<?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 06:02:45"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C00HBa0198I15-ZLEof/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C00HBa0198I15-ZLEof/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" 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-C00HBa0198I15-ZLEof/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="T0506" ref_strand="+" ref_description="T0506">
      <seq>gttggtgcagagaggaaaggaaggacttttgtggttagatctgatgggggtttgagctatggtttgaatggacgtggaggaagagctgaacaattaattactaatgctgttgctactaaagaagatactgctgcagcttctacttcatcaaagccagggcatgaactattgctctttgaggccctccgtgaaggtcttgaagaagaaatggacagggatcccgctgtttgtgtaatgggtgaagatgtcggtcattatggaggttcgtacaaggtgactaaaggccttgccccaaaatatggtgatctcagggttcttgacactcccattgctgagaactctttcactggtatgggcattggagctgcaatgaccggtttgcgtccagttattgagggaatgaacatgggatttcttcttctagcctttaatcaaatatctaacaactgcggtatgctccactacacatctggtggccagtttaagataccagtcgtcatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0198I15-ZLEof/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C00HBa0198I15.2" temp_strand="-" temp_description="C00HBa0198I15.2  CU313315.6 htgs_phase:3 submitted_to_sgn_as:C04HBa0198I15 sequenced_by:sanger upload_account_name:uk">
        <position start="37930" stop="29363"/>
      </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="37637" g_stop="37522" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="114" r_length="114" r_score="0.897"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="37521" i_stop="37387" i_length="135">
            <donor d_prob="0.998" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="0.89"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="37386" g_stop="37343" g_length="44"/>
          <reference_exon_boundary r_type="cDNA" r_start="115" r_stop="158" r_length="44" r_score="0.886"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="37342" i_stop="30006" i_length="7337">
            <donor d_prob="1.000" d_score="0.89"/>
            <acceptor a_prob="0.985" a_score="0.90"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="30005" g_stop="29663" g_length="343"/>
