<?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="2009-01-15 17:32:24"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C04HBa0031H05-SIbEf/GenomeThreader_SGN_E_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C04HBa0031H05-SIbEf/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-C04HBa0031H05-SIbEf/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E542175" ref_strand="+" ref_description="SGN-E542175 [TUS-63-F15](-)">
      <seq>ggaagtcaatatgatgttactatactcatttggaaggatccaaagctagggaattggtggatggtgtttggtgacaacacactagtaggttattggcctgctgagttatttacacacttggcggagcgagctacaatggtggagtggggcggagagatcgtaaattcacgggccaatggagaacatacgtctacacaaatgggctcaggccattttggtgatgatggatttagaaaagccagttatttcagaaatcttgaaattgtggactttgataacagcctaagttcagcccaagatatatcaattttggctgagaatacaaattgctataacatcaaaaatgcttatagcactgaatggggtacacatttttattatggtggacctggtagaaatccccaatgcaactaatataatgatgatgaggcaaagtctcctttagctagttatcaccaaatttgttcttttattatttttatttacatcttttaatgctatttccaactttgtttatgctgattaattacacattgttttttcttcttgtgtctatgttttgttttgagggcggaaaatgtatgtattattagttaaataagacaaatagcattaaacagggtaaggaaatagcaaatatttagttgtaatggctactggtacaaaatttgtgatcttatgtttctgaatcttatgaaatgaatcaatttgtttttactaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaagaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0031H05-SIbEf/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0031H05.1" temp_strand="-" temp_description="C04HBa0031H05.1  CT485992.1 htgs_phase:3 submitted_to_sgn_as:C04HBa0031H05 sequenced_by:sanger upload_account_name:uk">
        <position start="14793" stop="12949"/>
      </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="14493" g_stop="14458" g_length="36"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="36" r_length="36" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="14457" i_stop="13934" i_length="524">
            <donor d_prob="0.985" d_score="0.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="13933" g_stop="13250" g_length="684"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="720" r_length="684" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="721" polyA_stop="759"/>
      <MATCH_line gen_id="C04HBa0031H05.1" gen_strand="-" ref_id="SGN-E542175" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>720</cumulative_length_of_scored_exons>
        <coverage percentage="0.949" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0031H05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E542175" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="14493" e_stop="14458"/>
          <exon e_start="13933" e_stop="13250"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGAAGTCAATATGATGTTACTATACTCATTTGGAAGGTCCCATTCTTAATTCCCTTCTCTCATTTTTGCATTTTTAGCTAAACTTAATCTAGAAAATGGAATACTAATCTACCATACACTTTTAAATAACAATATGTTAGTAATTATTACCATACTAGTGTATTTAGACATTTACTTTTATTTGACCAAACTTGTTTACTTAAAAGACATTTTTCAATGAAGTATTTTTAGTAAGAAGTTGATTTGTTGTGTATCACTATGATGAAAGAAATCAAGATGTGATGCAATGAATAAGATTGCTCCTTTCTCAATCACCGGTCTTGATTTCGAACCCTGGATATGACAAAATCATTGGTAGGAAGCGCTTTCGTCCAAATGGAATCCTATGCTACACCAGATGAGAAACCAAAACAAGAAAGAAAACAAGTTACCATTTTCATTAATTTCCTTAGACCGAAATTAATTTCAAAGCCTGGTTAAAATATACAAAATGTATATTTGTGTATACAACATATAATATAGATTTATGTACAATATGTAATGTTTTTGTGTATATATAGGATCCAAAGCTAGGGAATTGGTGGATGGTGTTTGGTGACAACACACTAGTAGGTTATTGGCCTGCTGAGTTATTTACACACTTGGCGGAGCGAGCTACAATGGTGGAGTGGGGCGGAGAGATCGTAAATTCACGGGCCAATGGAGAACATACGTCTACACAAATGGGCTCAGGCCATTTTGGTGATGATGGATTTAGAAAAGCCAGTTATTTCAGAAATCTTGAAATTGTGGACTCTGATAACAGCCTAAGTTCAGCCCAAGATATATCAATCTTGGCTGAGAATACAAATTGCTATAACATCAAAAATGCTTATAGCACTGAATGGGGTACACATTTCTATTATGGTGGACCTGGTAGAAATCCACAATGCAACTAATATAATGATGATGAGGCAAAGTCTCCTTTAGCTAGTTATCACCAAATTTGTTCTTTTATTATTTTTATTTACATCTTTTAATGCTATTTCCAACTTTGTTTATGCTGATTAATTACACATTGTTTTTTCTTCTTGTGTCTATGTTTTGTTTTGAGGGCGGAAAATGTATGTATTATTAGTTAAATAAGACAAATAGCATTAAACAGGGTAAGGAAATAGCAAATATTTAGTTGTAATGGCTACTGGTACAAAATTTGTGATCTTATGTTTCTGAATCTTATGAAATGAATCAATTTGTTTTTACTA</genome_strand>
        <mrna_strand>GGAAGTCAATATGATGTTACTATACTCATTTGGAAG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATCCAAAGCTAGGGAATTGGTGGATGGTGTTTGGTGACAACACACTAGTAGGTTATTGGCCTGCTGAGTTATTTACACACTTGGCGGAGCGAGCTACAATGGTGGAGTGGGGCGGAGAGATCGTAAATTCACGGGCCAATGGAGAACATACGTCTACACAAATGGGCTCAGGCCATTTTGGTGATGATGGATTTAGAAAAGCCAGTTATTTCAGAAATCTTGAAATTGTGGACTTTGATAACAGCCTAAGTTCAGCCCAAGATATATCAATTTTGGCTGAGAATACAAATTGCTATAACATCAAAAATGCTTATAGCACTGAATGGGGTACACATTTTTATTATGGTGGACCTGGTAGAAATCCCCAATGCAACTAATATAATGATGATGAGGCAAAGTCTCCTTTAGCTAGTTATCACCAAATTTGTTCTTTTATTATTTTTATTTACATCTTTTAATGCTATTTCCAACTTTGTTTATGCTGATTAATTACACATTGTTTTTTCTTCTTGTGTCTATGTTTTGTTTTGAGGGCGGAAAATGTATGTATTATTAGTTAAATAAGACAAATAGCATTAAACAGGGTAAGGAAATAGCAAATATTTAGTTGTAATGGCTACTGGTACAAAATTTGTGATCTTATGTTTCTGAATCTTATGAAATGAATCAATTTGTTTTTACTA</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-C04HBa0031H05-SIbEf/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E542177" ref_strand="+" ref_description="SGN-E542177 [TUS-63-F16](-)">
      <seq>agggaattggtggatggtgtttggtgacaacacactagtaggttattggcctgctgagttatttacacacttggcgggagcgagctacaatggtggagtggggcggagaaatcttaaattcacgggccaatggagaacatacgtctacacaaatgggctcaggccattttggtgatgatggatttagaaaagccagttatttcagaaatcttgaaattgtggactctgataacagcctaagttcagcccaagatatatcaattttggctgagaatacaaattgctataacatcaaaaatgcttatagcactgaatggggtacacatttttattatggtggacctggtagaaatccccaatgcaactaatataatgatgatgaggcaaagtctcctttagctagttatcaccaaatttgttcttttattatttttatttacatcttttaatgctatttccaactttgtttatgctgattaattacacattgttttttcttcttgggtctatgttttgttttgagggcggaaaatgtatgtattattagttaaataagacaaatagcattaaacagggtaaggaaatagcaaatatttagttgtaatggctactggtacaaaatttgtgatcttatgtttctgaatcttatgaaatgaatcaatttgttttttctaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0031H05-SIbEf/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0031H05.1" temp_strand="-" temp_description="C04HBa0031H05.1  CT485992.1 htgs_phase:3 submitted_to_sgn_as:C04HBa0031H05 sequenced_by:sanger upload_account_name:uk">
        <position start="14222" stop="12949"/>
      </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="13922" g_stop="13250" g_length="673"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="674" r_length="674" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="675" polyA_stop="713"/>
      <MATCH_line gen_id="C04HBa0031H05.1" gen_strand="-" ref_id="SGN-E542177" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>673</cumulative_length_of_scored_exons>
        <coverage percentage="0.944" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0031H05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E542177" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="13922" e_stop="13250"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGGGAATTGGTGGATGGTGTTTGGTGACAACACACTAGTAGGTTATTGGCCTGCTGAGTTATTTACACACTTGGC-GGAGCGAGCTACAATGGTGGAGTGGGGCGGAGAGATCGTAAATTCACGGGCCAATGGAGAACATACGTCTACACAAATGGGCTCAGGCCATTTTGGTGATGATGGATTTAGAAAAGCCAGTTATTTCAGAAATCTTGAAATTGTGGACTCTGATAACAGCCTAAGTTCAGCCCAAGATATATCAATCTTGGCTGAGAATACAAATTGCTATAACATCAAAAATGCTTATAGCACTGAATGGGGTACACATTTCTATTATGGTGGACCTGGTAGAAATCCACAATGCAACTAATATAATGATGATGAGGCAAAGTCTCCTTTAGCTAGTTATCACCAAATTTGTTCTTTTATTATTTTTATTTACATCTTTTAATGCTATTTCCAACTTTGTTTATGCTGATTAATTACACATTGTTTTTTCTTCTTGTGTCTATGTTTTGTTTTGAGGGCGGAAAATGTATGTATTATTAGTTAAATAAGACAAATAGCATTAAACAGGGTAAGGAAATAGCAAATATTTAGTTGTAATGGCTACTGGTACAAAATTTGTGATCTTATGTTTCTGAATCTTATGAAATGAATCAATTTGTTTTTACTA</genome_strand>
        <mrna_strand>AGGGAATTGGTGGATGGTGTTTGGTGACAACACACTAGTAGGTTATTGGCCTGCTGAGTTATTTACACACTTGGCGGGAGCGAGCTACAATGGTGGAGTGGGGCGGAGAAATCTTAAATTCACGGGCCAATGGAGAACATACGTCTACACAAATGGGCTCAGGCCATTTTGGTGATGATGGATTTAGAAAAGCCAGTTATTTCAGAAATCTTGAAATTGTGGACTCTGATAACAGCCTAAGTTCAGCCCAAGATATATCAATTTTGGCTGAGAATACAAATTGCTATAACATCAAAAATGCTTATAGCACTGAATGGGGTACACATTTTTATTATGGTGGACCTGGTAGAAATCCCCAATGCAACTAATATAATGATGATGAGGCAAAGTCTCCTTTAGCTAGTTATCACCAAATTTGTTCTTTTATTATTTTTATTTACATCTTTTAATGCTATTTCCAACTTTGTTTATGCTGATTAATTACACATTGTTTTTTCTTCTTGGGTCTATGTTTTGTTTTGAGGGCGGAAAATGTATGTATTATTAGTTAAATAAGACAAATAGCATTAAACAGGGTAAGGAAATAGCAAATATTTAGTTGTAATGGCTACTGGTACAAAATTTGTGATCTTATGTTTCTGAATCTTATGAAATGAATCAATTTGTTTTTTCTA</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-C04HBa0031H05-SIbEf/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E736803" ref_strand="+" ref_description="SGN-E736803 [LC07BA12]">
      <seq>cggtgctctagtctctttttttctctttccttttctttggcactgaatgaaatatggttaaaattaagaagaaagatcaaagttttctagtcttgactttgtgtttgttctttgttatgtgtgaagcacataatttgaactacacaaagtataaacaagttagcaatatgagacttgaaaggattcaaaggcatttggatagaatcaacaagcctcctctcttcactattcagagcccggatggagatatcatagattgtgttcataaaagaaaacaaccagctttcgatcatcctttgctcaagaatcacaagattcagaagattccaccagagattccaaaactgaaaacgtctgtgaaaacagacgcgatgatgagtagagacgttgtaagtaacaatagcaaaagtgcagtgatagattggcaattatggcaccaaaacggaacgcggtgccctgcaggcactgtcccgatacgacggagtgaggttcatgatgtgcttagagcaaagtcattgtatgattttggtaagaaaaaacgacatggattgcctattgctcgtcgtgttgatgctcctgatgttgttagtggcaatggacatgagcacgcaatagcatatactggagggtctgaagagatatatggtgcaaaagcaacaataaacgtatgggaaccatcaatcgaagtagtgaacgagtttagtctatctcaaatttgggttctatctggatctttttgacgggtcggatcttaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0031H05-SIbEf/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0031H05.1" temp_strand="-" temp_description="C04HBa0031H05.1  CT485992.1 htgs_phase:3 submitted_to_sgn_as:C04HBa0031H05 sequenced_by:sanger upload_account_name:uk">
        <position start="22993" stop="20245"/>
      </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="22694" g_stop="22462" g_length="233"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="233" r_length="233" r_score="0.996"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22461" i_stop="22385" i_length="77">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22384" g_stop="22298" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="234" r_stop="320" r_length="87" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22297" i_stop="21745" i_length="553">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="21744" g_stop="21460" g_length="285"/>
          <reference_exon_boundary r_type="cDNA" r_start="321" r_stop="605" r_length="285" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21459" i_stop="20695" i_length="765">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="20694" g_stop="20545" g_length="150"/>
          <reference_exon_boundary r_type="cDNA" r_start="606" r_stop="756" r_length="151" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0031H05.1" gen_strand="-" ref_id="SGN-E736803" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>755</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0031H05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E736803" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22694" e_stop="22462"/>
          <exon e_start="22384" e_stop="22298"/>
          <exon e_start="21744" e_stop="21460"/>
          <exon e_start="20694" e_stop="20545"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGTGCTCTAGTCTCTTTTTTTCTCTTTCCTTTTCTTTGGCACTGAATGAAATATGGTTAAAATTAAGAAGAAAGATCAAAGTTTTCTAGTCTTGACTTTGTGTTTGTTCTTTGTTATGTGTGAAGCACATAATTTGAACTACACAAAGTATAAACAAGTTAGCAATATGAGACTTGAAAGGATTCAAAGGCATTTGGATAGAATCAACAAGCCTCCTCTCTTCACTATTCAGGTACATAAATTATGTTGTATTCATTAAATCATTTTGATATATGTCTTTCTTTTAACGAAAATGAAATTGATATATAGAGCCCGGATGGAGATATCATAGATTGTGTTCATAAAAGAAAACAACCAGCTTTCGATCATCCTTTGCTCAAGAATCACAAGATTCAGGTATAGACTACTTTAATTTCTTCTTTCTTTTTTTTCGCCTTTTGTGCCAATGAGATATAGTAATAAATTAAATATATCAAGTTGCAACCCCCTACCTCCTTCTTTATGAAATTTGTTGCTAGCTCATTTACAGTTAAGTACGATCACGAACCAACTACATGTTTGTTGCTTTGGAATTAAAGGTTGCAAATAGTCATATAACAAACTATTTATATCTCATATTTTATCGCGAGTTTTAAGACAGAAATGATGTTCTATAAGCTCTGAATGAAAGAAAATAACTTTACAATAATTGAAATAACATTTGTAATGAGTCTATAAAAAGCTCTCTCTTTTTTGAAAAAAAACAAATCCAAAATTAAAAGATGTGGTGCTATAATAATAATAACTATTATAATAATGATAATATTAGGATTTCAACTACCAACTACCCTTACTTTCACTTTAGTTTTTCGTCTTTTCTTTTCTTTTACTCACAAGCAACAAGTTACTAATCATCATAAATTTTTATTATTTTTTAACTTCTAAATCATTGCAATGTACTCAATTACAGAAGATTCCACCAGAGATTCCAAAACTGAAAACGTCTGTGAAAACAGACGCGATGATGAGTAGAGACGTTGTAAGTAACAATAGCAAAAGTGCAGTGATAGATTGGCAATTATGGCACCAAAACGGAACGCGGTGCCCTGCAGGCACTGTCCCGATACGACGGAGTGAGGTTCATGATGTGCTTAGAGCAAAGTCATTGTATGATTTTGGTAAGAAAAAACGACATGGATTGCCTATTGCTCGTCGTGTTGATGCTCCTGATGTTGTTAGTGGCAATGGACATGAGGTATCTAACTTTTTTTACCCCGTCTCTAATTATCTGTCGTTTCACGTTTATTTTAGACTACTTTAACCTAAAGTATATTTACAATAAAAATCTCTCTTTATTAAATATTTACTCACTTAATTATGTCTATCATATAAAAAAAAGAGTAGAAGATCTAAAATAAGACACCTAGAAATAAATGAAATTGACAACTTCAAAAAAAAAAGTAGAAGCAGACAAGATCGGAACTCGTTTTGTTAGGTTGAAACGATTGGTGTCTACCTTGTATATTTGTAATAGTATTAGTAATTCCCCTCCCCTAATCCGACCTAATTTCATAGAGTCATTCGGTCTGAATGCTAGATGAAGAGTCACTCTTATGTAACGATGCATATTAACAATACTAATATTTAAGGACTTTGTAGTCTTTAAAAACAATATAATAGGAATTTATTAATGCAAGTGTAATTTGAAGGAGATGGAATTATAGAAGCCGTATTACATTGAAGAAGAATGTAGTACATATATATGTTTTGGGTAGTTAATTCATTAAAGTCATTACTAGTGGTAGTTGTAAGGCGTAAATGTCCCAAGTTAGTGAAATTGAAATATGACTAGTAATTTAAGGATATTTGTATGCTATCTACTTAATTATTATTATAGCTCATAATTAGTAGTTATGACATTTTTAATTAATCATATGTTAATTATATGCGTATCATAACTATTTTAATATACATATCGAATGAATGAATGCTTTAAAACAAAATATGCTATGTATTGTAGCACGCAATAGCATATACTGGAGGGTCTGAAGAGATATATGGTGCAAAAGCAACAATAAACGTATGGGAACCATCAATCGAAGTAGTGAACGAGTTTAGTCTATCTCAAATTTGGGTTCTATCTGGATC-TTTTGACGGGTCGGATCTTAAT</genome_strand>
        <mrna_strand>CGGTGCTCTAGTCTCTTTTTTTCTCTTTCCTTTTCTTTGGCACTGAATGAAATATGGTTAAAATTAAGAAGAAAGATCAAAGTTTTCTAGTCTTGACTTTGTGTTTGTTCTTTGTTATGTGTGAAGCACATAATTTGAACTACACAAAGTATAAACAAGTTAGCAATATGAGACTTGAAAGGATTCAAAGGCATTTGGATAGAATCAACAAGCCTCCTCTCTTCACTATTCAG.............................................................................AGCCCGGATGGAGATATCATAGATTGTGTTCATAAAAGAAAACAACCAGCTTTCGATCATCCTTTGCTCAAGAATCACAAGATTCAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAGATTCCACCAGAGATTCCAAAACTGAAAACGTCTGTGAAAACAGACGCGATGATGAGTAGAGACGTTGTAAGTAACAATAGCAAAAGTGCAGTGATAGATTGGCAATTATGGCACCAAAACGGAACGCGGTGCCCTGCAGGCACTGTCCCGATACGACGGAGTGAGGTTCATGATGTGCTTAGAGCAAAGTCATTGTATGATTTTGGTAAGAAAAAACGACATGGATTGCCTATTGCTCGTCGTGTTGATGCTCCTGATGTTGTTAGTGGCAATGGACATGAG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CACGCAATAGCATATACTGGAGGGTCTGAAGAGATATATGGTGCAAAAGCAACAATAAACGTATGGGAACCATCAATCGAAGTAGTGAACGAGTTTAGTCTATCTCAAATTTGGGTTCTATCTGGATCTTTTTGACGGGTCGGATCTTAAT</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-C04HBa0031H05-SIbEf/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E542178" ref_strand="+" ref_description="SGN-E542178 [TUS-63-F15]">
      <seq>atattgaaggagagattaagtaaggtgtaaaccaataataaaagaaagtggggataggttttattactctatttttctgccccatagtattaactcccttttccatcattgtaaaaacaatgtattgactgtccatttttatttatatgatgctgctctcctctcaatcatcatgaatctcaaccacctcttttcctatgcatttactacatttatgtgtttaaaacacttttctttttttctactaatggtgctctagtctctttttttctctttccttttctttggcactgaatgaaatatggttaaaattaagaagaaagatcaaagttttctagtcttgactttgtgtttgttctttgttatgtgtgaagcacataatttgaactacacaaagtataaacaagttagcaatatgagacttgaaaggattcaaaggcatttggatagaatcaacaagcctcctctcttcactattcagagcccggatggagatatcatagattgtgttcataaaagaaaacaaccagctttcgatcatcctttgctcaagaatcacaagattcagaagattccaccagagattccaaaactgaaaacgtctgtgaaaacagacgcgatgatgagtagagacgttgtaagtaacaatagcaaaagtgcagtgatagattggcaattatggcnacaaaacggaacgcggtgccctgcaggcactgtcccgatacgacngagtgagggtcatgatgtgcttagagcaaagtcattgtatgattttggta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0031H05-SIbEf/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0031H05.1" temp_strand="-" temp_description="C04HBa0031H05.1  CT485992.1 htgs_phase:3 submitted_to_sgn_as:C04HBa0031H05 sequenced_by:sanger upload_account_name:uk">
        <position start="23242" stop="21234"/>
