<?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="2009-12-01 01:40:13"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C03HBa0041A13-oofeY/GenomeThreader_SGN_U_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C03HBa0041A13-oofeY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_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-C03HBa0041A13-oofeY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" ref_id="SGN-U589884" ref_strand="+" ref_description="SGN-U589884 Tomato 200607#2 [1 ESTs aligned] ">
      <seq>cgagggtctttgttctaatacacttcaactcttggaatttgggtactgggatcacttctctgaacttcacgacgaacctgcaggacggaccgtcagatccacgacggaccgtcacaagcttcgtaatcccacacttagtcagacttccctatcttccttcagcagctgcactacgcttccacctacggaccgtcacaagcacgacggaccgtcataagctccgtaggtggtttcttctgcatttcttcgctcaaaatctccgcattcagctttggacagatttcctgcaaaacaaagagtaacttatataaaaattagcacaaaaaggcttttggacacactaagcttaaggaaaaagtattaataataccgtgaaaccacggtatatcaacaccctcaacttaaattagttgtttgtcctcaagcgacgcactatgactcactacacaatctttgtacaatagtatccatgttttatcctttgcaatcatttggctatcaatcccgattaatctcatcaaatctatgcatgctatcactattaggtttgaattttgtgggatcagaatatgacacagacttaccatgcactaacacctatcctcttcaatttctcaccgaggtgctaacaattctagtattgcaactagtgtcctcactataagacaaaatcctcctttttcacacagtgattttagtttgagtataaggattac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0041A13-oofeY/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C03HBa0041A13.1" temp_strand="-" temp_description="C03HBa0041A13.1  AC238441.1 htgs_phase:1 submitted_to_sgn_as:gi|260064213|gb|AC238441.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0041a13, *** SEQUENCING IN PROGRESS ***, 7 unordered pieces">
        <position start="19729" stop="3975"/>
      </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="19429" g_stop="19324" g_length="106"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="106" r_length="106" r_score="0.868"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="19323" i_stop="4883" i_length="14441">
            <donor d_prob="0.000" d_score="0.88"/>
            <acceptor a_prob="0.000" a_score="0.90"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="4882" g_stop="4274" g_length="609"/>
          <reference_exon_boundary r_type="cDNA" r_start="107" r_stop="716" r_length="610" r_score="0.933"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0041A13.1" gen_strand="-" ref_id="SGN-U589884" ref_strand="+">
        <total_alignment_score>0.923</total_alignment_score>
        <cumulative_length_of_scored_exons>715</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0041A13.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U589884" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="19429" e_stop="19324"/>
          <exon e_start="4882" e_stop="4274"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGAGGGTCTCCGTTCCAAAACACTTAAACTCTTGGAATTTGGGTACTAGGACTACTTCTCTGAACTTCATGACGAACCACCTGGACGGACCGTCATAGCCACGACGGTCCGTCACGCACTCCATAACCCCACACTTGGTCAGACTTCCCCATCTTTCTTCAGCAGCTGCACTACAATACCACCTACGGACCGTCACGGGCACGACGAACTGTCACAAGCTCTGTAGGTGGTACTTTTCTGTATTTCTCGCTCAAAAACCTCCGCATTCTTCTTTTAGACAGATATCCTGCAAATAAAGAGAAACTTACATAAAAACTAGAACAAAAAGGGTTTTGGACACACTAAACTTAATGAAAAAAGTATTAATAATACCGTGAAATCACGGTATATAAAAGTAGGACAAGAAAGCAAAGTATGTAAACTTACTAAATCCCTATATGGCTTGAACAAAAGCAACGGCATGAAAAGTTTGATTCCTGCATGATTGAAAATGGTTTTAAAACAAATGAGTGTGATAAGTGCATATATCATAAGTCTTAGAATAATTCACATGTGATCATTTGCCAATATGTTGATGATTTGTTGATCTTTGGCTCTAACATGAATGTTATTGATAAATCTAAAAATGTTCTTAAAAGCCATTTTGATATGAAAGATCATGGTGAGGCAAATTTTATTCTTGGAATAAAAATAACAAGAACATGTGAGGGGATTTTCCTTGACCAGTCACATTATGTTGTGAAAATTTTGAAAAAAAATATAAATTTTATGATTGCAAGCATGTTGCTACTCCTTTTGATTCAAGTGTTCACTTATTTTCTGTTGAAAGTGAAAATGATGTAATAAATCAAAAGGAATATGCTAGTATAATCGAAAGTTTGAGATATGTGACTAATTGCAATAGGCTTGATATTGCATATGCAGTAGGAGTATTTGACAGGTTTACAAGCAAGTCAGCTAATGAACATTGGCATGCTATAACAACAGTTATGAGATATTTAATCGGAACGAAAAATTGTGATTTGTTCTATAAAAAATATGCTGCTGTACTTGAAGGCTTTTTTGATGTAGATTGGAACACTTTGTCAGGTGATTCTTGTTCTACCACTAGTTATGTCTTTACTTTAGGTGGTGGTGTTGTTTGTTGGAGATCAAAAAAGCAAACAATAATTGCTAACTCTACCATGGAGGCTGAACTAATTGCTTTAGCTTCAGCTAGTGAGGAAGCAAATTGGTTAAGAGATTTATTGTTTCAAATTTCTTGTTTTGAAAATCCAATCTTCCTATTTTAATTCATTGTGATAGGACTGCTGCAAATGGTAGAGTTCAAAACCGTTATTACAACGGTAAATCCAGACCTATAAGGAGGAAACACAATAATGTAAGATCTAATTTGACAAATGGTACCATTAATGTTGATTATGTCAAATCTTATGATAATCTTGCAGATCCTCTTACGAAGGCATTAACAAGAGAAAAGGTCTGGAGCACATCGAGGGGGATGGGATTGAAGCCGACAAATCCTTGAGTCATATATGAGGAAACCCAACCTTGAGACTATAGATCCTATAACCAGGTTCAAAGGGAAAAACTAATCATATGATGACTTGTTGTGAAAAATGGACTATTTTTTCCCTCCCTATGATGTGAGTGCATTGTTTCATGTAGTTTGTGAAGGTTGAGTCGATAAAAACTCTTAAATGAATATTTGTAGCCCGTAAGGGTGGAGTATTAATCTTACAAGATCACTCTTGACAGATTTCACCTATGTGATGTGTGGAAGTAGGTCGCTTCCTATGAGAATGGGGCTTATTCTCAAATGCACTCATGAAACCGGGATAGCACATGGCCATAACGTGAGCAGTGATATTTTATTTCCCTTAAGCAGTCATAGTTCAAGTCTGAAACAACTACGACTCTGGAGTAAAAGTTACTGTTTCACTAAGTGTAGGTTCAATGTAGAGCACACCTTCATTATGCATAGTAGTCCTACCTTCAACTGATATACTCTCTTATCTAAATATTAAAATGAGTGGGGGATTGTTATGTTATTAGCATTTTAATATTAATATTAACATATTAAATTACTTTATTTTGGAGTTATAAGAATGATCATTAATAGCCATATAATGTCATTACTTTTGGCTTTATTGGTTGAATTCATTGTAGAGACAAAAACATTCCAATAAACATTTAAATGGATAACTTCTACATTATCCATTAGCATTGGTTGTCCATCACTTTATTTCATTCTCAATTCCTCTATTACTCTTTGTAACCTATGTAATCTATGTAACTTCTATTGTAACCTATGTAACCTATGAAACTCCTAAGGCCATTATCTTCATTATTTACTACCTCCATTATCTTCCTATTCATTGCTAGGAAGACTTCTTGTAGTATAAATAGTGGTGGTCTTCATTTGGTTTGAAAAACACACAAAACACAAGAGAAAAACAAAGAGTGAAAGAGTTAGTATAAAAGAGAGTTCTTATTAGTTGAATGGAGATGTTCTTTTTTGTGGAGCTTTGAACTCAACTCTTGTCCAGAGTTGTTGAGTTATAATTTGTGAAGGTTGTTGTATCCTGGAGGGGACAAGTCAAAGAGGACTACTGCTGGACCGGTGAAAACATTTGCTGCAGTGGGCTTGAATCTTCTTAAAGAGAGAGAAATATCCGCGCCTCAGCCTGAAGAGATTAATTTCTTCATATTATTTTCAATTGCAATTTTATTATCTTGTAAGTTTTTCACTAACAATCTTGATATACTTCATCGAAGAATTTGTACAAGTAGTAAACTCTAATATTTACTCTGCCAGCAAAAAACAGAGAGAAGAAGCAAAATATAAGAAGGTAGAAATTGATTGAAGACTTGTAGTCGTCCCAACCAGTAGATCAGACGAAAGCACGGGAAAAATATCAAACAGTAAATCTCACTATCGTGAATATGTGCTCAGAAAGAACCCAAAACCCTCAAAATTCAAATTCCATTCATATAGACAAAGATATATCATGCACAAGAAGCGAAGTTGAAGTATGCACTTATATACACCCTAAGACGTCAAATATTTGTACCTCAAAAATTCAATTCGGACATAAAACAATATAGCAATTAGCATCCACAAGAAAACAAAGTTGGAATAACCTAAAGGGAAAGATTCAACAAAAGAAACAAACCTTCAAATAGGGGCTGCAGGAATCCGATCATTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGCCAATTTTTATGAAGTAAAGTTAATAAAGACTTTTTCAATAAAGGGAACTTAGCTTAACACCTAGTGAACTTGACAAATGAGAGGTGCCCCTTTCCTATGAGGAAGGATTGTTCAGAAAATTTTCCTCATGAGGTGGAAACTATAATGCCTAAAGGCATAAAGAGGGTTTGAATATACAAAGCGTAGTTCCATAACATTGTTTCCCCATAGGACCTAGCTAGTGGATCCATCTAAAATGCTAGAATTATATTCATGTCTCACCTTGGCAAGTAAGATAATCTCTCTTGTGTGAGGGGGTAGATACAAAATTCCATGTTTGGCTTACAATGTCTTATTGTTGGTTAAGACTAGGATTTTCCTAAAGTAAAATGGAGAACGGAAGTAAATTAATGAACCCTAACTAGGATAACCTAAGGGAAGTTTCTTAGTGCTTGTGAGTTTATGAGACTTTACGTATGCATTGCACAAGTAGCTCTTGAGGGGAGTTCTAGGAAGGTGTTCTATATGAATATGAATATGTATACCTTATATGCATGACATTATGGTATTGACCTAATTGTATGATAATGTGCATGGCATGATAACTATTGTGTCGATATGATGAGGTCTTACCTTATATGCATAATGTTGGTTTCATTGACTATATGATGATAGTCTTAATTTGCATGTATGAAGTTGTCTATCCTTGTCTTGATGATGTATGAAGAAAATGGTATGCTTATGGTCTCCTTTTGAGTTTACTAAGTATATGTGAGGTTATGGGACTTCACATATACATTGCATTAGTAGGCTTAGATTGGAATTGTGAGTCAGGTCTTAGGATGTTAAATGAAATAAAGTCCAAGTATGCTATAATTGACTATTGCCTCTTATGATGTTATTGGTAGGGTTGACTTGAATGTGGCCTTGGAATGATTCTTCTATGCTTTCATCAATGCTTATTTTTTAGTCAATGAAGGTTTTGTGAATGTTCACCTTGGTGATCTTAAGGTGATGATTCAGTGTGTGTTGTGTAATGGGACGATATTCATGTATTGCACCAAGTATTACTAGAGGGTTACTTGGGGGTAAGAAACTTGGAGTGAATGGAAGATTATGCTATGAAGATCATAAACGTGCCTTAAATGAATTATGTGGCTCTATGTAATGTTATGAATAATGTCTATGCCTATGTGAAGTATATGAGCTATGTTGCGCTTATTGTATAAAGGTTTTATGAGGTTTTATTAAAAAGCACGATGCATGGTTTTCTAACCAAATTTCCTCTTTAAATGCATGTTTTTGCATAGTTTTCATACTCGGTGCATTCTTTTACTAACACCATTCTTCTTCACCTTTTTACAAGAAGTGTAGGTCATGGATGCTAAAGGCTGTCTCTGAAGTGAAAGGCTTGATATGTATTTTCCCAAGCTCAAGAAAGGGATCCTTATGATTTAAGGATTTCCCATGTCGTTTTTATGTTCAAAGTTATGTAATAGATTAGATATTATTATACGATGATAAGGGCCATGTGTCCTATTATATTCTATTGATGTTGAGTCTTAGATGACAAATGAGACTTTTAGTCTAACTATTATGATATTATATATATATATGAAGTGATGTTTCTAGTATATTATGTGCTATGAGAAGTTTTAAAATATTCCCCTAAATTTACCTATAACAATGCGATGAATGATATTATGGGCTTGTATAAGACCTTTGAGAGGTCAATCACAACATTTTACTTCTAGAGGTGATCCTTGGTCGTGACAAATGTAGTATGAGAGAATGAGGTTAAAAAAGTCGTTTAAGGGTTCAAAGTCTCGTATCTCCATGTCTAGTAGAGTCTCATTCATCGGTGGTGAGTCACGACACATCTGTGAGCGAGAGGCTATAGGACGATAGAGTTTCCTTTCTTCACTATTCTCATGTTGTGCCATAGAACTTAACTCTATGTGATCTCTCTCGTATGTTTTCTTATTTGGTGGAATTTAGATGTGCATTCTTGGATGAGATGGTATCTCTTTGCTTAAGGGAGAAAACGTGAGTTTTGATGCTTATCTTGGTTTTATGGTTTGATGAGTATGTGTAAAGGTGAATTTGGAATATATGTTGATGTGATGCCATTTATGGCTACATGTGATTTTTGAGAAATAAGGTCTTATGTTGAAAAATACAATTTGATATGGTTATAGATTGTTAGGAGTTATTATGGTTGAAAAGAGTTCCATTTTTGGAATGAAATGTTGATACATGGTTTTGTATGATGATATTCTAATGACATGGTTTATGTTTGAAATGCTTTGAAGAAGTGTGGTAAATAGCTAAAGATGTATGTTTCTTTTATATAGGTGTAATGCTTAAATGTTTCCTTTTATGTGCGTGATCCTCCATAGTTTCCTTGTATGGATTGGAGTCTTTTGTATAGGCTTGATCCTAGAAGTGAAGGTAGTATGCTTACCTTGTAAGGTTATTGTGGAGTATGTTAGTTAATGGGAGAACCCTTATGACTAGGTCGCTAGTTTTGTAACACTTTAGAAGTGTAAAACCTAATCTAGAGAGTCATGTGTTGAACAAAGACTTAGAACACTGTTTTAAGACCTAAAATAATGTATATAAGACATTTAGGAAGTTTTAGAGTCGAAATGTCAAGGAACATCCCTGACGTCTGTTGAATTATGAAATCGAGGTTAGTGTGACTTTGCATATTTCATGGGATTTTAAGAGTCAGAAATTAAATGAAATTTTGTAGGAAGGTGTTAAACATGTATTAAGGCATGTTTAGGGTCAAAGCGTCTAGGTACGATTCCCCAAGGACCATCCTAAGGTTCCTTGAAGAGGACCCTTGCATTTGACCAAAACTTGTCAAATTGATTGTAGCCATCTACGGTTGCCAAATGACGAGTCGTCATCTTGTTGACGAGGCATCGATGGTTCCAAAGTCTCAGCATTAGCCATTTTCCAAAAATAGTCCAAAAGACCAATCTCTAACACCATCGACGATGTTTAGTATAGGGGGCATGGGCTGGTGTCAACTGACCTACGGATCGTAGGTCGAGGTCTTGTAGGTCAGGTCTTGTGTGGACTATTTTATTTTAAGTTTAGTCATTTATGTAGTTAGTTGCTTAGGTTTTTAATTAAGGGTTAAAGGATTTCTAATTAAGTTAATTAAGGAACTATATAAAGACCTAACCCTCATTAAACTAACCTAACCCACATCAATTCCCAAACACAAAATCCTCTTCCTTCTCTCTACTTTCTCTCTCTATTTCCCAAGACTCCATTGAAGATCAATTCAAGGTCACAAGGGCTACAAGATTAAAATTTCTCTCCATCAATCTTCATTAATAGCTAAGGTATGGGAACTCTTCACTTTTTTGACTCCCTTCCCCAATGGTTTCTTTCAAATTGATTTCCAAAAGTTGATAAAAACATGGGTTTCATTCTTAATCCCTTTAAGCATGAGTTCAATGTTTTATGTGCATATGTTTCCATACTTAGTAAAAGTGATGTACTAACCCATATTTCTTTGTTTTCTACAAATATGTAGGTTCCGACCATTGAATTCCTAGGAGGCTGCTTGAAGAAGACTTGGATTCTATTCTCTAATTGTTTGTAGGTCATGTTCGGGGATGTTACCTTTTCTATATTCCATCATTGAAGTTGTATTTCCATAAAGACATTATTCTTTCCTTTATCTTTTGGATATTGATGTAAGCCTATTATGTCATATTGACTTGGTATTAGCTATGTACAACATTTGAACTCGCTTAAGATGGTTCAATATGAGACGAAATATTAGACTAATTCCTATGTGTCTTATCTTGTCTATGTGAGAAGACTATGTATGCTTCATATGCGAGGCGCCTAAGTAAACTCCACACACACACACACACACACACACACACACACACACACATAAATATATGTAACAACCCAAAAATCAAATATGCTAAGTAACATACTGAGGACCCTAGAACCAGCCACCATAGCACCCTAGGGGTAACCACATGGACCACACCCCACAAGATGCAGTCAACCCGTGAGGGTGAGGCTTCCCGACAAGGTGTGAGGAACAAGGTCCCACGGCTCCATGCATGTGGAACCGGGTCTCTAGGCCTATTCACTCCCCTATCCAACCAACTAGGTGAGTTTGTTGGTGTTTTATGGGATCAGGTTGGGCGAGTTTAGGACCCCGAATACGAGTTTACACACGAGTGTGTCCAAACCAGACTTGAAAGGGGTAACCTTACGTTTGGAGGGTCTATTGGTAAAATGGTCTTTTCTAGGCCAAGGGAAATATCTTAATTACCCTAAGGAATTAATTAACTATTAGTCAATTTAATTGAAGGATCGGTTTGGGTTTTTCAACCCATAACGACCCATTTTGGCGAATGGGCTCCACCCGAGTTTTAGCCTTGGTGGAAGCATCAGTTTAATGGTTTAATTGGTGATTTAAAATCAGATTTTTTGTAAGGGCATAATGGTCTTTACATGTGTGATTAAGTTAAATCAGATATTACCATTTAACTAAACCTTATTTGACTAAGTCCTAAACCAAACTCCTAATCCTAAGAAAACTCTACTTATTCACGTCTATCTCTTAACACACGATCATTCTCTCTTCTCTCATTCACGTTATCTCTGCCAAAATAACTTGAAGAATAGAAAAATTACTAAAGTTCTTTACACTTGAAGAACTTACACGAAAAATATACACAAACAAGTTAATAAAAAACGTTAGGCAAAACGGGAAGGTGTTCCGTTGAATTTGGTGTTGAGCTTTAGGTTGAGATGTGTGTTTGGAGGAGTTGTTTGTGCAGCAAGTCCAGGTTTGAACGTTAAAAAGGTATGGGTTATCTTCTCTCTTGGTCCCTTTCCCAAGAGACCCCTTAAGGTTCAGTATATTCAAATCCGAAAATAAGGGTTGCTCCCCGTTGCATGTCCTAGTCACTAGCTCCCAATGATTTGTGAGTTGGGTATATTTGCTGGTAGATATTAGGTGTGTATTGTGTTTTCATGATTAATATGTTCATGAATATGTGTTTGAAATCATTGAATAACAACCTATGTGATCCGAAACATTGTACGTGTGTGCAATGTGAGCCGTGACTATGTGCTCTAGGGTTTAAGGCTCTAAAATTTAATGTTATAGTTGTATTCTTACGTGCACAAACCTATGTAAATCATGATTTTCATATGAAGTGTAATGTGGCTGAATGGAGCGAGAAACTCTTGGCTAAATGAATCCACGAAAACGCACCTAAAACATTGTAAATGAACTATGAAATTTCCCTAAGAACTAGCGTTTAATGTGATGAAAAGGATGCTGGAAAACTACGAAATTTCAAGCTACAAGTTGATGAATTTCAGTCAAATTGAGGTAGTTCAAAATGTTATGAAAAATGAATTAAAACAAGTGAGGTTATGGAGGATTGAACCCGTGACTTCACCATGTTAAAAACAATAAAAACAAGTGAGTTAAAAATAATTTTCTGAGGGGGATTCAAACTGTGATCTTGGCTGGAAAATGGAATTATGAAAAAAAGAAATGGGAGGAGTGGAATTTGAACCCACAACCTCTCAGACAAACTAAGAATTAAAAAAAATGTCGAGGCGTGTGGGAATCGAACCCACGACCTCTACGCGGATAAAAAGAAATTTAAAAGAAAAATAAAGTGAGGTTGTGGGGATTCGATCATAGACCCTCACAACCAACTTGAAAAAGTAAATGAAAAAGGAAAATAAAAGAAATGAGGTAGTTGGGATTCGATCCCACAACCCCTTGTTCCAAAGATAAGCGAATATGAAAGAAAAAAATAAAGGCGTTAGGGCTCGATCTCGGGTCCCCAAGCCGTTTGAACAAAAAATAAAATAAATAAAAAATAAGGATTCGAAATCGGGTTCCCTTGCCCAAATTCCGTATTGATACATAAGTCATACGTGAATTAAATGTTCAAGGGTGATGCTGCCTACTTATATCGAAATTGAGATCTTGGCATGCATTCAAGCTGCATCAATCTTGTATCACATAATCTTATGAAGATAGGACTCACTTAAATGAACTATGAATAAAGCCACATGGATTGTATCTATCGAACCATATGTCTATCATACATTTAGAAGTAAGTGAATCTAAGATGTATGTAATGAAATGATGAAATAAACAATGAAATGATTAAACCCTAGAAGGGTTAATTAAGACTGTGAAACACACTAAATGGGCAAGTGCATTGGCATATGATGAAATAAACATTCACGTAACAAGGGGTAAGTAACTGTGAGGATCAAATTTTCCAAAGTTAATGAATGTGGTGACAATATGATAAGAGGCTAATGTAAAAGATAAGAGCAATCTCAAATGAGCCTAGGTTAATGTTACCAAAACGTACTCACCTATGAGAGTGTAAAGTTAATAAATAGACCAGTCTCTATGAACATTCTAATGAAAGTATTGAGAATAATACACTTAAGACTGATGATGAGATGAGAAATCATCTATTGAGATATGATGTCCTCTTACTAGAAGCCAACCTCCATGACGTATGAGTTGAATGTAATGAAACATTATACAGAGAATCGATAGACTATGTATGAGCAGTGTTGCCTTCTTTTGGGAAGGGCGGAGGTTCACGTAACTCTCATGAGACGAGTCTGTCCGACATAACAGATATGTGTCTCCTTATATCTCCTAGTGTTTTAACCAATACTGTCAATATAGGGATCTGGCGGGGTTAAATTCCTATGTACGCTAGCATATTTTGGGTCACTTTGGCTGGTGATTCCATCTCTTTTATTTGTGGGGGAGACACTGGATTCCATGATGCTCACATGATCTATGTTGGTTAAATTTAAAGTTCCCAATGAATGAATGAGGCCGGCCTCAAATGATGCACATAATGAAAATGAATTATACCAAAGGTGTTAGGATAGGATAATCAAGAAGTGAGTTTGTAATGACACTAGGTCATTCTTGGTCACTGCACAACGAACCCGATGAAAGTCTTAAATACATTCTAGGCATAGATAGTGTTTATGCTAGCCTATTTATGAAATGAAATAAAGTACATATGAATGAATGAAGCAAACTCTACATTTGCTAAAGAAGGCTCCCTAGTCGAGGTCCCATATGTTGAGCCCTCATTTTGGGAAGTCTTAATGTCAAATCCATGATTCCAAGGTCTCATGGTATATGAGTAAATGATATGAATGATGTTATGTGCTATATGCAAAATGATATCTGTTATGTGTAAAATGTAATGTGCTATCTGCAATATGATATGTATGATGATGCATATTACTCTCATGGCATAACTTTCCTAGTACAAATTTGGAAAGTTCATTAAATTTCTTAATCCCATTTTGGCAAGTCCACTGACTTGAATTTCCATAATCATGTTGTAAGGAAAGATTTGTTCTTAATCATACGTGTCCTTGCATATACCCATACTTGAAGCTATCCGGATGTGGAGCTTTCATCCGGACTTGATAGGCCCTCATGCTTTCAAGGTTGTATATCGTTATTATCTAGATTAGATGTACTATATAGCTAGTGGATCATGTTTCACTAGTGTTTCTTTCTACTTTTGTTCAGAACTTATACTGGTGCCGTTTTGGCGAAAATATATTTAATAAAATTATGAACTGATTCTTTCATTTGATTATTTCTTTATTAGATGGTTGAATTGTGAATGCCTATGATGTTAAGTAGTATGTATACATGTATTTTAAGAAACAAAAAGTTTCAAATTTTCCACTAAAATCAACCTAGATGAAGTAAGGATGACGTATGCAGGCTTGTTTGTGACCTCTTAGAGGTCAACGACGTCGATCTCGTCTGGGGTCTAGATTCAACTCGTGAAAAAGTTGGTATCAGAGCACTAGGTTAAATTCCGAAGATAATAAGTTCACATCAACCACATTGAGTAGTTTCTAAGTGATGGTAGTGAAGTGCACCACTATCCTAAATTAGAGACTTCATGATGCATAGGAAAATTCGATTCTTCTGATCTTATCGTGCCTTTCCTAATGTTTGATTTTCTTGGTGTTATGAGAGTTTCTAACATAAATCCTTGTTGTTTTCAGAGACGGAATACTAGGACAACAATTGGTCAAAGAAGAGGAGGAGCAGCTGCTGGGGGCAATCAGGTTCCACCCCCGACTCCAGCTGAAGGAGTGGCTATGCCGGTTAACCTTCTAGGTTGACTGATGTTGAGGTGCTGGCATCTATGGCCCTGATGGCACATGCCATTATTATGAAGGCCCAGTCCATTACTATGCAGGTCCAGGCCATGACTTACCAGGTGAACCGACAAAATATTCAGAGGGAGAACTCACCGATTCGCAGTACGACTGACAGAATGAGATCCTTTACGACGATGAATCCTTATATTTCCACAGGGTCTAAGACTTCGGAGGATCCTCAGGAGATTCTATATGAGGTGCATAAGATTTTGGTTGTTATGGGGGCATAGATAGTGAGAAAGCAGAGTTGTCTTCCTATCAACTCAAGGATGTTGCACAGACTTGGTGCAAGATGTGATAGGATAGACGAGTTTTGGGTGGAATTCTGCTAACATGGAATCTGTTTAAGACAACCTTTCTGGAGAGATTCTTTCCCATGTATATGAGAGAGGACAAGGTTGAGGAGTTTATCAACCTAAAGAAGGGATCAATGATAGCCAAGGAGTATTCCCCAAAGTTTGTTAAACTATCCAGGTATGCTACTTCCCTTGTATCTAATAGTAGCGATGAGATGAGTAGGTTCCTCATCGGAATCACCAAAGACCTGGAGGAGGAGTGTCGGGATGCGATGCTCCATGATAACATGGACCTCTCCATGTTGATGGTGCATGTCTAGCAGGTAGAGGATAGCCAGAAGAAGAGGGGCGCCCATTATGCTAGGAGGCCTAAGCCTCATGATCAGGAAGGTCATAGCAATAGGGGCAACAGGACCAACTTTGGCGTCCGTGAGCAGCCCAGATTCAAAAAGGGGCAACTGAGTTAGGGAACTCTAGCTTTCAGAGGAGTACATCACCTAGAGGAGTCAGACCCGAGCCCAAGAAGGGCAATGGAGGTGAGATGAAGCGTTCCATAAAAGACTGTGCTAAGTTTGGCTTTGCTCACAGTGGAGAGTACAGACAGGGCACTAATGCCTGCTTTGGGTGCGATAAGAGCGGGCACATGGTTAATGACTTCCCACAAAAAAGAGGTCAGGCTGGAGGTAATGCTCAGCCTTGGCCTAAGTCGCAGGATGCAGCAGCAGCCAAGCCTCCTAAGAGGAACATGTTCTTTAAGGGAAGGGAGGAGCAAGAGAAGTCCACTGATGTGGTCACAGGTTTGTTGCAAGTATTCTCAACTTCTGTTTATTCTTTACTTGATCCAAGGTCTACGATTTCCTTTGTTACTCCTTTTCTTGCTCTCACTTTTGAGATATTGCCTGAAGTTCTGCATGATCCTATAGCTGTTAGTACACCTTTAGGAGAAAATTTAAGAACTGATAGAGTATACAAGGATTTCCCAATAACTGTATGTGGTAAGACTATGTGTGTAGACTTGGTTGAGTTGCCCATGCATGATTTATATGTTATTCTTGGCCAATAAAATAATGTCCAAGGGGTTATTATGTCATATTGTGAGTGTTAATGATTTATATCATGACATTCCTTCAATAGACTCAGTGCCTGTAGTAAATGAGTTCCAATATGTATTTACTGATGATTTTCCTAGAGTTCCTCCCCCTCGAGAGATTGACTTTGGTATCGACTTAGAACTCGATATTAAACCAATTTCAATTCCTCCTTACAGAATGGCTCTAGTTGAACTCAAAGATTTGAAACTGCAGTTAAAATATCTCACTGATAAGGGTTTCATTCAACCGAGCGTATCCCCTTGGGACGCTCTAGTGTTGTTTGTGAAAAGAAAGATGGAACCCTTAGAATGTGTGTCGATTATATGCATCTCAACAAAGTCACTATCAAGAACAAGTATCTGATATGCTCAAACTTACTTCTCGAATAAGAAGTAAAGCGGTCGTGTCAAGTAAATAACCCAACTAGTGAGTGTGGGATCGTTCCCACGAGGAAAATAGTCTAGACTTAACTTCAACTTGTTATTACTATTGCTTGGTCAATGACTTCCTTGTAAAGTAAAAACATAAAAAGGGGGGTTTCTATTTCTAAATGAGTGGAAATAAATAACAAACTTGAAAGAGACACTTAACAGCTTTGACAGTTTGATCTTAATAAATTAATCAAGGTAACTACGGTTTACGTGTTCGCCACAGGTTCATAACTTGATAATTCTAACTATAACAATTCTTTCCTCGTATCTTGCATGCAAAGTGATAAGTTATGTATTTCTAAATCTCACTCTGCACCTGGGTCCGGCTACGTGTGTTTCTATCCTAACCCTTATCCTTACCTCATATTAAGCATCGTATTCGATATTTGACTAAGTTATTACCTCGTACCAATCAATACTAGCCTATTAGATAGTATACACTAAATCTATGTTAATAATTCTTTTCCTATTATCTACCTCCTTGGTCCGGCAAGTAGCATTAAGGCGAGTTCTAGCGTTGGCCATCCGTTAAAAGGACTTCTAAGCAAAAGAATTATTAATACATGCAAGACACTATTCTAGAATTGTCATTTTAGTTAGGATTTATCTCATTATTTGCCTATGGTTCCCACAACCCTAGTTATGGAGTTTAGTTACTCAGAGCCATAAACACAATATTCAAATAAACTAAATAAGAATTCATGTACTTACTTCAATGAGAAAGAGTAAAATCCAAAAGTTTTCTTCATTAATATCCAAAAATCACTTGCACGAATCTCAAAGTAATCAATAATCTCAAAAAATCTCCAAGTAATCTAACACTAATACAAAGGGTCTGATAATATGATGTCAAACCTAACAGAAGCTAACCTCAAAAATGAGGTTTTTCGAACTATTTATAAAAAAACAAAATCCTAATTAAACAAGGATTCTAATAGCTAGAGATCTCCAAAAATGCAGCTGGGTCGACAGACCTCGCGACGGATCGTCATGGTCACGACGGGCCGTCATGGACTCCGTCGTCCCATACTTGTGAAATTTCTTGCTCTCTTCATTCCCCTCGATGGCAAGTATGACGGACCGTCATAGGCACAACGGTCCGTCGATGGTCTTTGTTCCAAAACACTTCAACTCTTGGAATCTGGGTACTGGGATCACTTCTCTGAACTTCACGACGAACCTGCAGTACGGACCGTCACAAGGTTCGTAATTCCACACTTGGTCAAACTTCCCCATCTTCCTTCAGTAGCTGCACTACGCTTCCACCTACGGACCGTCACAAGCACGACTGACCGTCATAAGCTCCATAGGTGGTCTCTTCTACATTTCTTCGCTCAAAATCTCCGCATTCAG-TTTGGACAAATTTCCTGCAAAACAAAGAGAAAATTATATAAAAATTAGAACAAAAAGGCTTTTGGACACACTAAACTTATGAAAAAAGTATTAATAATACCGTGAAACCACAGTATATCAACACCCTCAACTTTAATTCGTTATTTGTCCTCAAGCAACACACTATGACTCACTACACAATCTTTGTACAATAGTATCCATGTTTTATCCTTTGGAATCATTTGGCTATCAATCCCGATTAATCTCATCAAATCTATGCATGCTATCACTATTAGGCTTGAATTATGTAGGATCAGAACATGACACTGACTCCCCATGCACTAACACCTATCCTCTTCAATTTCTCACCGAGGTGCTAACAATTCCGGTATTGCAACTAGTGTCCTCACTTTAAAACAAAATCCTCCTTTTTCACACAATAATTTCAGTTTGAGTATAAGGATTAA</genome_strand>
        <mrna_strand>CGAGGGTCTTTGTTCTAATACACTTCAACTCTTGGAATTTGGGTACTGGGATCACTTCTCTGAACTTCACGACGAACCTGCAGGACGGACCGTCAGATCCACGACG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................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TTTGAATTTTGTGGGATCAGAATATGACACAGACTTACCATGCACTAACACCTATCCTCTTCAATTTCTCACCGAGGTGCTAACAATTCTAGTATTGCAACTAGTGTCCTCACTATAAGACAAAATCCTCCTTTTTCACACAGTGATTTTAGTTTGAGTATAAGGATTAC</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-C03HBa0041A13-oofeY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" ref_id="SGN-U602297" ref_strand="+" ref_description="SGN-U602297 Tomato 200607#2 [1 ESTs aligned] (*GB) gi|113205226|gb|ABI34306.1| (e_value=6e-16) Polyprotein,; ">
      <seq>gcaacggtaaatccagacctatgaggaggaaatgcagtaatgtaagatcgtatttgacaaatggtaccattaatgttgagtatgtcaaatcttgtgataatcttgcagatcctcttacgaaggtcttaacaagagaaaaggtctggagcacatcgagggggataggattgaagcctacaaatccttcagtcatatatgaggaaactcaacctgnggaatagagatcctataaccaggttcaaagggaaaaactaatcatatgatgacttgttatgaaaaatacactattttttccctccctatgatgtgagtgcatttgttcctatagtttgtgaaggttgagttgataaaaactcttaatgaatatctgtaacccgtatgggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0041A13-oofeY/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C03HBa0041A13.1" temp_strand="-" temp_description="C03HBa0041A13.1  AC238441.1 htgs_phase:1 submitted_to_sgn_as:gi|260064213|gb|AC238441.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0041a13, *** SEQUENCING IN PROGRESS ***, 7 unordered pieces">
        <position start="18388" stop="17405"/>
      </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="18089" g_stop="17705" g_length="385"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="384" r_length="384" r_score="0.917"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0041A13.1" gen_strand="-" ref_id="SGN-U602297" ref_strand="+">
        <total_alignment_score>0.917</total_alignment_score>
        <cumulative_length_of_scored_exons>385</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0041A13.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U602297" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="18089" e_stop="17705"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAACGGTAAATCCAGACCTATAAGGAGGAAACACAATAATGTAAGATCTAATTTGACAAATGGTACCATTAATGTTGATTATGTCAAATCTTATGATAATCTTGCAGATCCTCTTACGAAGGCATTAACAAGAGAAAAGGTCTGGAGCACATCGAGGGGGATGGGATTGAAGCCGACAAATCCTTGAGTCATATATGAGGAAACCCAACCTTGAGACTATAGATCCTATAACCAGGTTCAAAGGGAAAAACTAATCATATGATGACTTGTTGTGAAAAATGGACTATTTTTTCCCTCCCTATGATGTGAGTGCATTGTTTCATGTAGTTTGTGAAGGTTGAGTCGATAAAAACTCTTAAATGAATATTTGTAGCCCGTAAGGGT</genome_strand>
        <mrna_strand>GCAACGGTAAATCCAGACCTATGAGGAGGAAATGCAGTAATGTAAGATCGTATTTGACAAATGGTACCATTAATGTTGAGTATGTCAAATCTTGTGATAATCTTGCAGATCCTCTTACGAAGGTCTTAACAAGAGAAAAGGTCTGGAGCACATCGAGGGGGATAGGATTGAAGCCTACAAATCCTTCAGTCATATATGAGGAAACTCAACCTGNGGAATAGAGATCCTATAACCAGGTTCAAAGGGAAAAACTAATCATATGATGACTTGTTATGAAAAATACACTATTTTTTCCCTCCCTATGATGTGAGTGCATTTGTTCCTATAGTTTGTGAAGGTTGAGTTGATAAAAACTCTT-AATGAATATCTGTAACCCGTATGGGT</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-C03HBa0041A13-oofeY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" ref_id="SGN-U591718" ref_strand="+" ref_description="SGN-U591718 Tomato 200607#2 [1 ESTs aligned] (*GB) gi|48057631|gb|AAT39954.1| (e_value=1e-28) putative integrase [Solanum demissum]; ">
      <seq>gggatctgtcccaggcttggctaacgtcacagttttagcattacaatccaagattgcaaaatttggagaaagccaagtcatacccagaattacatcaaaatcaaccatttctaagataaccaagtctacataagtattgctccccacaaaagtcaccagaccagacctatatactttttcaactatcacagactcacccaccggagtagaaacacgaataggcatgtcaagcaattcataatttaatttaagaccagtagcaaatgaggaagatacatatgaaaatgtggatccagggtcaaataatacaaaagccatgcaatcac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0041A13-oofeY/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C03HBa0041A13.1" temp_strand="+" temp_description="C03HBa0041A13.1  AC238441.1 htgs_phase:1 submitted_to_sgn_as:gi|260064213|gb|AC238441.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0041a13, *** SEQUENCING IN PROGRESS ***, 7 unordered pieces">
        <position start="32141" stop="33065"/>
      </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="32440" g_stop="32765" g_length="326"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="326" r_length="326" r_score="0.920"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0041A13.1" gen_strand="+" ref_id="SGN-U591718" ref_strand="+">
        <total_alignment_score>0.920</total_alignment_score>
        <cumulative_length_of_scored_exons>326</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0041A13.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U591718" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="32440" e_stop="32765"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGGATCTGTCCCAGACTTGGCTAATGTCACAGTTTTAGCATTACAATCTAAGATTGCAAAATTTGAAGAAAGCCAAGTCATACCCAGAATTACATCAAAATCAACCATCTCTAGAATAATCAAATCTACATAAGTATTGCTCCCCACAAAAGTAACAAGGCATGACCTATACACCTTTTCAACTATCACAGACTCACCCACAGGAGTAGAGACACGAATAGGCATGTCAAGCAAATCACAATATAAATCAAGACCAGTAGCAAATGAGGAAGATACATATGAAAATGTGGATCCAGGATCAAATAATACAGAAGCCATGCAATCAC</genome_strand>
        <mrna_strand>GGGATCTGTCCCAGGCTTGGCTAACGTCACAGTTTTAGCATTACAATCCAAGATTGCAAAATTTGGAGAAAGCCAAGTCATACCCAGAATTACATCAAAATCAACCATTTCTAAGATAACCAAGTCTACATAAGTATTGCTCCCCACAAAAGTCACCAGACCAGACCTATATACTTTTTCAACTATCACAGACTCACCCACCGGAGTAGAAACACGAATAGGCATGTCAAGCAATTCATAATTTAATTTAAGACCAGTAGCAAATGAGGAAGATACATATGAAAATGTGGATCCAGGGTCAAATAATACAAAAGCCATGCAATCAC</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-C03HBa0041A13-oofeY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" ref_id="SGN-U590594" ref_strand="+" ref_description="SGN-U590594 Tomato 200607#2 [1 ESTs aligned] (*GB) gi|113205313|gb|AAT38742.2| (e_value=2e-14) 'chromo'; ">
      <seq>gagatgatcaaccaggttctttctcatcttagcgggttatctgatcagggccagacacctccagtgtttcctgtaccagcacctcaggttccgggagtacaacatgcagctgttgtggctctccgcatggatgcctcattggaaataggcacatttcctcgattgactacagggcctataatgacgagtgatcaacatgaacttttcactaaattcttgaagttgaaacctctagtcttcaagggtgctgaatctgaggatgcctatgattttcttgttgattgtcatgagctgctacataagatggacatagtagaacggttcggggttgagtttgtgacctatcaatttcagggaaatgtcaaaatgtggtggcggtcgtatgttgagtgtcaaccagcacagcaccacctatgacttgggcatcattctctagcttatttatggaaaagtgtataccccggacgttgagggataggaggagagatgagttcctgagtctatagcaaggcaggatgtctgttactgcttatgaggctaaattttgtgcactatccaggtatgccacccagctttgcttcagtccacaagagcggattcaccgttttgtgaaaggattgaggtcagatttgcagatcccagccctacaggtagctgcntgcagcaaattc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0041A13-oofeY/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C03HBa0041A13.1" temp_strand="-" temp_description="C03HBa0041A13.1  AC238441.1 htgs_phase:1 submitted_to_sgn_as:gi|260064213|gb|AC238441.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0041a13, *** SEQUENCING IN PROGRESS ***, 7 unordered pieces">
        <position start="45190" stop="43932"/>
      </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="44890" g_stop="44219" g_length="672"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="671" r_length="671" r_score="0.923"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0041A13.1" gen_strand="-" ref_id="SGN-U590594" ref_strand="+">
        <total_alignment_score>0.923</total_alignment_score>
        <cumulative_length_of_scored_exons>672</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0041A13.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U590594" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="44890" e_stop="44219"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAGATGATTAACCAAGGTTCTTACTTATCTTAGCGGGCTATCTGATCAGGGCCAGAGCCCTCCAGTGTTTTCTGCACCAGCACCTCAGGTTCCGGGAGTACAACGTGCAGCTGCTATGGCTCCCCGCATGGATGCCTCATTGGAAGTAGGCACGTTTCCTCGATTAACTATAGGGCATCTAATGACAAGTGATCAGCATGAACTTTTCACTAAATTCTTGAAGTTGAAACCTCCAGTCTTCAAGGGTGCTGAATCTGAGGATGCCTATGATTTTCTGGTTGATTTTCATGAGCTGCTACATAAGATGGACATAGTAGAACGATTCGGGGTTGAGTTTGTGACCTATCAGTTTTAGGGAAATGCCAAAATGTGGTGGCGGTCGTATGTTGAGTGTCAAACAGCACAGGCACCACCTATGACTTGGGCATCATTCTATATCTTATTTATGGAAAAATATATACCCCGGACGTTGAGGGATAGGAGGAGATATAAGTTCCTGAGTCTAGAGCAAGGCAGGATGTCTGTTACTGCTTATGAGGCTAAATTTCGTGCACTATCCAAGTATGCCACCCTGCTTTGCTTCAGTCCACAAGAGTGTATTTGCCGTTTTATGAAAGGATTGTGGTCAGATTTGCAGATCCCAGCCTTACAACTAGCTG-TTGCAGCAAATTC</genome_strand>
