="3" PGL_strand="-" PGL_start="139568" PGL_stop="138895"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="139568" e_stop="138895"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.994"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.994">
            <gDNA_exon_boundary e_start="139568" e_stop="138895" e_length="674"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="139568" stop="138895"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E340751" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="3" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>AGTAGCCAGGCGGGTTCCTTCCCCTCTCCCTTATCCTATTATACGAAAATTGTACTCGAAGGCCCCAGGTCGAAATCTCCCTTTCTCTCTTGTCCTTCCTCTAAAATGGGATGTCTCCCTTCGATTTTCTGTTGATGATCGTACAAGGATAGAGTTGGAAGCTTATGCTGAAGAGGGATTTGAATTTCGAAATCAAATCCCATCCATTTTCCGCCCAAAAATTTTCTTCCCATTTTTCTCTCCTATAAATATCAGTGAGAGAAAAGGGAAAAAACTTCTTTAGCTTGAAAAAATATTACAAAAAGTAGAAAGATTTTGAGTCCATTTTTGTTAGCAAGAACTTACAAGAAAAGGAATTACTAGGTTATAATATTCATATAACAAACATGCGATAATTTATTTTTTTTTGTTATTTGTTGCAAAATTTGTTGGATTTCTGAATCTTAAAGGAAGATATTGAAGTCTATCCAAGCTCATTCCTATCTCTGGTTCTCTATACGAAGAAGGTACAACTCGTTTCTCGATAACATACTCTCCTTTTCTCCTCCGTTTTCTCTGTGAAATAGCACTTTGTTGCTGGAAATTTTCTGCTGTTTGTTCATCTATTTAATGTTAATTCAATGGAGATATTGGTATGACTTATATGTTGTTGATTCATTTAAGTAGATATGGTA</gDNA_template>
            <first_frame> S  S  Q  A  G  S  F  P  S  P  L  S  Y  Y  T  K  I  V  L  E  G  P  R  S  K  S  P  F  L  S  C  P  S  S  K  M  G  C  L  P  S  I  F  C  *  *  S  Y  K  D  R  V  G  S  L  C  *  R  G  I  *  I  S  K  S  N  P  I  H  F  P  P  K  N  F  L  P  I  F  L  S  Y  K  Y  Q  *  E  K  R  E  K  T  S  L  A  *  K  N  I  T  K  S  R  K  I  L  S  P  F  L  L  A  R  T  Y  K  K  R  N  Y  *  V  I  I  F  I  *  Q  T  C  D  N  L  F  F  F  V  I  C  C  K  I  C  W  I  S  E  S  *  R  K  I  L  K  S  I  Q  A  H  S  Y  L  W  F  S  I  R  R  R  Y  N  S  F  L  D  N  I  L  S  F  S  P  P  F  S  L  *  N  S  T  L  L  L  E  I  F  C  C  L  F  I  Y  L  M  L  I  Q  W  R  Y  W  Y  D  L  Y  V  V  D  S  F  K  *  I  W   </first_frame>
            <second_frame>  V  A  R  R  V  P  S  P  L  P  Y  P  I  I  R  K  L  Y  S  K  A  P  G  R  N  L  P  F  S  L  V  L  P  L  K  W  D  V  S  L  R  F  S  V  D  D  R  T  R  I  E  L  E  A  Y  A  E  E  G  F  E  F  R  N  Q  I  P  S  I  F  R  P  K  I  F  F  P  F  F  S  P  I  N  I  S  E  R  K  G  K  K  L  L  *  L  E  K  I  L  Q  K  V  E  R  F  *  V  H  F  C  *  Q  E  L  T  R  K  G  I  T  R  L  *  Y  S  Y  N  K  H  A  I  I  Y  F  F  L  L  F  V  A  K  F  V  G  F  L  N  L  K  G  R  Y  *  S  L  S  K  L  I  P  I  S  G  S  L  Y  E  E  G  T  T  R  F  S  I  T  Y  S  P  F  L  L  R  F  L  C  E  I  A  L  C  C  W  K  F  S  A  V  C  S  S  I  *  C  *  F  N  G  D  I  G  M  T  Y  M  L  L  I  H  L  S  R  Y  G  </second_frame>
            <third_frame>   *  P  G  G  F  L  P  L  S  L  I  L  L  Y  E  N  C  T  R  R  P  Q  V  E  I  S  L  S  L  L  S  F  L  *  N  G  M  S  P  F  D  F  L  L  M  I  V  Q  G  *  S  W  K  L  M  L  K  R  D  L  N  F  E  I  K  S  H  P  F  S  A  Q  K  F  S  S  H  F  S  L  L  *  I  S  V  R  E  K  G  K  N  F  F  S  L  K  K  Y  Y  K  K  *  K  D  F  E  S  I  F  V  S  K  N  L  Q  E  K  E  L  L  G  Y  N  I  H  I  T  N  M  R  *  F  I  F  F  C  Y  L  L  Q  N  L  L  D  F  *  I  L  K  E  D  I  E  V  Y  P  S  S  F  L  S  L  V  L  Y  T  K  K  V  Q  L  V  S  R  *  H  T  L  L  F  S  S  V  F  S  V  K  *  H  F  V  A  G  N  F  L  L  F  V  H  L  F  N  V  N  S  M  E  I  L  V  *  L  I  C  C  *  F  I  *  V  D  M  V </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0204I09.1" strand="-"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="139567" stop="139286"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>279</number_coding_nucleotides>
                  <number_encoded_amino_acids>93</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>VARRVPSPLPYPIIRKLYSKAPGRNLPFSLVLPLKWDVSLRFSVDDRTRIELEAYAEEGFEFRNQIPSIFRPKIFFPFFSPINISERKGKKLL*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 273 chains have been computed
$ 
$ memory statistics:
$ 62760 bytes spliced alignments in total
$ 31 spliced alignments have been stored
$ 2024 bytes was the average size of a spliced alignment
$ 8296 bytes predicted gene locations in total
$ 3 predicted gene locations have been stored
$ 2765 bytes was the average size of a predicted gene location
$ 1 megabytes was the average size of the backtrace matrix
$ 319 backtrace matrices have been allocated
$ 
$ date finished: 2009-01-16 02:27:57
-->