      </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="22942" g_stop="22462" g_length="481"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="481" r_length="481" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22461" i_stop="22385" i_length="77">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22384" g_stop="22298" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="482" r_stop="568" r_length="87" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22297" i_stop="21745" i_length="553">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="21744" g_stop="21534" g_length="211"/>
          <reference_exon_boundary r_type="cDNA" r_start="569" r_stop="779" r_length="211" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0031H05.1" gen_strand="-" ref_id="SGN-E542178" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>779</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0031H05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E542178" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22942" e_stop="22462"/>
          <exon e_start="22384" e_stop="22298"/>
          <exon e_start="21744" e_stop="21534"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATATTGAAGGAGAGATTAAGTAAGGTGTAAACCAATAATAAAAGAAAGTGGGGATAGGTTTTATTACTCTATTTTTCTGCCCCATAGTATTAACTCCCTTTTCCATCATTGTAAAAACAATGTATTGACTGTCCATTTTTATTTATATGATGCTGCTCTCCTCTCAATCATCATGAATCTCAACCACCTCTTTTCCTATGCATTTACTACATTTATGTGTTTAAAACACTTTTCTTTTTTTCTACTAATGGTGCTCTAGTCTCTTTTTTTCTCTTTCCTTTTCTTTGGCACTGAATGAAATATGGTTAAAATTAAGAAGAAAGATCAAAGTTTTCTAGTCTTGACTTTGTGTTTGTTCTTTGTTATGTGTGAAGCACATAATTTGAACTACACAAAGTATAAACAAGTTAGCAATATGAGACTTGAAAGGATTCAAAGGCATTTGGATAGAATCAACAAGCCTCCTCTCTTCACTATTCAGGTACATAAATTATGTTGTATTCATTAAATCATTTTGATATATGTCTTTCTTTTAACGAAAATGAAATTGATATATAGAGCCCGGATGGAGATATCATAGATTGTGTTCATAAAAGAAAACAACCAGCTTTCGATCATCCTTTGCTCAAGAATCACAAGATTCAGGTATAGACTACTTTAATTTCTTCTTTCTTTTTTTTCGCCTTTTGTGCCAATGAGATATAGTAATAAATTAAATATATCAAGTTGCAACCCCCTACCTCCTTCTTTATGAAATTTGTTGCTAGCTCATTTACAGTTAAGTACGATCACGAACCAACTACATGTTTGTTGCTTTGGAATTAAAGGTTGCAAATAGTCATATAACAAACTATTTATATCTCATATTTTATCGCGAGTTTTAAGACAGAAATGATGTTCTATAAGCTCTGAATGAAAGAAAATAACTTTACAATAATTGAAATAACATTTGTAATGAGTCTATAAAAAGCTCTCTCTTTTTTGAAAAAAAACAAATCCAAAATTAAAAGATGTGGTGCTATAATAATAATAACTATTATAATAATGATAATATTAGGATTTCAACTACCAACTACCCTTACTTTCACTTTAGTTTTTCGTCTTTTCTTTTCTTTTACTCACAAGCAACAAGTTACTAATCATCATAAATTTTTATTATTTTTTAACTTCTAAATCATTGCAATGTACTCAATTACAGAAGATTCCACCAGAGATTCCAAAACTGAAAACGTCTGTGAAAACAGACGCGATGATGAGTAGAGACGTTGTAAGTAACAATAGCAAAAGTGCAGTGATAGATTGGCAATTATGGCACCAAAACGGAACGCGGTGCCCTGCAGGCACTGTCCCGATACGACGGAGTGAGGTTCATGATGTGCTTAGAGCAAAGTCATTGTATGATTTTGGTA</genome_strand>
        <mrna_strand>ATATTGAAGGAGAGATTAAGTAAGGTGTAAACCAATAATAAAAGAAAGTGGGGATAGGTTTTATTACTCTATTTTTCTGCCCCATAGTATTAACTCCCTTTTCCATCATTGTAAAAACAATGTATTGACTGTCCATTTTTATTTATATGATGCTGCTCTCCTCTCAATCATCATGAATCTCAACCACCTCTTTTCCTATGCATTTACTACATTTATGTGTTTAAAACACTTTTCTTTTTTTCTACTAATGGTGCTCTAGTCTCTTTTTTTCTCTTTCCTTTTCTTTGGCACTGAATGAAATATGGTTAAAATTAAGAAGAAAGATCAAAGTTTTCTAGTCTTGACTTTGTGTTTGTTCTTTGTTATGTGTGAAGCACATAATTTGAACTACACAAAGTATAAACAAGTTAGCAATATGAGACTTGAAAGGATTCAAAGGCATTTGGATAGAATCAACAAGCCTCCTCTCTTCACTATTCAG.............................................................................AGCCCGGATGGAGATATCATAGATTGTGTTCATAAAAGAAAACAACCAGCTTTCGATCATCCTTTGCTCAAGAATCACAAGATTCAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAGATTCCACCAGAGATTCCAAAACTGAAAACGTCTGTGAAAACAGACGCGATGATGAGTAGAGACGTTGTAAGTAACAATAGCAAAAGTGCAGTGATAGATTGGCAATTATGGCNACAAAACGGAACGCGGTGCCCTGCAGGCACTGTCCCGATACGACNGAGTGAGGGTCATGATGTGCTTAGAGCAAAGTCATTGTATGATTTTGGTA</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-C04HBa0031H05-SIbEf/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E542179" ref_strand="+" ref_description="SGN-E542179 [TUS-63-F16]">
      <seq>atattgaaggagagattaagtaaggtgtaaaccaataataaaagaaagtggggataggttttattactctatttttctgccccatagtattaactcccttttccatcattgtaaaaacaatgtattgactgtccatttttatttatatgatgctgctctcctctcaatcatcatgaatctcaaccacctcttttcctatgcatttactacatttatgtgtttaaaacacttttctttttttctactaatggtgctctagtctctttttttctctttccttttctttggcactgaatgaaatatggttaaaattaagaagaaagatcaaagttttctagtcttgactttgtgtttgttctttgttatgtgtgaagcacataatttgaactacacaaagtataaacaagttagcaatatgagacttgaaaggattcaaaggcatttggatagaatcaacaagcctcctctcttcactattcagagcccggatggagatatcatagattgtgttcataaaagaaaacaaccagctttcgatcatcctttgctcaagaatcacaagattcagaagattccaccagagattccaaaactgaaaacgtctgtgaaaacagacgcgatgatgagtagagacgttgtaagtaacaatagcaaaagtgcagtgatagattggcaattatggcaccaaaacggaacgcggtgccctgcangcactgtcccgatacgacggagtgaggttcatgatgtgctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0031H05-SIbEf/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0031H05.1" temp_strand="-" temp_description="C04HBa0031H05.1  CT485992.1 htgs_phase:3 submitted_to_sgn_as:C04HBa0031H05 sequenced_by:sanger upload_account_name:uk">
        <position start="23242" stop="21262"/>
      </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="22942" g_stop="22462" g_length="481"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="481" r_length="481" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22461" i_stop="22385" i_length="77">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22384" g_stop="22298" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="482" r_stop="568" r_length="87" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22297" i_stop="21745" i_length="553">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="21744" g_stop="21562" g_length="183"/>
          <reference_exon_boundary r_type="cDNA" r_start="569" r_stop="751" r_length="183" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0031H05.1" gen_strand="-" ref_id="SGN-E542179" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>751</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0031H05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E542179" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22942" e_stop="22462"/>
          <exon e_start="22384" e_stop="22298"/>
          <exon e_start="21744" e_stop="21562"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATATTGAAGGAGAGATTAAGTAAGGTGTAAACCAATAATAAAAGAAAGTGGGGATAGGTTTTATTACTCTATTTTTCTGCCCCATAGTATTAACTCCCTTTTCCATCATTGTAAAAACAATGTATTGACTGTCCATTTTTATTTATATGATGCTGCTCTCCTCTCAATCATCATGAATCTCAACCACCTCTTTTCCTATGCATTTACTACATTTATGTGTTTAAAACACTTTTCTTTTTTTCTACTAATGGTGCTCTAGTCTCTTTTTTTCTCTTTCCTTTTCTTTGGCACTGAATGAAATATGGTTAAAATTAAGAAGAAAGATCAAAGTTTTCTAGTCTTGACTTTGTGTTTGTTCTTTGTTATGTGTGAAGCACATAATTTGAACTACACAAAGTATAAACAAGTTAGCAATATGAGACTTGAAAGGATTCAAAGGCATTTGGATAGAATCAACAAGCCTCCTCTCTTCACTATTCAGGTACATAAATTATGTTGTATTCATTAAATCATTTTGATATATGTCTTTCTTTTAACGAAAATGAAATTGATATATAGAGCCCGGATGGAGATATCATAGATTGTGTTCATAAAAGAAAACAACCAGCTTTCGATCATCCTTTGCTCAAGAATCACAAGATTCAGGTATAGACTACTTTAATTTCTTCTTTCTTTTTTTTCGCCTTTTGTGCCAATGAGATATAGTAATAAATTAAATATATCAAGTTGCAACCCCCTACCTCCTTCTTTATGAAATTTGTTGCTAGCTCATTTACAGTTAAGTACGATCACGAACCAACTACATGTTTGTTGCTTTGGAATTAAAGGTTGCAAATAGTCATATAACAAACTATTTATATCTCATATTTTATCGCGAGTTTTAAGACAGAAATGATGTTCTATAAGCTCTGAATGAAAGAAAATAACTTTACAATAATTGAAATAACATTTGTAATGAGTCTATAAAAAGCTCTCTCTTTTTTGAAAAAAAACAAATCCAAAATTAAAAGATGTGGTGCTATAATAATAATAACTATTATAATAATGATAATATTAGGATTTCAACTACCAACTACCCTTACTTTCACTTTAGTTTTTCGTCTTTTCTTTTCTTTTACTCACAAGCAACAAGTTACTAATCATCATAAATTTTTATTATTTTTTAACTTCTAAATCATTGCAATGTACTCAATTACAGAAGATTCCACCAGAGATTCCAAAACTGAAAACGTCTGTGAAAACAGACGCGATGATGAGTAGAGACGTTGTAAGTAACAATAGCAAAAGTGCAGTGATAGATTGGCAATTATGGCACCAAAACGGAACGCGGTGCCCTGCAGGCACTGTCCCGATACGACGGAGTGAGGTTCATGATGTGCTT</genome_strand>