        <mrna_strand>GAGATGATCAACC-AGGTTCTTTCTCATCTTAGCGGGTTATCTGATCAGGGCCAGACACCTCCAGTGTTTCCTGTACCAGCACCTCAGGTTCCGGGAGTACAACATGCAGCTGTTGTGGCTCTCCGCATGGATGCCTCATTGGAAATAGGCACATTTCCTCGATTGACTACAGGGCCTATAATGACGAGTGATCAACATGAACTTTTCACTAAATTCTTGAAGTTGAAACCTCTAGTCTTCAAGGGTGCTGAATCTGAGGATGCCTATGATTTTCTTGTTGATTGTCATGAGCTGCTACATAAGATGGACATAGTAGAACGGTTCGGGGTTGAGTTTGTGACCTATCAATTTCAGGGAAATGTCAAAATGTGGTGGCGGTCGTATGTTGAGTGTCAACCAGCACA-GCACCACCTATGACTTGGGCATCATTCTCTAGCTTATTTATGGAAAAGTGTATACCCCGGACGTTGAGGGATAGGAGGAGAGATGAGTTCCTGAGTCTATAGCAAGGCAGGATGTCTGTTACTGCTTATGAGGCTAAATTTTGTGCACTATCCAGGTATGCCACCCAGCTTTGCTTCAGTCCACAAGAGCGGATTCACCGTTTTGTGAAAGGATTGAGGTCAGATTTGCAGATCCCAGCCCTACAGGTAGCTGCNTGCAGCAAATTC</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-C03HBa0041A13-oofeY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" ref_id="SGN-U591718" ref_strand="+" ref_description="SGN-U591718 Tomato 200607#2 [1 ESTs aligned] (*GB) gi|48057631|gb|AAT39954.1| (e_value=1e-28) putative integrase [Solanum demissum]; ">
      <seq>gggatctgtcccaggcttggctaacgtcacagttttagcattacaatccaagattgcaaaatttggagaaagccaagtcatacccagaattacatcaaaatcaaccatttctaagataaccaagtctacataagtattgctccccacaaaagtcaccagaccagacctatatactttttcaactatcacagactcacccaccggagtagaaacacgaataggcatgtcaagcaattcataatttaatttaagaccagtagcaaatgaggaagatacatatgaaaatgtggatccagggtcaaataatacaaaagccatgcaatcac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0041A13-oofeY/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C03HBa0041A13.1" temp_strand="-" temp_description="C03HBa0041A13.1  AC238441.1 htgs_phase:1 submitted_to_sgn_as:gi|260064213|gb|AC238441.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0041a13, *** SEQUENCING IN PROGRESS ***, 7 unordered pieces">
        <position start="59083" stop="58162"/>
      </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="58787" g_stop="58462" g_length="326"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="326" r_length="326" r_score="0.908"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0041A13.1" gen_strand="-" ref_id="SGN-U591718" ref_strand="+">
        <total_alignment_score>0.908</total_alignment_score>
        <cumulative_length_of_scored_exons>326</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0041A13.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U591718" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="58787" e_stop="58462"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGCCTCTGTCCCAGGCTTGGCCAACGTTAGAGTTTTAGCATTACAATATAAGATTGCGTAATTCGAAGAAAGCCAAGTCATACCCAGAATTACATCGAAGTCAACCATTTCTAAGATAACCAACTCTACATGAGTATTGCTCTCCATAAAAGTCACAGGACAAGACCTATACACCTTTTTAACTATCACTGACTCACCCACCGGAGTAGAAACACGAATAGGCATGTCAAGCAATTCACAATGTAAATTAAGACCAGTAGCAAATGAGGAAGATACATATGAAAATGTGGATCCAGGATCAAACAATACAAAAGCCATGCAATCAC</genome_strand>
        <mrna_strand>GGGATCTGTCCCAGGCTTGGCTAACGTCACAGTTTTAGCATTACAATCCAAGATTGCAAAATTTGGAGAAAGCCAAGTCATACCCAGAATTACATCAAAATCAACCATTTCTAAGATAACCAAGTCTACATAAGTATTGCTCCCCACAAAAGTCACCAGACCAGACCTATATACTTTTTCAACTATCACAGACTCACCCACCGGAGTAGAAACACGAATAGGCATGTCAAGCAATTCATAATTTAATTTAAGACCAGTAGCAAATGAGGAAGATACATATGAAAATGTGGATCCAGGGTCAAATAATACAAAAGCCATGCAATCAC</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-C03HBa0041A13-oofeY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" ref_id="SGN-U575264" ref_strand="+" ref_description="SGN-U575264 Tomato 200607#2 [2 ESTs aligned] (*GB) gi|113205363|gb|AAT66771.2| (e_value=2e-67) Putative; (*SWP) sp|Q9UR07|RT23_SCHPO (e_value=5e-21) Retrotransposable element Tf2 155 kDa protein type 3 OS=Schizosaccharomyces pombe GN=Tf2-11; ">
      <seq>acccaattccgcatgcaatgttttccaaaacttagaagtaaactgcatacctctatctgatatgatggagagtggaaccccatgcaaccgaacaatttctgagacatatattttggctaacttctctgcattgtaagtcaccttgaccggaatgaaatgagcagacttagttaacctatcaacaatcacccaaatagagtcatacttactcattgtctttggaaggccaactacaaaatccattgcaattctctcccacttccattcaggaatgagcattctctgaagtgttcctccaggcctctggtgttcatactttacttgttgacagtttggacatttggcaataaagtcaacaatatcacgcttcattctactccaccaaaagtgttgctttaggtcacggtacatcttggttgcacccggatgtatagaataccttgaactatgagcctctgtcagaatagtgttgatcaaatcatcaactcggggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C03HBa0041A13-oofeY/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C03HBa0041A13.1" temp_strand="-" temp_description="C03HBa0041A13.1  AC238441.1 htgs_phase:1 submitted_to_sgn_as:gi|260064213|gb|AC238441.1| upload_account_name:jianfeng-ren Solanum lycopersicum chromosome 3 clone C03HBa0041a13, *** SEQUENCING IN PROGRESS ***, 7 unordered pieces">
        <position start="61342" stop="60251"/>
      </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="61042" g_stop="60552" g_length="491"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="491" r_length="491" r_score="0.904"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C03HBa0041A13.1" gen_strand="-" ref_id="SGN-U575264" ref_strand="+">
        <total_alignment_score>0.904</total_alignment_score>
        <cumulative_length_of_scored_exons>491</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C03HBa0041A13.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U575264" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="61042" e_stop="60552"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACCTAATTCAGCATGCAATGTTCTCCAAAACTTAGAAGTAAACTGCGTACCTCTATCTGATATGATGGAAAGTGGAACTCCATGCAATCGAACAATTTCTGAGATGTAGAGTCTGGCTAACTTCTCTACATTGTAGGTCACCTTGACCGGGATGAAGTGAGCAGACTTAGTTAGTCTGTCAACAATTACCCAAATAGAGTCAAACTTCCCCAATGTCTTTGGAAGACCAACCACGAAGTCCATTGCAATTCTCTCCCACTTCCATTCAGGAATGGGCATTCACTGAAGTGTTCCTCCGAGCCTCTGGTGTTCATACTTTACTTGCTTACAATTTGGACATTTGGCAACAAAATCAACAATGTCGCGCTTCATTCTACTCCACCAAAAGTGTTGCTTTAGGTCACGGTACATCTTGGTTGCACCAGGATGTATAGAATATCCGGAGCTGTGAGCCTCTGTAAGAATAGTGTTGATCAAATCATCAACACGGG</genome_strand>
        <mrna_strand>ACCCAATTCCGCATGCAATGTTTTCCAAAACTTAGAAGTAAACTGCATACCTCTATCTGATATGATGGAGAGTGGAACCCCATGCAACCGAACAATTTCTGAGACATATATTTTGGCTAACTTCTCTGCATTGTAAGTCACCTTGACCGGAATGAAATGAGCAGACTTAGTTAACCTATCAACAATCACCCAAATAGAGTCATACTTACTCATTGTCTTTGGAAGGCCAACTACAAAATCCATTGCAATTCTCTCCCACTTCCATTCAGGAATGAGCATTCTCTGAAGTGTTCCTCCAGGCCTCTGGTGTTCATACTTTACTTGTTGACAGTTTGGACATTTGGCAATAAAGTCAACAATATCACGCTTCATTCTACTCCACCAAAAGTGTTGCTTTAGGTCACGGTACATCTTGGTTGCACCCGGATGTATAGAATACCTTGAACTATGAGCCTCTGTCAGAATAGTGTTGATCAAATCATCAACTCGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>6</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="19429" PGL_stop="4274"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="19429" e_stop="19324"/>
            <exon e_start="4882" e_stop="4274"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="0.868"/>
          <exon-only e_score="0.933"/>
        </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="0.868">
            <gDNA_exon_boundary e_start="19429" e_stop="19324" e_length="106"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="19323" i_stop="4883" i_length="14441"/>