        <mrna_strand>ATATTGAAGGAGAGATTAAGTAAGGTGTAAACCAATAATAAAAGAAAGTGGGGATAGGTTTTATTACTCTATTTTTCTGCCCCATAGTATTAACTCCCTTTTCCATCATTGTAAAAACAATGTATTGACTGTCCATTTTTATTTATATGATGCTGCTCTCCTCTCAATCATCATGAATCTCAACCACCTCTTTTCCTATGCATTTACTACATTTATGTGTTTAAAACACTTTTCTTTTTTTCTACTAATGGTGCTCTAGTCTCTTTTTTTCTCTTTCCTTTTCTTTGGCACTGAATGAAATATGGTTAAAATTAAGAAGAAAGATCAAAGTTTTCTAGTCTTGACTTTGTGTTTGTTCTTTGTTATGTGTGAAGCACATAATTTGAACTACACAAAGTATAAACAAGTTAGCAATATGAGACTTGAAAGGATTCAAAGGCATTTGGATAGAATCAACAAGCCTCCTCTCTTCACTATTCAG.............................................................................AGCCCGGATGGAGATATCATAGATTGTGTTCATAAAAGAAAACAACCAGCTTTCGATCATCCTTTGCTCAAGAATCACAAGATTCAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAGATTCCACCAGAGATTCCAAAACTGAAAACGTCTGTGAAAACAGACGCGATGATGAGTAGAGACGTTGTAAGTAACAATAGCAAAAGTGCAGTGATAGATTGGCAATTATGGCACCAAAACGGAACGCGGTGCCCTGCANGCACTGTCCCGATACGACGGAGTGAGGTTCATGATGTGCTT</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-C04HBa0031H05-SIbEf/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E300061" ref_strand="+" ref_description="SGN-E300061 [cLEW-11-M11]">
      <seq>tattgaaggagagattaagtaaggtgtaaaccaataataaaagaaagtggggataggttttattactctatttttctgccccatagtattaactcccttttccatcattgtaaaaacaatgtattgactgtccatttttatttatatgatgctgctctcctctcaatcatcatgaatctcaaccacctcttttcctatgcatttactacatttatgtgtttaaaacacttttctttttttctactaatggtgctctagtctctttttttctctttccttttctttggcactgaatgaaatatggttaaaattaagaagaaagatcaaagttttctagtcttgactttgtgtttgttctttgttatgtgtgaagcacataatttgaactacacaaagtataaacaagttagcaatatgagacttgaaaggattcaaaggcatttggatagaatcaacaagcctcctctcttcactattc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0031H05-SIbEf/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0031H05.1" temp_strand="-" temp_description="C04HBa0031H05.1  CT485992.1 htgs_phase:3 submitted_to_sgn_as:C04HBa0031H05 sequenced_by:sanger upload_account_name:uk">
        <position start="23241" stop="22164"/>
      </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="22941" g_stop="22464" g_length="478"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="478" r_length="478" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0031H05.1" gen_strand="-" ref_id="SGN-E300061" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>478</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0031H05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E300061" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22941" e_stop="22464"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TATTGAAGGAGAGATTAAGTAAGGTGTAAACCAATAATAAAAGAAAGTGGGGATAGGTTTTATTACTCTATTTTTCTGCCCCATAGTATTAACTCCCTTTTCCATCATTGTAAAAACAATGTATTGACTGTCCATTTTTATTTATATGATGCTGCTCTCCTCTCAATCATCATGAATCTCAACCACCTCTTTTCCTATGCATTTACTACATTTATGTGTTTAAAACACTTTTCTTTTTTTCTACTAATGGTGCTCTAGTCTCTTTTTTTCTCTTTCCTTTTCTTTGGCACTGAATGAAATATGGTTAAAATTAAGAAGAAAGATCAAAGTTTTCTAGTCTTGACTTTGTGTTTGTTCTTTGTTATGTGTGAAGCACATAATTTGAACTACACAAAGTATAAACAAGTTAGCAATATGAGACTTGAAAGGATTCAAAGGCATTTGGATAGAATCAACAAGCCTCCTCTCTTCACTATTC</genome_strand>
        <mrna_strand>TATTGAAGGAGAGATTAAGTAAGGTGTAAACCAATAATAAAAGAAAGTGGGGATAGGTTTTATTACTCTATTTTTCTGCCCCATAGTATTAACTCCCTTTTCCATCATTGTAAAAACAATGTATTGACTGTCCATTTTTATTTATATGATGCTGCTCTCCTCTCAATCATCATGAATCTCAACCACCTCTTTTCCTATGCATTTACTACATTTATGTGTTTAAAACACTTTTCTTTTTTTCTACTAATGGTGCTCTAGTCTCTTTTTTTCTCTTTCCTTTTCTTTGGCACTGAATGAAATATGGTTAAAATTAAGAAGAAAGATCAAAGTTTTCTAGTCTTGACTTTGTGTTTGTTCTTTGTTATGTGTGAAGCACATAATTTGAACTACACAAAGTATAAACAAGTTAGCAATATGAGACTTGAAAGGATTCAAAGGCATTTGGATAGAATCAACAAGCCTCCTCTCTTCACTATTC</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-C04HBa0031H05-SIbEf/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E380017" ref_strand="+" ref_description="SGN-E380017 [TUS-1-D13](-)">
      <seq>catcaagatttacgtggaaaccccttcgatgtgaagagtaaaaaaccacgggtccaaaagctccactataatcaccaagagttacaatattgttctccaaaattggccacaaaacaaagtgtcaaacaacgagcaacaacaaaataagattgctccaaatctagagaattaaaggagcaaaatcaccaatttcgcagctactgttcacgacagcaaaactgaagctgcagaccaccaaatccaactctgtcagttcctaatcaaagattgagatgaagataatatgctgtccaaaaatcagctcaatcggacaagaaacgaagcgggaatcgcaatttgaagttggttgttatggctggatttttgactgcgaatttctctcttttttctctcttttagctgctgaaaaactctctctgaaaaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0031H05-SIbEf/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0031H05.1" temp_strand="+" temp_description="C04HBa0031H05.1  CT485992.1 htgs_phase:3 submitted_to_sgn_as:C04HBa0031H05 sequenced_by:sanger upload_account_name:uk">
        <position start="56498" stop="57469"/>
      </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="56798" g_stop="57221" g_length="424"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="425" r_length="425" r_score="0.917"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0031H05.1" gen_strand="+" ref_id="SGN-E380017" ref_strand="+">
        <total_alignment_score>0.917</total_alignment_score>
        <cumulative_length_of_scored_exons>424</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0031H05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E380017" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="56798" e_stop="57221"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACCAAAATTTACGTGGAAAACCCTTCGATGTGAAGAGTAAAAAACCACGGGACCAAAAGCTCCACTATAATCACCAAGAGTTACAATATTGTTCTCCAAAATTGGCCACAAAAC-AAGTGCCAAACAACGAGCAACAACAAAATAAGATTGCACCAAATCTAGAGAATTAAAGGAGCAAAATCACCAATTTCACAGCTACTGTTCACGATAGCAAAACTGAAGCTGCAGACTACCAAATCCAACTATGTTAGTTCCTAATCAAATATTGAGATTAAGATAATATGCTGTCCAAAAATCAGCTCAATCGGACAAGAAACGAAGCGGGAATCGCAATTTGAAGTTGGTTGTTAAGGCT-GAATTTTGACTGCGAAAAACTGCTCTTTTTCTCTCTTTTTGGCTGCTGAAAAAAACTCTATGTATGAA</genome_strand>
        <mrna_strand>CATCAAGATTTACGTGGAAACCCCTTCGATGTGAAGAGTAAAAAACCACGGGTCCAAAAGCTCCACTATAATCACCAAGAGTTACAATATTGTTCTCCAAAATTGGCCACAAAACAAAGTGTCAAACAACGAGCAACAACAAAATAAGATTGCTCCAAATCTAGAGAATTAAAGGAGCAAAATCACCAATTTCGCAGCTACTGTTCACGACAGCAAAACTGAAGCTGCAGACCACCAAATCCAACTCTGTCAGTTCCTAATCAAAGATTGAGATGAAGATAATATGCTGTCCAAAAATCAGCTCAATCGGACAAGAAACGAAGCGGGAATCGCAATTTGAAGTTGGTTGTTATGGCTGGATTTTTGACTGCGAATTTCTCTCTTTTTTCTCTC-TTTTAGCTGCTGAAAAACTCTCTCTGAAAAAT</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-C04HBa0031H05-SIbEf/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E258887" ref_strand="+" ref_description="SGN-E258887 [cLEG-41-G4]">
      <seq>tgatgagcacattgataagttctctagcgtcttcatcctctgaaaggagacaggttgctggacgagcactcggtgagcttgttaggaagcttggagaaagagtccttcctttgattatcccaatattgtcacggggtctaaaagatccaaatccaagtagaagacaaggtgtctgcatcggtctaagtgaagtaatggccagtgctggcaggagtcaattgttgagttatatggatgagcttatccccacaattcggacagcactttgtgatagtatgggcgaggttcgggaatcagcaggcctggcatttagtactctttacaagaatgctggaatgcaagcaattgatgagattgttccaacacttcttcatgcactggaggatgaggatacctcagatactgctctggatggcttaaaacaaattctgagtgtcaggaccacagctgtgctgccacacatcct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0031H05-SIbEf/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0031H05.1" temp_strand="-" temp_description="C04HBa0031H05.1  CT485992.1 htgs_phase:3 submitted_to_sgn_as:C04HBa0031H05 sequenced_by:sanger upload_account_name:uk">
        <position start="90496" stop="88431"/>
      </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="90196" g_stop="90144" g_length="53"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="53" r_length="53" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="90143" i_stop="90062" i_length="82">
            <donor d_prob="0.985" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="90061" g_stop="89948" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="54" r_stop="167" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="89947" i_stop="89288" i_length="660">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="89287" g_stop="89181" g_length="107"/>
          <reference_exon_boundary r_type="cDNA" r_start="168" r_stop="274" r_length="107" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="89180" i_stop="89093" i_length="88">
            <donor d_prob="0.850" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="89092" g_stop="89041" g_length="52"/>
          <reference_exon_boundary r_type="cDNA" r_start="275" r_stop="326" r_length="52" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="89040" i_stop="88954" i_length="87">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.969" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="88953" g_stop="88847" g_length="107"/>
          <reference_exon_boundary r_type="cDNA" r_start="327" r_stop="433" r_length="107" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="88846" i_stop="88764" i_length="83">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="88763" g_stop="88731" g_length="33"/>
          <reference_exon_boundary r_type="cDNA" r_start="434" r_stop="466" r_length="33" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0031H05.1" gen_strand="-" ref_id="SGN-E258887" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>466</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0031H05.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E258887" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="90196" e_stop="90144"/>
          <exon e_start="90061" e_stop="89948"/>
          <exon e_start="89287" e_stop="89181"/>
          <exon e_start="89092" e_stop="89041"/>
          <exon e_start="88953" e_stop="88847"/>
          <exon e_start="88763" e_stop="88731"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGATGAGCACATTGATAAGTTCTCTAGCGTCTTCATCCTCTGAAAGGAGACAGGTATGCTGTTACCCTTGTTTGTGGTAAACAAAAATGTATTCAGTAGTTCTGGGATAAGAATTCTGTGGTCTGAAATTCGCAGGTTGCTGGACGAGCACTCGGTGAGCTTGTTAGGAAGCTTGGAGAAAGAGTCCTTCCTTTGATTATCCCAATATTGTCACGGGGTCTAAAAGATCCAAATCCAAGTAGAAGACAAGTGAGTACTTTACTTCTTCTGTATGCTTCTAGGTGTTTTCTGTAATTTCTCTGCATGTTGTCTGTCTTAGAGTACTTCATGTTAATCTTCGTTCATCTATCCAAATTGGGAGTTATAGTTTCATTGCGAACAGAGTTAAGGTATATCTTAGTGAGATAACGTTGTACAGCTGAAGCGTATTTGGGGGGTGATGATTTTCAGAACAAATTATATGATTGAGCTTCTTTGTTAGAAATGTACTGGAAGTCTTGTTAATAGAAAAGAGCTAACAACTTTTGCTTAAGCTCTGTGTGAGCCCTTTTGTCTATTCTGTAATTCTGCATCTTAAAAAAATTCACATTTTTTGTATAGGCAGTTTATATGCTTAAATTCCCAAATTTGTTGCTCGATTCTTCACTAACGTTGTAGTGATACAATATAGTCATGACTTCATGGTGGCTGAAGCGTGTATCCTTCTATCTTGATACTTATTTATACTGTTCCAAACAAAAGGGGTCAGAAATGGCTCTGCAACTACAAAAAGTTCTCATCCTTTTGCCTTCATTAAACACAGTCTTACGGCTTACCTTCACACTTGCAATCACAATGTACCAATAAGACGTAGTTTGTTTCCACTTCTCATTTTTCTTTTCTGCCTACCTTTAATACTTCTAATTTCAGGGTGTCTGCATCGGTCTAAGTGAAGTAATGGCCAGTGCTGGCAGGAGTCAATTGTTGAGTTATATGGATGAGCTTATCCCCACAATTCGGACAGCACTTTGTGATAGGTGTGGTATCTTTTGTTTATATTACTATGAAAATAGCACTTTTTTGCATTTCCATTCCAAAGTAATTCTTTGGTTCTTTATTCAACAGTATGGGCGAGGTTCGGGAATCAGCAGGCCTGGCATTTAGTACTCTTTACAAGGTAAACCCTCAGATCTAGCCAATCATTGATATATTTTACTGAGAACTTCTCAACACTAATCTTCGCATCTGGTGGCTTATAACATAGAATGCTGGAATGCAAGCAATTGATGAGATTGTTCCAACACTTCTTCATGCACTGGAGGATGAGGATACCTCAGATACTGCTCTGGATGGCTTAAAACAAATTCTGAGGTAGGCTACCATATGTCGAGTTTAGACATGTTTCTCTGTATGATCTTATCTTTTTGTCCTAAATTTGTTGTCACTTATTTCAGTGTCAGGACCACAGCTGTGCTGCCACACATCCT</genome_strand>
        <mrna_strand>TGATGAGCACATTGATAAGTTCTCTAGCGTCTTCATCCTCTGAAAGGAGACAG..................................................................................GTTGCTGGACGAGCACTCGGTGAGCTTGTTAGGAAGCTTGGAGAAAGAGTCCTTCCTTTGATTATCCCAATATTGTCACGGGGTCTAAAAGATCCAAATCCAAGTAGAAGACAA....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTGTCTGCATCGGTCTAAGTGAAGTAATGGCCAGTGCTGGCAGGAGTCAATTGTTGAGTTATATGGATGAGCTTATCCCCACAATTCGGACAGCACTTTGTGATAG........................................................................................TATGGGCGAGGTTCGGGAATCAGCAGGCCTGGCATTTAGTACTCTTTACAAG.......................................................................................AATGCTGGAATGCAAGCAATTGATGAGATTGTTCCAACACTTCTTCATGCACTGGAGGATGAGGATACCTCAGATACTGCTCTGGATGGCTTAAAACAAATTCTGAG...................................................................................TGTCAGGACCACAGCTGTGCTGCCACACATCCT</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-C04HBa0031H05-SIbEf/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E577891" ref_strand="+" ref_description="SGN-E577891 [LE08BA04]">
      <seq>ttcgtttcaaaatacttcagctcttggaatctgggtactggaatcacttctctgatcttcacgacgaacctgcaggacggaccgtcatagccatgacggaccgtcacaatcttcgtaatcccacacttggtgagacttccccatcttccttcagcagcttctctacgctgccacctacggagcgtcaaaggcacgatggaccgtcataagctcagtaggtggtctcttctacattttttcgctcaaaatctctgctttcagctttggacagatttcctgcaaaataaagagaaacttataccaaaattagcacaaaaaggcttacggacacactaaacttaaggcaaaagtattaattataccgtgaaaccacggtatatcagggacatgaactcgaaggccattgttggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0031H05-SIbEf/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0031H05.1" temp_strand="+" temp_description="C04HBa0031H05.1  CT485992.1 htgs_phase:3 submitted_to_sgn_as:C04HBa0031H05 sequenced_by:sanger upload_account_name:uk">
        <position start="145925" stop="146905"/>
      </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="146224" g_stop="146605" g_length="382"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="382" r_length="382" r_score="0.927"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0031H05.1" gen_strand="+" ref_id="SGN-E577891" ref_strand="+">
        <total_alignment_score>0.927</total_alignment_score>
        <cumulative_length_of_scored_exons>382</cumulative_length_of_scored_exons>
        <coverage percentage="0.929" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0031H05.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E577891" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="146224" e_stop="146605"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCGTTTCAAAATACTTCAAATCTTGGAATCTTGGTACTGGGATCACTTCTCTGATCTTCACGATGTACCTGCAGGACGGACCGTCATAGCCATGACTGACCGTCACAAGCTTCGTAATCCCACACTTGGTCAGACTTCCCTATCTTCCTTCAGCAGCTTCTCTACGCTGCCACCTACGGACTGTCACAGGCACGACGGACCGTCATAAGCTCCGTAGGTGGCCTCTTCTGCA-TTTTTCGCTTAAAATCTCCGCATTCAGCTTTGGACAGATTTCCTGCAAAACAAAGAGAAACTTATATCAAAATTAGCACAAAAAGGGCTTTCGGACACACTAAACTTAAGGAAAAAGTATTAATTATACCGTGAAACCACGGTATATCA</genome_strand>
        <mrna_strand>TTCGTTTCAAAATACTTCAGCTCTTGGAATCTGGGTACTGGAATCACTTCTCTGATCTTCACGACGAACCTGCAGGACGGACCGTCATAGCCATGACGGACCGTCACAATCTTCGTAATCCCACACTTGGTGAGACTTCCCCATCTTCCTTCAGCAGCTTCTCTACGCTGCCACCTACGGAGCGTCAAAGGCACGATGGACCGTCATAAGCTCAGTAGGTGGTCTCTTCTACATTTTTTCGCTCAAAATCTCTGCTTTCAGCTTTGGACAGATTTCCTGCAAAATAAAGAGAAACTTATACCAAAATTAGCACAAAAA-GGCTTACGGACACACTAAACTTAAGGCAAAAGTATTAATTATACCGTGAAACCACGGTATATCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>9</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="14493" PGL_stop="13250"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="14493" e_stop="14458"/>
            <exon e_start="13933" e_stop="13250"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.985" acc_prob="0.998" e_score="1.000"/>
          <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="1.000">
            <gDNA_exon_boundary e_start="14493" e_stop="14458" e_length="36"/>
          </exon>
          <intron i_serial="1" don_prob="0.985" acc_prob="0.998">
            <gDNA_intron_boundary i_start="14457" i_stop="13934" i_length="524"/>
          </intron>
          <exon e_serial="2" e_score="0.994">
            <gDNA_exon_boundary e_start="13933" e_stop="13250" e_length="684"/>
          </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="14493" stop="14458"/>
              <exon start="13933" stop="13250"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E542175" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="13922" stop="13250"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E542177" 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>GGAAGTCAATATGATGTTACTATACTCATTTGGAAG : GATCCAAAGCTAGGGAATTGGTGGATGGTGTTTGGTGACAACACACTAGTAGGTTATTGGCCTGCTGAGTTATTTACACACTTGGCGGAGCGAGCTACAATGGTGGAGTGGGGCGGAGAGATCGTAAATTCACGGGCCAATGGAGAACATACGTCTACACAAATGGGCTCAGGCCATTTTGGTGATGATGGATTTAGAAAAGCCAGTTATTTCAGAAATCTTGAAATTGTGGACTCTGATAACAGCCTAAGTTCAGCCCAAGATATATCAATCTTGGCTGAGAATACAAATTGCTATAACATCAAAAATGCTTATAGCACTGAATGGGGTACACATTTCTATTATGGTGGACCTGGTAGAAATCCACAATGCAACTAATATAATGATGATGAGGCAAAGTCTCCTTTAGCTAGTTATCACCAAATTTGTTCTTTTATTATTTTTATTTACATCTTTTAATGCTATTTCCAACTTTGTTTATGCTGATTAATTACACATTGTTTTTTCTTCTTGTGTCTATGTTTTGTTTTGAGGGCGGAAAATGTATGTATTATTAGTTAAATAAGACAAATAGCATTAAACAGGGTAAGGAAATAGCAAATATTTAGTTGTAATGGCTACTGGTACAAAATTTGTGATCTTATGTTTCTGAATCTTATGAAATGAATCAATTTGTTTTTACTA</gDNA_template>