          </intron>
          <exon e_serial="2" e_score="0.933">
            <gDNA_exon_boundary e_start="4882" e_stop="4274" e_length="609"/>
          </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="19429" stop="19324"/>
              <exon start="4882" stop="4274"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U589884" 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>CGAGGGTCTCCGTTCCAAAACACTTAAACTCTTGGAATTTGGGTACTAGGACTACTTCTCTGAACTTCATGACGAACCACCTGGACGGACCGTCATAGCCACGACG : GACCGTCACAAGGTTCGTAATTCCACACTTGGTCAAACTTCCCCATCTTCCTTCAGTAGCTGCACTACGCTTCCACCTACGGACCGTCACAAGCACGACTGACCGTCATAAGCTCCATAGGTGGTCTCTTCTACATTTCTTCGCTCAAAATCTCCGCATTCAGTTTGGACAAATTTCCTGCAAAACAAAGAGAAAATTATATAAAAATTAGAACAAAAAGGCTTTTGGACACACTAAACTTATGAAAAAAGTATTAATAATACCGTGAAACCACAGTATATCAACACCCTCAACTTTAATTCGTTATTTGTCCTCAAGCAACACACTATGACTCACTACACAATCTTTGTACAATAGTATCCATGTTTTATCCTTTGGAATCATTTGGCTATCAATCCCGATTAATCTCATCAAATCTATGCATGCTATCACTATTAGGCTTGAATTATGTAGGATCAGAACATGACACTGACTCCCCATGCACTAACACCTATCCTCTTCAATTTCTCACCGAGGTGCTAACAATTCCGGTATTGCAACTAGTGTCCTCACTTTAAAACAAAATCCTCCTTTTTCACACAATAATTTCAGTTTGAGTATAAGGATTAA</gDNA_template>
            <first_frame> R  G  S  P  F  Q  N  T  *  T  L  G  I  W  V  L  G  L  L  L  *  T  S  *  R  T  T  W  T  D  R  H  S  H  D   : G  P  S  Q  G  S  *  F  H  T  W  S  N  F  P  I  F  L  Q  *  L  H  Y  A  S  T  Y  G  P  S  Q  A  R  L  T  V  I  S  S  I  G  G  L  F  Y  I  S  S  L  K  I  S  A  F  S  L  D  K  F  P  A  K  Q  R  E  N  Y  I  K  I  R  T  K  R  L  L  D  T  L  N  L  *  K  K  Y  *  *  Y  R  E  T  T  V  Y  Q  H  P  Q  L  *  F  V  I  C  P  Q  A  T  H  Y  D  S  L  H  N  L  C  T  I  V  S  M  F  Y  P  L  E  S  F  G  Y  Q  S  R  L  I  S  S  N  L  C  M  L  S  L  L  G  L  N  Y  V  G  S  E  H  D  T  D  S  P  C  T  N  T  Y  P  L  Q  F  L  T  E  V  L  T  I  P  V  L  Q  L  V  S  S  L  *  N  K  I  L  L  F  H  T  I  I  S  V  *  V  *  G  L  </first_frame>
            <second_frame>  E  G  L  R  S  K  T  L  K  L  L  E  F  G  Y  *  D  Y  F  S  E  L  H  D  E  P  P  G  R  T  V  I  A  T  T  :  D  R  H  K  V  R  N  S  T  L  G  Q  T  S  P  S  S  F  S  S  C  T  T  L  P  P  T  D  R  H  K  H  D  *  P  S  *  A  P  *  V  V  S  S  T  F  L  R  S  K  S  P  H  S  V  W  T  N  F  L  Q  N  K  E  K  I  I  *  K  L  E  Q  K  G  F  W  T  H  *  T  Y  E  K  S  I  N  N  T  V  K  P  Q  Y  I  N  T  L  N  F  N  S  L  F  V  L  K  Q  H  T  M  T  H  Y  T  I  F  V  Q  *  Y  P  C  F  I  L  W  N  H  L  A  I  N  P  D  *  S  H  Q  I  Y  A  C  Y  H  Y  *  A  *  I  M  *  D  Q  N  M  T  L  T  P  H  A  L  T  P  I  L  F  N  F  S  P  R  C  *  Q  F  R  Y  C  N  *  C  P  H  F  K  T  K  S  S  F  F  T  Q  *  F  Q  F  E  Y  K  D  * </second_frame>
            <third_frame>   R  V  S  V  P  K  H  L  N  S  W  N  L  G  T  R  T  T  S  L  N  F  M  T  N  H  L  D  G  P  S  *  P  R  R :   T  V  T  R  F  V  I  P  H  L  V  K  L  P  H  L  P  S  V  A  A  L  R  F  H  L  R  T  V  T  S  T  T  D  R  H  K  L  H  R  W  S  L  L  H  F  F  A  Q  N  L  R  I  Q  F  G  Q  I  S  C  K  T  K  R  K  L  Y  K  N  *  N  K  K  A  F  G  H  T  K  L  M  K  K  V  L  I  I  P  *  N  H  S  I  S  T  P  S  T  L  I  R  Y  L  S  S  S  N  T  L  *  L  T  T  Q  S  L  Y  N  S  I  H  V  L  S  F  G  I  I  W  L  S  I  P  I  N  L  I  K  S  M  H  A  I  T  I  R  L  E  L  C  R  I  R  T  *  H  *  L  P  M  H  *  H  L  S  S  S  I  S  H  R  G  A  N  N  S  G  I  A  T  S  V  L  T  L  K  Q  N  P  P  F  S  H  N  N  F  S  L  S  I  R  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="C03HBa0041A13.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="4583" stop="4326"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>255</number_coding_nucleotides>
                  <number_encoded_amino_acids>85</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FVICPQATHYDSLHNLCTIVSMFYPLESFGYQSRLISSNLCMLSLLGLNYVGSEHDTDSPCTNTYPLQFLTEVLTIPVLQLVSSL*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0041A13.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="19331" stop="19324"/>
                    <exon start="4882" stop="4672"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>216</number_coding_nucleotides>
                  <number_encoded_amino_acids>72</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>PRRTVTRFVIPHLVKLPHLPSVAALRFHLRTVTSTTDRHKLHRWSLLHFFAQNLRIQFGQISCKTKRKLYKN*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="18089" e_stop="17705"/>
          </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="18089" e_stop="17705" e_length="385"/>
          </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="18089" stop="17705"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U602297" 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="2" gDNA_strand="-"/>
          <translation>
            <gDNA_template>ACAACGGTAAATCCAGACCTATAAGGAGGAAACACAATAATGTAAGATCTAATTTGACAAATGGTACCATTAATGTTGATTATGTCAAATCTTATGATAATCTTGCAGATCCTCTTACGAAGGCATTAACAAGAGAAAAGGTCTGGAGCACATCGAGGGGGATGGGATTGAAGCCGACAAATCCTTGAGTCATATATGAGGAAACCCAACCTTGAGACTATAGATCCTATAACCAGGTTCAAAGGGAAAAACTAATCATATGATGACTTGTTGTGAAAAATGGACTATTTTTTCCCTCCCTATGATGTGAGTGCATTGTTTCATGTAGTTTGTGAAGGTTGAGTCGATAAAAACTCTTAAATGAATATTTGTAGCCCGTAAGGGT</gDNA_template>
            <first_frame> T  T  V  N  P  D  L  *  G  G  N  T  I  M  *  D  L  I  *  Q  M  V  P  L  M  L  I  M  S  N  L  M  I  I  L  Q  I  L  L  R  R  H  *  Q  E  K  R  S  G  A  H  R  G  G  W  D  *  S  R  Q  I  L  E  S  Y  M  R  K  P  N  L  E  T  I  D  P  I  T  R  F  K  G  K  N  *  S  Y  D  D  L  L  *  K  M  D  Y  F  F  P  P  Y  D  V  S  A  L  F  H  V  V  C  E  G  *  V  D  K  N  S  *  M  N  I  C  S  P  *  G  </first_frame>
            <second_frame>  Q  R  *  I  Q  T  Y  K  E  E  T  Q  *  C  K  I  *  F  D  K  W  Y  H  *  C  *  L  C  Q  I  L  *  *  S  C  R  S  S  Y  E  G  I  N  K  R  K  G  L  E  H  I  E  G  D  G  I  E  A  D  K  S  L  S  H  I  *  G  N  P  T  L  R  L  *  I  L  *  P  G  S  K  G  K  T  N  H  M  M  T  C  C  E  K  W  T  I  F  S  L  P  M  M  *  V  H  C  F  M  *  F  V  K  V  E  S  I  K  T  L  K  *  I  F  V  A  R  K  G </second_frame>
            <third_frame>   N  G  K  S  R  P  I  R  R  K  H  N  N  V  R  S  N  L  T  N  G  T  I  N  V  D  Y  V  K  S  Y  D  N  L  A  D  P  L  T  K  A  L  T  R  E  K  V  W  S  T  S  R  G  M  G  L  K  P  T  N  P  *  V  I  Y  E  E  T  Q  P  *  D  Y  R  S  Y  N  Q  V  Q  R  E  K  L  I  I  *  *  L  V  V  K  N  G  L  F  F  P  S  L  *  C  E  C  I  V  S  C  S  L  *  R  L  S  R  *  K  L  L  N  E  Y  L  *  P  V  R   </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="C03HBa0041A13.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="2" PGL_strand="+" PGL_start="32440" PGL_stop="32765"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="32440" e_stop="32765"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.920"/>