            <first_frame> G  S  Q  Y  D  V  T  I  L  I  W  K  :  D  P  K  L  G  N  W  W  M  V  F  G  D  N  T  L  V  G  Y  W  P  A  E  L  F  T  H  L  A  E  R  A  T  M  V  E  W  G  G  E  I  V  N  S  R  A  N  G  E  H  T  S  T  Q  M  G  S  G  H  F  G  D  D  G  F  R  K  A  S  Y  F  R  N  L  E  I  V  D  S  D  N  S  L  S  S  A  Q  D  I  S  I  L  A  E  N  T  N  C  Y  N  I  K  N  A  Y  S  T  E  W  G  T  H  F  Y  Y  G  G  P  G  R  N  P  Q  C  N  *  Y  N  D  D  E  A  K  S  P  L  A  S  Y  H  Q  I  C  S  F  I  I  F  I  Y  I  F  *  C  Y  F  Q  L  C  L  C  *  L  I  T  H  C  F  F  F  L  C  L  C  F  V  L  R  A  E  N  V  C  I  I  S  *  I  R  Q  I  A  L  N  R  V  R  K  *  Q  I  F  S  C  N  G  Y  W  Y  K  I  C  D  L  M  F  L  N  L  M  K  *  I  N  L  F  L  L </first_frame>
            <second_frame>  E  V  N  M  M  L  L  Y  S  F  G  R :   I  Q  S  *  G  I  G  G  W  C  L  V  T  T  H  *  *  V  I  G  L  L  S  Y  L  H  T  W  R  S  E  L  Q  W  W  S  G  A  E  R  S  *  I  H  G  P  M  E  N  I  R  L  H  K  W  A  Q  A  I  L  V  M  M  D  L  E  K  P  V  I  S  E  I  L  K  L  W  T  L  I  T  A  *  V  Q  P  K  I  Y  Q  S  W  L  R  I  Q  I  A  I  T  S  K  M  L  I  A  L  N  G  V  H  I  S  I  M  V  D  L  V  E  I  H  N  A  T  N  I  M  M  M  R  Q  S  L  L  *  L  V  I  T  K  F  V  L  L  L  F  L  F  T  S  F  N  A  I  S  N  F  V  Y  A  D  *  L  H  I  V  F  S  S  C  V  Y  V  L  F  *  G  R  K  M  Y  V  L  L  V  K  *  D  K  *  H  *  T  G  *  G  N  S  K  Y  L  V  V  M  A  T  G  T  K  F  V  I  L  C  F  *  I  L  *  N  E  S  I  C  F  Y   </second_frame>
            <third_frame>   K  S  I  *  C  Y  Y  T  H  L  E   : G  S  K  A  R  E  L  V  D  G  V  W  *  Q  H  T  S  R  L  L  A  C  *  V  I  Y  T  L  G  G  A  S  Y  N  G  G  V  G  R  R  D  R  K  F  T  G  Q  W  R  T  Y  V  Y  T  N  G  L  R  P  F  W  *  *  W  I  *  K  S  Q  L  F  Q  K  S  *  N  C  G  L  *  *  Q  P  K  F  S  P  R  Y  I  N  L  G  *  E  Y  K  L  L  *  H  Q  K  C  L  *  H  *  M  G  Y  T  F  L  L  W  W  T  W  *  K  S  T  M  Q  L  I  *  *  *  *  G  K  V  S  F  S  *  L  S  P  N  L  F  F  Y  Y  F  Y  L  H  L  L  M  L  F  P  T  L  F  M  L  I  N  Y  T  L  F  F  L  L  V  S  M  F  C  F  E  G  G  K  C  M  Y  Y  *  L  N  K  T  N  S  I  K  Q  G  K  E  I  A  N  I  *  L  *  W  L  L  V  Q  N  L  *  S  Y  V  S  E  S  Y  E  M  N  Q  F  V  F  T  </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="C04HBa0031H05.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="14493" stop="14458"/>
                    <exon start="13933" stop="13556"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>411</number_coding_nucleotides>
                  <number_encoded_amino_acids>137</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>GSQYDVTILIWKDPKLGNWWMVFGDNTLVGYWPAELFTHLAERATMVEWGGEIVNSRANGEHTSTQMGSGHFGDDGFRKASYFRNLEIVDSDNSLSSAQDISILAENTNCYNIKNAYSTEWGTHFYYGGPGRNPQCN*</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="22942" PGL_stop="20545"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="22942" e_stop="22462"/>
            <exon e_start="22384" e_stop="22298"/>
            <exon e_start="21744" e_stop="21460"/>
            <exon e_start="20694" e_stop="20545"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.990" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.999" e_score="1.000"/>
          <exon-only e_score="0.987"/>
        </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="1.000">
            <gDNA_exon_boundary e_start="22942" e_stop="22462" e_length="481"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.990">
            <gDNA_intron_boundary i_start="22461" i_stop="22385" i_length="77"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="22384" e_stop="22298" e_length="87"/>
          </exon>
          <intron i_serial="2" don_prob="1.000" acc_prob="0.999">
            <gDNA_intron_boundary i_start="22297" i_stop="21745" i_length="553"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="21744" e_stop="21460" e_length="285"/>
          </exon>
          <intron i_serial="3" don_prob="1.000" acc_prob="0.999">
            <gDNA_intron_boundary i_start="21459" i_stop="20695" i_length="765"/>
          </intron>
          <exon e_serial="4" e_score="0.987">
            <gDNA_exon_boundary e_start="20694" e_stop="20545" e_length="150"/>
          </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="22942" stop="22462"/>
              <exon start="22384" stop="22298"/>
              <exon start="21744" stop="21534"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E542178" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22942" stop="22462"/>
              <exon start="22384" stop="22298"/>
              <exon start="21744" stop="21562"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E542179" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22941" stop="22464"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E300061" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22694" stop="22462"/>
              <exon start="22384" stop="22298"/>
              <exon start="21744" stop="21460"/>
              <exon start="20694" stop="20545"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E736803" 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>ATATTGAAGGAGAGATTAAGTAAGGTGTAAACCAATAATAAAAGAAAGTGGGGATAGGTTTTATTACTCTATTTTTCTGCCCCATAGTATTAACTCCCTTTTCCATCATTGTAAAAACAATGTATTGACTGTCCATTTTTATTTATATGATGCTGCTCTCCTCTCAATCATCATGAATCTCAACCACCTCTTTTCCTATGCATTTACTACATTTATGTGTTTAAAACACTTTTCTTTTTTTCTACTAATGGTGCTCTAGTCTCTTTTTTTCTCTTTCCTTTTCTTTGGCACTGAATGAAATATGGTTAAAATTAAGAAGAAAGATCAAAGTTTTCTAGTCTTGACTTTGTGTTTGTTCTTTGTTATGTGTGAAGCACATAATTTGAACTACACAAAGTATAAACAAGTTAGCAATATGAGACTTGAAAGGATTCAAAGGCATTTGGATAGAATCAACAAGCCTCCTCTCTTCACTATTCAG : AGCCCGGATGGAGATATCATAGATTGTGTTCATAAAAGAAAACAACCAGCTTTCGATCATCCTTTGCTCAAGAATCACAAGATTCAG : AAGATTCCACCAGAGATTCCAAAACTGAAAACGTCTGTGAAAACAGACGCGATGATGAGTAGAGACGTTGTAAGTAACAATAGCAAAAGTGCAGTGATAGATTGGCAATTATGGCACCAAAACGGAACGCGGTGCCCTGCAGGCACTGTCCCGATACGACGGAGTGAGGTTCATGATGTGCTTAGAGCAAAGTCATTGTATGATTTTGGTAAGAAAAAACGACATGGATTGCCTATTGCTCGTCGTGTTGATGCTCCTGATGTTGTTAGTGGCAATGGACATGAG : CACGCAATAGCATATACTGGAGGGTCTGAAGAGATATATGGTGCAAAAGCAACAATAAACGTATGGGAACCATCAATCGAAGTAGTGAACGAGTTTAGTCTATCTCAAATTTGGGTTCTATCTGGATCTTTTGACGGGTCGGATCTTAAT</gDNA_template>
            <first_frame> I  L  K  E  R  L  S  K  V  *  T  N  N  K  R  K  W  G  *  V  L  L  L  Y  F  S  A  P  *  Y  *  L  P  F  P  S  L  *  K  Q  C  I  D  C  P  F  L  F  I  *  C  C  S  P  L  N  H  H  E  S  Q  P  P  L  F  L  C  I  Y  Y  I  Y  V  F  K  T  L  F  F  F  S  T  N  G  A  L  V  S  F  F  L  F  P  F  L  W  H  *  M  K  Y  G  *  N  *  E  E  R  S  K  F  S  S  L  D  F  V  F  V  L  C  Y  V  *  S  T  *  F  E  L  H  K  V  *  T  S  *  Q  Y  E  T  *  K  D  S  K  A  F  G  *  N  Q  Q  A  S  S  L  H  Y  S   : E  P  G  W  R  Y  H  R  L  C  S  *  K  K  T  T  S  F  R  S  S  F  A  Q  E  S  Q  D  S   : E  D  S  T  R  D  S  K  T  E  N  V  C  E  N  R  R  D  D  E  *  R  R  C  K  *  Q  *  Q  K  C  S  D  R  L  A  I  M  A  P  K  R  N  A  V  P  C  R  H  C  P  D  T  T  E  *  G  S  *  C  A  *  S  K  V  I  V  *  F  W  *  E  K  T  T  W  I  A  Y  C  S  S  C  *  C  S  *  C  C  *  W  Q  W  T  *   : A  R  N  S  I  Y  W  R  V  *  R  D  I  W  C  K  S  N  N  K  R  M  G  T  I  N  R  S  S  E  R  V  *  S  I  S  N  L  G  S  I  W  I  F  *  R  V  G  S  *  </first_frame>
            <second_frame>  Y  *  R  R  D  *  V  R  C  K  P  I  I  K  E  S  G  D  R  F  Y  Y  S  I  F  L  P  H  S  I  N  S  L  F  H  H  C  K  N  N  V  L  T  V  H  F  Y  L  Y  D  A  A  L  L  S  I  I  M  N  L  N  H  L  F  S  Y  A  F  T  T  F  M  C  L  K  H  F  S  F  F  L  L  M  V  L  *  S  L  F  F  S  F  L  F  F  G  T  E  *  N  M  V  K  I  K  K  K  D  Q  S  F  L  V  L  T  L  C  L  F  F  V  M  C  E  A  H  N  L  N  Y  T  K  Y  K  Q  V  S  N  M  R  L  E  R  I  Q  R  H  L  D  R  I  N  K  P  P  L  F  T  I  Q  :  S  P  D  G  D  I  I  D  C  V  H  K  R  K  Q  P  A  F  D  H  P  L  L  K  N  H  K  I  Q  :  K  I  P  P  E  I  P  K  L  K  T  S  V  K  T  D  A  M  M  S  R  D  V  V  S  N  N  S  K  S  A  V  I  D  W  Q  L  W  H  Q  N  G  T  R  C  P  A  G  T  V  P  I  R  R  S  E  V  H  D  V  L  R  A  K  S  L  Y  D  F  G  K  K  K  R  H  G  L  P  I  A  R  R  V  D  A  P  D  V  V  S  G  N  G  H  E  :  H  A  I  A  Y  T  G  G  S  E  E  I  Y  G  A  K  A  T  I  N  V  W  E  P  S  I  E  V  V  N  E  F  S  L  S  Q  I  W  V  L  S  G  S  F  D  G  S  D  L  N </second_frame>
            <third_frame>   I  E  G  E  I  K  *  G  V  N  Q  *  *  K  K  V  G  I  G  F  I  T  L  F  F  C  P  I  V  L  T  P  F  S  I  I  V  K  T  M  Y  *  L  S  I  F  I  Y  M  M  L  L  S  S  Q  S  S  *  I  S  T  T  S  F  P  M  H  L  L  H  L  C  V  *  N  T  F  L  F  F  Y  *  W  C  S  S  L  F  F  S  L  S  F  S  L  A  L  N  E  I  W  L  K  L  R  R  K  I  K  V  F  *  S  *  L  C  V  C  S  L  L  C  V  K  H  I  I  *  T  T  Q  S  I  N  K  L  A  I  *  D  L  K  G  F  K  G  I  W  I  E  S  T  S  L  L  S  S  L  F  R :   A  R  M  E  I  S  *  I  V  F  I  K  E  N  N  Q  L  S  I  I  L  C  S  R  I  T  R  F  R :   R  F  H  Q  R  F  Q  N  *  K  R  L  *  K  Q  T  R  *  *  V  E  T  L  *  V  T  I  A  K  V  Q  *  *  I  G  N  Y  G  T  K  T  E  R  G  A  L  Q  A  L  S  R  Y  D  G  V  R  F  M  M  C  L  E  Q  S  H  C  M  I  L  V  R  K  N  D  M  D  C  L  L  L  V  V  L  M  L  L  M  L  L  V  A  M  D  M  S :   T  Q  *  H  I  L  E  G  L  K  R  Y  M  V  Q  K  Q  Q  *  T  Y  G  N  H  Q  S  K  *  *  T  S  L  V  Y  L  K  F  G  F  Y  L  D  L  L  T  G  R  I  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="C04HBa0031H05.1" strand="-"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="22644" stop="22462"/>
                    <exon start="22384" stop="22298"/>
                    <exon start="21744" stop="21460"/>
                    <exon start="20694" stop="20545"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>705</number_coding_nucleotides>
                  <number_encoded_amino_acids>235</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>NMVKIKKKDQSFLVLTLCLFFVMCEAHNLNYTKYKQVSNMRLERIQRHLDRINKPPLFTIQSPDGDIIDCVHKRKQPAFDHPLLKNHKIQKIPPEIPKLKTSVKTDAMMSRDVVSNNSKSAVIDWQLWHQNGTRCPAGTVPIRRSEVHDVLRAKSLYDFGKKKRHGLPIARRVDAPDVVSGNGHEHAIAYTGGSEEIYGAKATINVWEPSIEVVNEFSLSQIWVLSGSFDGSDLN</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0031H05.1" strand="-"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="22923" stop="22684"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>237</number_coding_nucleotides>
                  <number_encoded_amino_acids>79</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>VRCKPIIKESGDRFYYSIFLPHSINSLFHHCKNNVLTVHFYLYDAALLSIIMNLNHLFSYAFTTFMCLKHFSFFLLMVL*</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="56798" PGL_stop="57221"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="56798" e_stop="57221"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.917"/>
        </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="0.917">
            <gDNA_exon_boundary e_start="56798" e_stop="57221" e_length="424"/>
          </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="56798" stop="57221"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E380017" 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>CACCAAAATTTACGTGGAAAACCCTTCGATGTGAAGAGTAAAAAACCACGGGACCAAAAGCTCCACTATAATCACCAAGAGTTACAATATTGTTCTCCAAAATTGGCCACAAAACAAGTGCCAAACAACGAGCAACAACAAAATAAGATTGCACCAAATCTAGAGAATTAAAGGAGCAAAATCACCAATTTCACAGCTACTGTTCACGATAGCAAAACTGAAGCTGCAGACTACCAAATCCAACTATGTTAGTTCCTAATCAAATATTGAGATTAAGATAATATGCTGTCCAAAAATCAGCTCAATCGGACAAGAAACGAAGCGGGAATCGCAATTTGAAGTTGGTTGTTAAGGCTGAATTTTGACTGCGAAAAACTGCTCTTTTTCTCTCTTTTTGGCTGCTGAAAAAAACTCTATGTATGAA</gDNA_template>
            <first_frame> H  Q  N  L  R  G  K  P  F  D  V  K  S  K  K  P  R  D  Q  K  L  H  Y  N  H  Q  E  L  Q  Y  C  S  P  K  L  A  T  K  Q  V  P  N  N  E  Q  Q  Q  N  K  I  A  P  N  L  E  N  *  R  S  K  I  T  N  F  T  A  T  V  H  D  S  K  T  E  A  A  D  Y  Q  I  Q  L  C  *  F  L  I  K  Y  *  D  *  D  N  M  L  S  K  N  Q  L  N  R  T  R  N  E  A  G  I  A  I  *  S  W  L  L  R  L  N  F  D  C  E  K  L  L  F  F  S  L  F  G  C  *  K  K  L  Y  V  *  </first_frame>
            <second_frame>  T  K  I  Y  V  E  N  P  S  M  *  R  V  K  N  H  G  T  K  S  S  T  I  I  T  K  S  Y  N  I  V  L  Q  N  W  P  Q  N  K  C  Q  T  T  S  N  N  K  I  R  L  H  Q  I  *  R  I  K  G  A  K  S  P  I  S  Q  L  L  F  T  I  A  K  L  K  L  Q  T  T  K  S  N  Y  V  S  S  *  S  N  I  E  I  K  I  I  C  C  P  K  I  S  S  I  G  Q  E  T  K  R  E  S  Q  F  E  V  G  C  *  G  *  I  L  T  A  K  N  C  S  F  S  L  F  L  A  A  E  K  N  S  M  Y  E </second_frame>
            <third_frame>   P  K  F  T  W  K  T  L  R  C  E  E  *  K  T  T  G  P  K  A  P  L  *  S  P  R  V  T  I  L  F  S  K  I  G  H  K  T  S  A  K  Q  R  A  T  T  K  *  D  C  T  K  S  R  E  L  K  E  Q  N  H  Q  F  H  S  Y  C  S  R  *  Q  N  *  S  C  R  L  P  N  P  T  M  L  V  P  N  Q  I  L  R  L  R  *  Y  A  V  Q  K  S  A  Q  S  D  K  K  R  S  G  N  R  N  L  K  L  V  V  K  A  E  F  *  L  R  K  T  A  L  F  L  S  F  W  L  L  K  K  T  L  C  M   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C04HBa0031H05.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="4" PGL_strand="-" PGL_start="90196" PGL_stop="88731"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="90196" e_stop="90144"/>
            <exon e_start="90061" e_stop="89948"/>
            <exon e_start="89287" e_stop="89181"/>
            <exon e_start="89092" e_stop="89041"/>
            <exon e_start="88953" e_stop="88847"/>
            <exon e_start="88763" e_stop="88731"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.985" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.850" acc_prob="0.995" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.969" e_score="1.000"/>
          <exon-intron don_prob="0.998" acc_prob="1.000" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </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="1.000">
            <gDNA_exon_boundary e_start="90196" e_stop="90144" e_length="53"/>
          </exon>
          <intron i_serial="1" don_prob="0.985" acc_prob="0.998">
            <gDNA_intron_boundary i_start="90143" i_stop="90062" i_length="82"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="90061" e_stop="89948" e_length="114"/>
          </exon>
          <intron i_serial="2" don_prob="0.997" acc_prob="0.998">
            <gDNA_intron_boundary i_start="89947" i_stop="89288" i_length="660"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="89287" e_stop="89181" e_length="107"/>
          </exon>
          <intron i_serial="3" don_prob="0.850" acc_prob="0.995">
            <gDNA_intron_boundary i_start="89180" i_stop="89093" i_length="88"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="89092" e_stop="89041" e_length="52"/>
          </exon>
          <intron i_serial="4" don_prob="0.999" acc_prob="0.969">
            <gDNA_intron_boundary i_start="89040" i_stop="88954" i_length="87"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="88953" e_stop="88847" e_length="107"/>
          </exon>
          <intron i_serial="5" don_prob="0.998" acc_prob="1.000">
            <gDNA_intron_boundary i_start="88846" i_stop="88764" i_length="83"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="88763" e_stop="88731" e_length="33"/>