        </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="0.920">
            <gDNA_exon_boundary e_start="32440" e_stop="32765" e_length="326"/>
          </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="32440" stop="32765"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U591718" 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>CGGATCTGTCCCAGACTTGGCTAATGTCACAGTTTTAGCATTACAATCTAAGATTGCAAAATTTGAAGAAAGCCAAGTCATACCCAGAATTACATCAAAATCAACCATCTCTAGAATAATCAAATCTACATAAGTATTGCTCCCCACAAAAGTAACAAGGCATGACCTATACACCTTTTCAACTATCACAGACTCACCCACAGGAGTAGAGACACGAATAGGCATGTCAAGCAAATCACAATATAAATCAAGACCAGTAGCAAATGAGGAAGATACATATGAAAATGTGGATCCAGGATCAAATAATACAGAAGCCATGCAATCAC</gDNA_template>
            <first_frame> R  I  C  P  R  L  G  *  C  H  S  F  S  I  T  I  *  D  C  K  I  *  R  K  P  S  H  T  Q  N  Y  I  K  I  N  H  L  *  N  N  Q  I  Y  I  S  I  A  P  H  K  S  N  K  A  *  P  I  H  L  F  N  Y  H  R  L  T  H  R  S  R  D  T  N  R  H  V  K  Q  I  T  I  *  I  K  T  S  S  K  *  G  R  Y  I  *  K  C  G  S  R  I  K  *  Y  R  S  H  A  I   </first_frame>
            <second_frame>  G  S  V  P  D  L  A  N  V  T  V  L  A  L  Q  S  K  I  A  K  F  E  E  S  Q  V  I  P  R  I  T  S  K  S  T  I  S  R  I  I  K  S  T  *  V  L  L  P  T  K  V  T  R  H  D  L  Y  T  F  S  T  I  T  D  S  P  T  G  V  E  T  R  I  G  M  S  S  K  S  Q  Y  K  S  R  P  V  A  N  E  E  D  T  Y  E  N  V  D  P  G  S  N  N  T  E  A  M  Q  S  </second_frame>
            <third_frame>   D  L  S  Q  T  W  L  M  S  Q  F  *  H  Y  N  L  R  L  Q  N  L  K  K  A  K  S  Y  P  E  L  H  Q  N  Q  P  S  L  E  *  S  N  L  H  K  Y  C  S  P  Q  K  *  Q  G  M  T  Y  T  P  F  Q  L  S  Q  T  H  P  Q  E  *  R  H  E  *  A  C  Q  A  N  H  N  I  N  Q  D  Q  *  Q  M  R  K  I  H  M  K  M  W  I  Q  D  Q  I  I  Q  K  P  C  N  H </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="C03HBa0041A13.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="32573" stop="32764"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>192</number_coding_nucleotides>
                  <number_encoded_amino_acids>64</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>VLLPTKVTRHDLYTFSTITDSPTGVETRIGMSSKSQYKSRPVANEEDTYENVDPGSNNTEAMQS</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="44890" PGL_stop="44219"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="44890" e_stop="44219"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.923"/>
        </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="0.923">
            <gDNA_exon_boundary e_start="44890" e_stop="44219" e_length="672"/>
          </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="44890" stop="44219"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U590594" 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>GAGATGATTAACCAAGGTTCTTACTTATCTTAGCGGGCTATCTGATCAGGGCCAGAGCCCTCCAGTGTTTTCTGCACCAGCACCTCAGGTTCCGGGAGTACAACGTGCAGCTGCTATGGCTCCCCGCATGGATGCCTCATTGGAAGTAGGCACGTTTCCTCGATTAACTATAGGGCATCTAATGACAAGTGATCAGCATGAACTTTTCACTAAATTCTTGAAGTTGAAACCTCCAGTCTTCAAGGGTGCTGAATCTGAGGATGCCTATGATTTTCTGGTTGATTTTCATGAGCTGCTACATAAGATGGACATAGTAGAACGATTCGGGGTTGAGTTTGTGACCTATCAGTTTTAGGGAAATGCCAAAATGTGGTGGCGGTCGTATGTTGAGTGTCAAACAGCACAGGCACCACCTATGACTTGGGCATCATTCTATATCTTATTTATGGAAAAATATATACCCCGGACGTTGAGGGATAGGAGGAGATATAAGTTCCTGAGTCTAGAGCAAGGCAGGATGTCTGTTACTGCTTATGAGGCTAAATTTCGTGCACTATCCAAGTATGCCACCCTGCTTTGCTTCAGTCCACAAGAGTGTATTTGCCGTTTTATGAAAGGATTGTGGTCAGATTTGCAGATCCCAGCCTTACAACTAGCTGTTGCAGCAAATTC</gDNA_template>
            <first_frame> E  M  I  N  Q  G  S  Y  L  S  *  R  A  I  *  S  G  P  E  P  S  S  V  F  C  T  S  T  S  G  S  G  S  T  T  C  S  C  Y  G  S  P  H  G  C  L  I  G  S  R  H  V  S  S  I  N  Y  R  A  S  N  D  K  *  S  A  *  T  F  H  *  I  L  E  V  E  T  S  S  L  Q  G  C  *  I  *  G  C  L  *  F  S  G  *  F  S  *  A  A  T  *  D  G  H  S  R  T  I  R  G  *  V  C  D  L  S  V  L  G  K  C  Q  N  V  V  A  V  V  C  *  V  S  N  S  T  G  T  T  Y  D  L  G  I  I  L  Y  L  I  Y  G  K  I  Y  T  P  D  V  E  G  *  E  E  I  *  V  P  E  S  R  A  R  Q  D  V  C  Y  C  L  *  G  *  I  S  C  T  I  Q  V  C  H  P  A  L  L  Q  S  T  R  V  Y  L  P  F  Y  E  R  I  V  V  R  F  A  D  P  S  L  T  T  S  C  C  S  K  F </first_frame>
            <second_frame>  R  *  L  T  K  V  L  T  Y  L  S  G  L  S  D  Q  G  Q  S  P  P  V  F  S  A  P  A  P  Q  V  P  G  V  Q  R  A  A  A  M  A  P  R  M  D  A  S  L  E  V  G  T  F  P  R  L  T  I  G  H  L  M  T  S  D  Q  H  E  L  F  T  K  F  L  K  L  K  P  P  V  F  K  G  A  E  S  E  D  A  Y  D  F  L  V  D  F  H  E  L  L  H  K  M  D  I  V  E  R  F  G  V  E  F  V  T  Y  Q  F  *  G  N  A  K  M  W  W  R  S  Y  V  E  C  Q  T  A  Q  A  P  P  M  T  W  A  S  F  Y  I  L  F  M  E  K  Y  I  P  R  T  L  R  D  R  R  R  Y  K  F  L  S  L  E  Q  G  R  M  S  V  T  A  Y  E  A  K  F  R  A  L  S  K  Y  A  T  L  L  C  F  S  P  Q  E  C  I  C  R  F  M  K  G  L  W  S  D  L  Q  I  P  A  L  Q  L  A  V  A  A  N   </second_frame>
            <third_frame>   D  D  *  P  R  F  L  L  I  L  A  G  Y  L  I  R  A  R  A  L  Q  C  F  L  H  Q  H  L  R  F  R  E  Y  N  V  Q  L  L  W  L  P  A  W  M  P  H  W  K  *  A  R  F  L  D  *  L  *  G  I  *  *  Q  V  I  S  M  N  F  S  L  N  S  *  S  *  N  L  Q  S  S  R  V  L  N  L  R  M  P  M  I  F  W  L  I  F  M  S  C  Y  I  R  W  T  *  *  N  D  S  G  L  S  L  *  P  I  S  F  R  E  M  P  K  C  G  G  G  R  M  L  S  V  K  Q  H  R  H  H  L  *  L  G  H  H  S  I  S  Y  L  W  K  N  I  Y  P  G  R  *  G  I  G  G  D  I  S  S  *  V  *  S  K  A  G  C  L  L  L  L  M  R  L  N  F  V  H  Y  P  S  M  P  P  C  F  A  S  V  H  K  S  V  F  A  V  L  *  K  D  C  G  Q  I  C  R  S  Q  P  Y  N  *  L  L  Q  Q  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="C03HBa0041A13.1" strand="-"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="44883" stop="44536"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>345</number_coding_nucleotides>
                  <number_encoded_amino_acids>115</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LTKVLTYLSGLSDQGQSPPVFSAPAPQVPGVQRAAAMAPRMDASLEVGTFPRLTIGHLMTSDQHELFTKFLKLKPPVFKGAESEDAYDFLVDFHELLHKMDIVERFGVEFVTYQF*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0041A13.1" strand="-"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="44535" stop="44221"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>315</number_coding_nucleotides>