          </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="90196" stop="90144"/>
              <exon start="90061" stop="89948"/>
              <exon start="89287" stop="89181"/>
              <exon start="89092" stop="89041"/>
              <exon start="88953" stop="88847"/>
              <exon start="88763" stop="88731"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E258887" 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="4" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TGATGAGCACATTGATAAGTTCTCTAGCGTCTTCATCCTCTGAAAGGAGACAG : GTTGCTGGACGAGCACTCGGTGAGCTTGTTAGGAAGCTTGGAGAAAGAGTCCTTCCTTTGATTATCCCAATATTGTCACGGGGTCTAAAAGATCCAAATCCAAGTAGAAGACAA : GGTGTCTGCATCGGTCTAAGTGAAGTAATGGCCAGTGCTGGCAGGAGTCAATTGTTGAGTTATATGGATGAGCTTATCCCCACAATTCGGACAGCACTTTGTGATAG : TATGGGCGAGGTTCGGGAATCAGCAGGCCTGGCATTTAGTACTCTTTACAAG : AATGCTGGAATGCAAGCAATTGATGAGATTGTTCCAACACTTCTTCATGCACTGGAGGATGAGGATACCTCAGATACTGCTCTGGATGGCTTAAAACAAATTCTGAG : TGTCAGGACCACAGCTGTGCTGCCACACATCCT</gDNA_template>
            <first_frame> *  *  A  H  *  *  V  L  *  R  L  H  P  L  K  G  D  R :   L  L  D  E  H  S  V  S  L  L  G  S  L  E  K  E  S  F  L  *  L  S  Q  Y  C  H  G  V  *  K  I  Q  I  Q  V  E  D  K :   V  S  A  S  V  *  V  K  *  W  P  V  L  A  G  V  N  C  *  V  I  W  M  S  L  S  P  Q  F  G  Q  H  F  V  I   : V  W  A  R  F  G  N  Q  Q  A  W  H  L  V  L  F  T  R :   M  L  E  C  K  Q  L  M  R  L  F  Q  H  F  F  M  H  W  R  M  R  I  P  Q  I  L  L  W  M  A  *  N  K  F  *   : V  S  G  P  Q  L  C  C  H  T  S  </first_frame>
            <second_frame>  D  E  H  I  D  K  F  S  S  V  F  I  L  *  K  E  T   : G  C  W  T  S  T  R  *  A  C  *  E  A  W  R  K  S  P  S  F  D  Y  P  N  I  V  T  G  S  K  R  S  K  S  K  *  K  T   : R  C  L  H  R  S  K  *  S  N  G  Q  C  W  Q  E  S  I  V  E  L  Y  G  *  A  Y  P  H  N  S  D  S  T  L  *  *  :  Y  G  R  G  S  G  I  S  R  P  G  I  *  Y  S  L  Q   : E  C  W  N  A  S  N  *  *  D  C  S  N  T  S  S  C  T  G  G  *  G  Y  L  R  Y  C  S  G  W  L  K  T  N  S  E  :  C  Q  D  H  S  C  A  A  T  H  P </second_frame>
            <third_frame>   M  S  T  L  I  S  S  L  A  S  S  S  S  E  R  R  Q  :  V  A  G  R  A  L  G  E  L  V  R  K  L  G  E  R  V  L  P  L  I  I  P  I  L  S  R  G  L  K  D  P  N  P  S  R  R  Q  :  G  V  C  I  G  L  S  E  V  M  A  S  A  G  R  S  Q  L  L  S  Y  M  D  E  L  I  P  T  I  R  T  A  L  C  D  S :   M  G  E  V  R  E  S  A  G  L  A  F  S  T  L  Y  K  :  N  A  G  M  Q  A  I  D  E  I  V  P  T  L  L  H  A  L  E  D  E  D  T  S  D  T  A  L  D  G  L  K  Q  I  L  S :   V  R  T  T  A  V  L  P  H  I   </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="C04HBa0031H05.1" strand="-"/>
                <serials PGL_serial="4" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="90194" stop="90144"/>
                    <exon start="90061" stop="89948"/>
                    <exon start="89287" stop="89181"/>
                    <exon start="89092" stop="89041"/>
                    <exon start="88953" stop="88847"/>
                    <exon start="88763" stop="88733"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>462</number_coding_nucleotides>
                  <number_encoded_amino_acids>154</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>MSTLISSLASSSSERRQVAGRALGELVRKLGERVLPLIIPILSRGLKDPNPSRRQGVCIGLSEVMASAGRSQLLSYMDELIPTIRTALCDSMGEVRESAGLAFSTLYKNAGMQAIDEIVPTLLHALEDEDTSDTALDGLKQILSVRTTAVLPHI</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="5" PGL_strand="+" PGL_start="146224" PGL_stop="146605"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="146224" e_stop="146605"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.927"/>
        </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="0.927">
            <gDNA_exon_boundary e_start="146224" e_stop="146605" e_length="382"/>
          </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="146224" stop="146605"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E577891" 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="5" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>CTCGTTTCAAAATACTTCAAATCTTGGAATCTTGGTACTGGGATCACTTCTCTGATCTTCACGATGTACCTGCAGGACGGACCGTCATAGCCATGACTGACCGTCACAAGCTTCGTAATCCCACACTTGGTCAGACTTCCCTATCTTCCTTCAGCAGCTTCTCTACGCTGCCACCTACGGACTGTCACAGGCACGACGGACCGTCATAAGCTCCGTAGGTGGCCTCTTCTGCATTTTTCGCTTAAAATCTCCGCATTCAGCTTTGGACAGATTTCCTGCAAAACAAAGAGAAACTTATATCAAAATTAGCACAAAAAGGGCTTTCGGACACACTAAACTTAAGGAAAAAGTATTAATTATACCGTGAAACCACGGTATATCA</gDNA_template>
            <first_frame> L  V  S  K  Y  F  K  S  W  N  L  G  T  G  I  T  S  L  I  F  T  M  Y  L  Q  D  G  P  S  *  P  *  L  T  V  T  S  F  V  I  P  H  L  V  R  L  P  Y  L  P  S  A  A  S  L  R  C  H  L  R  T  V  T  G  T  T  D  R  H  K  L  R  R  W  P  L  L  H  F  S  L  K  I  S  A  F  S  F  G  Q  I  S  C  K  T  K  R  N  L  Y  Q  N  *  H  K  K  G  F  R  T  H  *  T  *  G  K  S  I  N  Y  T  V  K  P  R  Y  I  </first_frame>
            <second_frame>  S  F  Q  N  T  S  N  L  G  I  L  V  L  G  S  L  L  *  S  S  R  C  T  C  R  T  D  R  H  S  H  D  *  P  S  Q  A  S  *  S  H  T  W  S  D  F  P  I  F  L  Q  Q  L  L  Y  A  A  T  Y  G  L  S  Q  A  R  R  T  V  I  S  S  V  G  G  L  F  C  I  F  R  L  K  S  P  H  S  A  L  D  R  F  P  A  K  Q  R  E  T  Y  I  K  I  S  T  K  R  A  F  G  H  T  K  L  K  E  K  V  L  I  I  P  *  N  H  G  I  S </second_frame>
            <third_frame>   R  F  K  I  L  Q  I  L  E  S  W  Y  W  D  H  F  S  D  L  H  D  V  P  A  G  R  T  V  I  A  M  T  D  R  H  K  L  R  N  P  T  L  G  Q  T  S  L  S  S  F  S  S  F  S  T  L  P  P  T  D  C  H  R  H  D  G  P  S  *  A  P  *  V  A  S  S  A  F  F  A  *  N  L  R  I  Q  L  W  T  D  F  L  Q  N  K  E  K  L  I  S  K  L  A  Q  K  G  L  S  D  T  L  N  L  R  K  K  Y  *  L  Y  R  E  T  T  V  Y   </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="C04HBa0031H05.1" strand="+"/>
                <serials PGL_serial="5" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="146342" stop="146590"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>246</number_coding_nucleotides>
                  <number_encoded_amino_acids>82</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SHTWSDFPIFLQQLLYAATYGLSQARRTVISSVGGLFCIFRLKSPHSALDRFPAKQRETYIKISTKRAFGHTKLKEKVLIIP*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0031H05.1" strand="+"/>
                <serials PGL_serial="5" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="146320" stop="146532"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>210</number_coding_nucleotides>
                  <number_encoded_amino_acids>70</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LTVTSFVIPHLVRLPYLPSAASLRCHLRTVTGTTDRHKLRRWPLLHFSLKISAFSFGQISCKTKRNLYQN*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0031H05.1" strand="+"/>
                <serials PGL_serial="5" AGS_serial="1" PPS_serial="3"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="146226" stop="146432"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>204</number_coding_nucleotides>
                  <number_encoded_amino_acids>68</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RFKILQILESWYWDHFSDLHDVPAGRTVIAMTDRHKLRNPTLGQTSLSSFSSFSTLPPTDCHRHDGPS*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 86 chains have been computed
$ 
$ memory statistics:
$ 18024 bytes spliced alignments in total
$ 9 spliced alignments have been stored
$ 2002 bytes was the average size of a spliced alignment
$ 10520 bytes predicted gene locations in total
$ 5 predicted gene locations have been stored
$ 2104 bytes was the average size of a predicted gene location
$ 1 megabytes was the average size of the backtrace matrix
$ 105 backtrace matrices have been allocated
$ 
$ date finished: 2009-01-15 17:35:18
-->