                  <number_encoded_amino_acids>105</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>GNAKMWWRSYVECQTAQAPPMTWASFYILFMEKYIPRTLRDRRRYKFLSLEQGRMSVTAYEAKFRALSKYATLLCFSPQECICRFMKGLWSDLQIPALQLAVAAN</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="4" PGL_strand="-" PGL_start="58787" PGL_stop="58462"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="58787" e_stop="58462"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.908"/>
        </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="0.908">
            <gDNA_exon_boundary e_start="58787" e_stop="58462" e_length="326"/>
          </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="58787" stop="58462"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U591718" 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>CGCCTCTGTCCCAGGCTTGGCCAACGTTAGAGTTTTAGCATTACAATATAAGATTGCGTAATTCGAAGAAAGCCAAGTCATACCCAGAATTACATCGAAGTCAACCATTTCTAAGATAACCAACTCTACATGAGTATTGCTCTCCATAAAAGTCACAGGACAAGACCTATACACCTTTTTAACTATCACTGACTCACCCACCGGAGTAGAAACACGAATAGGCATGTCAAGCAATTCACAATGTAAATTAAGACCAGTAGCAAATGAGGAAGATACATATGAAAATGTGGATCCAGGATCAAACAATACAAAAGCCATGCAATCAC</gDNA_template>
            <first_frame> R  L  C  P  R  L  G  Q  R  *  S  F  S  I  T  I  *  D  C  V  I  R  R  K  P  S  H  T  Q  N  Y  I  E  V  N  H  F  *  D  N  Q  L  Y  M  S  I  A  L  H  K  S  H  R  T  R  P  I  H  L  F  N  Y  H  *  L  T  H  R  S  R  N  T  N  R  H  V  K  Q  F  T  M  *  I  K  T  S  S  K  *  G  R  Y  I  *  K  C  G  S  R  I  K  Q  Y  K  S  H  A  I   </first_frame>
            <second_frame>  A  S  V  P  G  L  A  N  V  R  V  L  A  L  Q  Y  K  I  A  *  F  E  E  S  Q  V  I  P  R  I  T  S  K  S  T  I  S  K  I  T  N  S  T  *  V  L  L  S  I  K  V  T  G  Q  D  L  Y  T  F  L  T  I  T  D  S  P  T  G  V  E  T  R  I  G  M  S  S  N  S  Q  C  K  L  R  P  V  A  N  E  E  D  T  Y  E  N  V  D  P  G  S  N  N  T  K  A  M  Q  S  </second_frame>
            <third_frame>   P  L  S  Q  A  W  P  T  L  E  F  *  H  Y  N  I  R  L  R  N  S  K  K  A  K  S  Y  P  E  L  H  R  S  Q  P  F  L  R  *  P  T  L  H  E  Y  C  S  P  *  K  S  Q  D  K  T  Y  T  P  F  *  L  S  L  T  H  P  P  E  *  K  H  E  *  A  C  Q  A  I  H  N  V  N  *  D  Q  *  Q  M  R  K  I  H  M  K  M  W  I  Q  D  Q  T  I  Q  K  P  C  N  H </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="C03HBa0041A13.1" strand="-"/>
                <serials PGL_serial="4" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="58654" stop="58463"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>192</number_coding_nucleotides>
                  <number_encoded_amino_acids>64</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>VLLSIKVTGQDLYTFLTITDSPTGVETRIGMSSNSQCKLRPVANEEDTYENVDPGSNNTKAMQS</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="61042" PGL_stop="60552"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="61042" e_stop="60552"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.904"/>
        </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="61042" e_stop="60552" e_length="491"/>
          </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="61042" stop="60552"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U575264" 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>ACCTAATTCAGCATGCAATGTTCTCCAAAACTTAGAAGTAAACTGCGTACCTCTATCTGATATGATGGAAAGTGGAACTCCATGCAATCGAACAATTTCTGAGATGTAGAGTCTGGCTAACTTCTCTACATTGTAGGTCACCTTGACCGGGATGAAGTGAGCAGACTTAGTTAGTCTGTCAACAATTACCCAAATAGAGTCAAACTTCCCCAATGTCTTTGGAAGACCAACCACGAAGTCCATTGCAATTCTCTCCCACTTCCATTCAGGAATGGGCATTCACTGAAGTGTTCCTCCGAGCCTCTGGTGTTCATACTTTACTTGCTTACAATTTGGACATTTGGCAACAAAATCAACAATGTCGCGCTTCATTCTACTCCACCAAAAGTGTTGCTTTAGGTCACGGTACATCTTGGTTGCACCAGGATGTATAGAATATCCGGAGCTGTGAGCCTCTGTAAGAATAGTGTTGATCAAATCATCAACACGGG</gDNA_template>
            <first_frame> T  *  F  S  M  Q  C  S  P  K  L  R  S  K  L  R  T  S  I  *  Y  D  G  K  W  N  S  M  Q  S  N  N  F  *  D  V  E  S  G  *  L  L  Y  I  V  G  H  L  D  R  D  E  V  S  R  L  S  *  S  V  N  N  Y  P  N  R  V  K  L  P  Q  C  L  W  K  T  N  H  E  V  H  C  N  S  L  P  L  P  F  R  N  G  H  S  L  K  C  S  S  E  P  L  V  F  I  L  Y  L  L  T  I  W  T  F  G  N  K  I  N  N  V  A  L  H  S  T  P  P  K  V  L  L  *  V  T  V  H  L  G  C  T  R  M  Y  R  I  S  G  A  V  S  L  C  K  N  S  V  D  Q  I  I  N  T   </first_frame>
            <second_frame>  P  N  S  A  C  N  V  L  Q  N  L  E  V  N  C  V  P  L  S  D  M  M  E  S  G  T  P  C  N  R  T  I  S  E  M  *  S  L  A  N  F  S  T  L  *  V  T  L  T  G  M  K  *  A  D  L  V  S  L  S  T  I  T  Q  I  E  S  N  F  P  N  V  F  G  R  P  T  T  K  S  I  A  I  L  S  H  F  H  S  G  M  G  I  H  *  S  V  P  P  S  L  W  C  S  Y  F  T  C  L  Q  F  G  H  L  A  T  K  S  T  M  S  R  F  I  L  L  H  Q  K  C  C  F  R  S  R  Y  I  L  V  A  P  G  C  I  E  Y  P  E  L  *  A  S  V  R  I  V  L  I  K  S  S  T  R  </second_frame>
            <third_frame>   L  I  Q  H  A  M  F  S  K  T  *  K  *  T  A  Y  L  Y  L  I  *  W  K  V  E  L  H  A  I  E  Q  F  L  R  C  R  V  W  L  T  S  L  H  C  R  S  P  *  P  G  *  S  E  Q  T  *  L  V  C  Q  Q  L  P  K  *  S  Q  T  S  P  M  S  L  E  D  Q  P  R  S  P  L  Q  F  S  P  T  S  I  Q  E  W  A  F  T  E  V  F  L  R  A  S  G  V  H  T  L  L  A  Y  N  L  D  I  W  Q  Q  N  Q  Q  C  R  A  S  F  Y  S  T  K  S  V  A  L  G  H  G  T  S  W  L  H  Q  D  V  *  N  I  R  S  C  E  P  L  *  E  *  C  *  S  N  H  Q  H  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="C03HBa0041A13.1" strand="-"/>
                <serials PGL_serial="5" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="60845" stop="60609"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>234</number_coding_nucleotides>
                  <number_encoded_amino_acids>78</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SQTSPMSLEDQPRSPLQFSPTSIQEWAFTEVFLRASGVHTLLAYNLDIWQQNQQCRASFYSTKSVALGHGTSWLHQDV*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C03HBa0041A13.1" strand="-"/>
                <serials PGL_serial="5" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="60868" stop="60644"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>222</number_coding_nucleotides>
                  <number_encoded_amino_acids>74</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SVNNYPNRVKLPQCLWKTNHEVHCNSLPLPFRNGHSLKCSSEPLVFILYLLTIWTFGNKINNVALHSTPPKVLL*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 133 chains have been computed
$ 
$ memory statistics:
$ 13504 bytes spliced alignments in total
$ 6 spliced alignments have been stored
$ 2250 bytes was the average size of a spliced alignment
$ 10352 bytes predicted gene locations in total
$ 5 predicted gene locations have been stored
$ 2070 bytes was the average size of a predicted gene location
$ 3 megabytes was the average size of the backtrace matrix
$ 172 backtrace matrices have been allocated
$ 
$ date finished: 2009-12-01 01:42:34
-->