          <reference_exon_boundary r_type="cDNA" r_start="159" r_stop="501" r_length="343" r_score="0.950"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0198I15.2" gen_strand="-" ref_id="T0506" ref_strand="+">
        <total_alignment_score>0.937</total_alignment_score>
        <cumulative_length_of_scored_exons>503</cumulative_length_of_scored_exons>
        <coverage percentage="1.004" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0198I15.2" gen_strand="-"/>
        <rDNA rDNA_id="T0506" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="37637" e_stop="37522"/>
          <exon e_start="37386" e_stop="37343"/>
          <exon e_start="30005" e_stop="29663"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTGGTTTGCAGAGAGGAAAGGAAGGTTATTTGTGGCTAGATCTGATGGGCGTTTAAGCAGTGGTTTGAATGGACGTGGAGGAAGAGCTGAACAATTAATCACTAATGCTGTTGCTGTTAGTATTCTTTACTCTCTCATTATAATTGTGACGCATATGATTGATTATTTACTAGTAGAAATGTGCTTAAATTAGCAAATTTTGTTTTCTTTTAGACTTTGAGATTTGGTGTTGCATGTAATTCTTTTACAGGCAAAAGAAGATGCTGCTGCAGCTTCTACTTCATTCAAGCCAGGGTATATTTACTACTTCTCTAAGTTGTACTTGCATATCTTGACAGTTTAAATTGCTTCCTTCTGGTTGCCACTTCATTTGTCTCTCCTTATCTGAAACTTTATGTACGCGTGGTGGCTTGTCAGCAGGTGAGATTAGTTTTTTTCTTTAAAAATATCTTGATTAAGTTGGGCAAGGTTACATTCTTGTCTTGTAAAGAGGTTGGCTGGTAGGATTATGGTTTTCTTTTATTGTATGATTAAATTCAGCTGCTAATCTCGATGGTGTTGTCAAAGGAAATAGAGAAGTCAATAGAAGTTGCTGTTTTGCTTCAGATTATGCTAATTCATCCTGTGATAAACATGTCTAGTTCTCCTCCTTGTTCTGAATTTTGATAGCAGAAACAAAAGAAAGAGTGATGGTGGGAGTGATGTGTTCTTTTTTGTTTGGATTAGTACTGGCGTACTGGGGATATAAATAAAAAAGAAAAGAAAAGAAAGAAAGAAAGGATGGGCTACATAGTGAACAAAAGTTCAACCCCTCTTACCAACCAAAAGTAGGCTTACATAGAGAAATTCATTTTTAGTATATCTTATATTTAAGCTACACAGGTCTCCCGTAGACTTGAAAAAACGAGTTACTCTTTTTTCACTTTCTTCTTCTGGTACTTCCAATTATTAATTTATTATTTGCTCAAAAATTTTGAAGGTTCTTATTTGTTGTAATTTTTTGCTATGTTTATGGTCAAAAGAAATGATTTCCATAGCCATTCCAATAATACTTCTTTTGATAAGTATATAATTAAACTTTTTTCGAGTCATATCGTTTGGTGTTGGGGATGGGATATATATCTATATATGTATGAGAAAACTTATCCCATCGTTGCTGTATAAATGGTAGGATAAATAATTCCAAAGACTAATTAATATCCCTAACAAAAAGAATGATAAAATAGCCTTGTTGTTTATCCTGGGATTATTATCATCTATCCCTCATACCAAGTGACCCGTAAGAGATTACAATGACAACATACCCAGTGTAATTCCACAAGTGGGTCTGGGAGGGCAAATGTACGCATACCTTCTCTCTATCTTTTAGTAGAGAGGTTGTTTCCAATAGACTCTCGACTCAAAAGTAGTGTCATTAAAGCATGATATAAAAGAAAATAACCACTGCAAAATAGCAAGATAAATGAAACACATGAAGTAATATGTAGTAGAAAAAATGGAGAATAAGAACTATGCAAATACTAGATGTGATTACTAATTAAGGAGAGGATGAGTCGAGGAGATTAACCCTCGAGATTAACCCTCCAACCAAACTCTCACATTTCCTCTTCACCTGTCTGAACCACCTCTGTCTCACTTCTCTAATCTTATCCTTCACGGAGGCCACTTTCGCCTTGTCCTGTGTATATTCATTCCTAATCTCATCTCTCCTAGTATGCCTGCATATCCATTTGGGCATCCTCATTTATGCTATCTTCATCTTCTGTATGTGTGCATTCTTGACTGGCCAACCCTTTACCTCGCACTACAGTCTAGGTTTAACTATCACTCAGTAGAACTTACCTTTTTAAGTCTTGGTGAAACATTTTGTCACACAGTACTCTGGATACAAGTGCCCATTTCATTGTTAATCTTCCCATTTCCTTGGATTATAGACCCAATATACTTGAAACTCTCCCTTGGGTATGACTTGTCTATCAATCTTCACTTCCATCCCCTCCTCCACTATAGGCATTGTGTGATTGAACTTGCAGTCCAGGTCCATTGGCGTAGCCACATGGTTGTATACCCTTCGTTGGAAAAAAAAATATCGTACATAGTACATACAAGTAAGTATATACAAGAAAATGATACATGAAATGATTAAATAACATTTTTTGGACACCCTTGAGATAACATGCTGTTAATGCCCAGTATTTTCACCTCCTTTGAATGGGGAAGTGTTCGTGTGTTCGAATCTCACTAGTTCTACTTTTTGAAACGAGCTTTTGTTGTGCTATTTCTGGACACCCTTCTGGTTCCGCCACTGCCAGTTACTCTATTTTAATCCTACGTTTGCTTAACCTGAAACCTTTAGATTCTAGGGTCTGTTTGCCAAACTACTCTATCATTAACTCCACCACGCGTCTCATAGATATCAATACAGATCGATACTATGTCATTTGCGAATAACATACATCAAGATGCCACCCCTTAAATACGCCACGTCAATTCGTCCATCACTTTGGTTAAAAGAATTGCGATGTATGATTGAAGTGCCCAACAAAATAATGTACACCACATGCTAGCCTGGACTTCGGATTTAGAGGTTGTGATAGGTGGAGTTTTCTAAGTTAAGTCATACACTCACTATATATTTGTGAGGGAGGACTCTGACTTTCCACACTTATCAACCTGAAATCCTAGGAAGGAAAGATGTGTTTCTCTTCTTGCCTAGAAACAAGAGAGGTAATGTTTGACATCTGAAGATCCAAGGCAGAAAAGATTGTCTGTCAATTTGTGTTTGTCAAGAAGATGTGGACCATCTCCTATTGCAGTGTGCTGCTGCTACTAGTTGTAGTTAATGGTTGTGAACTGGTCCAAAATGCCATGGACAACGTTGGGCACATCAATGAATTTGTTGTGCAACTAGACTTTCAGAAGAAGGATGGGAAGACATAGGCATGGTGCACCTTTAGCCCTAGTGTGAGTTCTTTAGAAGGAGAGCAATCAGAGAGCGCTTATAGACTGATTTGACTATCCAACTCTAAGAGATTGACTATCCAAAAAGATAAAAAATAAACCTAAGATGTTGCTGCGAGCCTGCAACTATACAACTATTTTACGAAGATTAATTCGTATTTCTAGCTTGTAAGTATCTGACGGAATTTTAGAGTGTCCTTATCATTTATTTTATTTCATATACACTAGACACAGAGGCGAATCGATGATTTCGAGTCTCTTGGTGCCAAGTAGGTTAATCAGTTAAATTAATTTTAGGCTTCAATCGAATTATTCATCTTTCCGGTCTATGAAATATGAACAATAATGAGATGACAATTTTTGTATTATATATACTACAAATTCTTTAAGCATGGGTCATGCTAATCTTCTCCGCATTATTTCAATTTTATTAGATGTCTCCAACAAAGCAAAAGTTTATCATTTTAATTTTAGATGCTCTTGTTGAAAGTCGAATTCAAGATCGACAACGGAAGATTTTTTTTCTCACTTATATTTGGGAAAAATCACTTTAGCTCAATTGTTTGACTATTTGAACTCTCACCTTACCATTTTCCCTTCCCTTCCCTACCTCCATATAAAAATACAAATTTTCACCCCACATTTGATTGAGATCATAAAGTAAAGAAAGTTAAAACTTTCAATTATACTATAAATATCATAAATATTCATCCTTCATTTATAATTGTACTCGACAAGTTTTTACATTTTGAAAACGATCAATGACAATATCAATGCGTATATTTATAAATGGATCACGTTTTATGTAACACGCTAGTCCAATATACTTATAAATTACTACTCCATATTAAAACAACTATTAGAAACAAACAAAAAAAATAATGTGTCGCTATCATATTAAGGAAGCAAGTTAAAATTGCAAAGGGCCGTCAGCGAGCAAGTTAAAGTTGCAAATTAAAAAACTCCTAGGGCCTCAGCGAGATTCGACCTCGCGATCTCCGTATTAGAATATGACCCTTAGCCAGCCACGCCACAAGGACTTTTGGTTCCCTGGGTGGCACGTTTAATATTTGTAATTATATTGTCGATATATACCTATATATATTAGAGTTTCCGTCGAAGCCCGTGGGAGGTGTATCACCCCCACGAACCTTAGTAGATCCACCCCTGACTAGACAGCTACCATAAGGGCACAACTATATTGAATTCTTAAAATGCATTGTACCTTGCACTCCATTTTACTGCTTGCTGCTTGGATCTTGTCATGTGACTGGCTCACAAAAAGAAGAGAAAGAATGCAACTATAGGATCTCAGAGAGAAACACCTGAGACCAACATAAAATGTGTCTCACTTTTGGGATCTCATCGTCTCCTATTCTTAATGATAAAACAAATTCTCTTCAACTTTATATGGATTCATAGAGGCCCTTGCTAATAGTGTTTGTCAACCCTTGTTTATTTTAGATCCTTACTTAAAGGCCAAGTTATTGCCTTTTTGTTTTATTTGTAACTTCTTACCGAGCTATAACTCCAACACAAATCTACTTTTACGTATGGGGATGTAGGTCAATAACACTTTGTTAGTGTTACCCTAATTTATTTTAGATCTGTACTTAAAGGCCAACTTATTGCCTACTTGTTTTATTTGTTCGAGATTTTACAGTATGTACATAATGCACATACATAAATGAACTATAAGACAATATGTATTATTGTACTTGTACACATCATATGTGTAGTGATTGTTATGTGTACTTGCAATAAAATTGTGCCCAAGTATTTCTTGTCTTGATGTGACTTCATTTTTATGCAAGCTTTTTCTAATATCTAGTAATTCTTGTAGAAATGGCAATTGAGGTTTTGTACTCCTAAAGTTGACACAAAATAGAAAACAAAAAACCGCAAGAACTTCCATTAGTCTTATCTCTTTTTTTGTGTGTAGCATACCTCTAAGAAAGAAACTCATCTATTCCAATTCAAATATGATGATTCACCATTGTTGGTCGATGGAGTTTGGCCTTGTCATGTAGGTGAATTACCTGATTTACACGTCAACACCATATCAGTTCAATTTGGGTCAAAGACATTTAGGAATTATAACAACATAAAGCAAAATGGCGAGTTGATCATCCATATGGAAGATGTACTCAGAAGTATCATTAAGAAAGGTGCTTTGAGATATGCTTTCTTGGTGTAATGTAAAATAGAGATTTATGATATGATGGAGGCCTCTGTTCCTTTTACCAATGATGCTGAGCTGAAATCAAATACTTTTTGCAGTTCTGTGAAGAAGTGTTTACCAATTATTTGATCTGAAAGGGGGGACCAAGCAGTTTTGTATACTGCTACAAATGGTTAGGGTTAGTGCTGAGCCTTGAAAAGTTTGGTGCCACTGTATGTGTATGAGATGAAGCTAGCGTTTGGCCATAAGATATGTGTATGAGATGAAGCTAGCGTTTGGCCATAAGATTTCCACATATTTTGACATATTATTTGGGTCAAAATTTGGGTGAAATTTCAACATGTGTTTGACCATTGTTTTTGGGAAACATATTTAACTTTTTTAGGAGATATGATTTATACCCATATCAAAACTAACCATAGGTTTGTAGTACAAATAAATTGGATCTTTGTTCCAACAAATAACAAGTAGTGTCCAGGACATTAGAGCAATATGGTAGTTCAGAGTGAGTTAGTTCAACAAGTATCATTCCATACATTGTGAAGTAGACAGAGCACATGACATTATTACCCTTAGCCGATTGTTCATCATTTCATCAATAGTCATATCATTACTTTCATATTCACGGAATATTCTATCACTGCTTGGGTGTTTACGGAAAAATTATGTAAATATAGCGCAACAACTACTGTAGAGGGTGTTTTTGTAAACGATAAAGTTTGGTATAGAATTTAAATTTTTAAAAGATTCCAAATAATGAGATTTGACCCAATACTAGTTTTTTCTAGTATTTGGGAATTTGGGTTATTTGCCAAATAATGACAAATTGTATGGACAAACACTATTTGCCAAATTTGCCCCCAAATTTTACATGGGAAATCTATGGCCAAATGGGTCAGAAGAGTGCTCTCTGAGATGGGAACTAGAGCAGTAACTAAGCCTGGGGCATGGGTGTTGCTTTGGTACTTCCGTCAGTGAATGTTCTCTTTGTATGGGAGAATATGCTAAGCGGAAAAATAGAAATGTCCGAATGGGGCATGCAAACACACTAGAACAAGTATGCTGCTAGGAGGAACAAAAGAAGCATATGAATCAGAACTTTACCTTTGAATCAGGGCAGTTATTGTAGAAACACAATTATGTGATAGTTGTGGAGAACTAAAATTCATTGTTTGAAAAACAATGGGCTCAGGGCTGAACCAAAGGTTTGTGTTTATAAGTCTATTGACTGAAGTTAGAATTCCATTAGTGTATGACAGAGTTAACAAAATAAGCATAGGAATCAGAACTTTACCTTTGAATCACGGCAGTTAATGTAGAAACACAATTATGTGATAGTTGTGGAGAACAAAAATTTATTATTTGGAAACAATGAGCTGAACCAAAGGTATGTCTATTAACTGAAGTTAGAATTCCATGAGTGTATGACAGAGGAAAAGTTACCCTGTGAGTGTCGTGATCTATGTTCATACAATAACTGGTTAAGCAATCTTAATTTTTACCATCAGAGGTCCCTCTGAAGATTGTCATCGATGTCTTTACTCTTGTCGAGCGGAGTTGTTCAGAAGGAAGGCTTACATCTTATATAGGGAATTTGGCTCCCTTTCATACTTCAACTCTTTGGAACTTTGATATTTTCTTTCTGCTTTATCGGATTTTGAGGTTCTAATTACATTGAATTATTTGGGCCACCAGAAGCTAGTAGAGAGCTCATATAGTTCTGATGGCAGTCATAACAATTATTATCTTTGGATGTAAATGAGTTACCTTTGCTTCTTTGATGGGGTCTTCCTAATTAATGGGGATGATTATGTTCATGTTCAAAAGAATTTTCTGTGATTGTGCTTGTTTAATCATTAAACTTTAGCGTCAACCACTTGCTACTGCACTGCCCTGTTGCTTCAGACCTCTGGAATATGTTATGTTGTTTTTTTGGTCTATCCTGGGTCAGGGATGCCTTAGAAAGTTGGAGTTCACGGTAAGTTGACAACGCAATCAAGTGTATGTCGATGATGATCCCTGGTACTCTCTTTTGGTATTTATGGAAAGTGGAACAGAAGATGTTTTGATGGAATTTCCACTTCTAGAAATCTTTTGCGAGGCAGATGTCTAGTTAGCCTTTTTAGCTGTCCAAATTGACCCATGTAAATAATTTAGACCTATTCTTGGATTTTGTTAGCTCTATAGTTTAAAAAGAGGCTACAAATCCTTTTTTGTGAGCTTAACTGCTCTCTCCTTGTAATGCTAGCATCTTGTTGATGCCTTAAAAAGAATCTATCTTACTTCACAAAAAAGAAAGCATTAAACTTGCATCATTGAATAGATCTCTGTTGGCTGGTTGGATATACACCTTTATTCAATTTTTTAATCGTCGATCACGGTGTGAACTATATTAATTACTGCCCAACTGCTCGCGTGCTGATTGTACTTTATCCAGCTTGCTTATTACTTGATCTCACCAGTTGTTTGATTGAATGTACATCTTTAGGCATGAACTGTTGCTCTTTGAGGCCCTCCGCGAAGGCCTGGAAGAAGAGATGGACAGAGATCCCACTGTTTGTGTAATGGGTGAAGATGTCGGTCATTACGGAGGTTCGTACAAGGTGACTAAAGGCCTTGCCCCAAAATATGGTGATCTCAGGGTTCTTGATACTCCTATTGCTGAGAACTCTTTCACTGGTATGGGCATTGGAGCTGCAATGACTGGCTTGCGTCCAGTTATTGAGGGAATGAACATGGGATTTCTTCTTCTGGCCTTCAACCAGATATCTAACAACTGCGGTATGCTCCACTACACATCTGGTGGCCAGTTTAAGATACCAGTTGTCATC</genome_strand>
        <mrna_strand>GTTGG--TGCAGAGAGGAAAGGAAGGACTTTTGTGGTTAGATCTGATGGGGGTTTGAGCTATGGTTTGAATGGACGTGGAGGAAGAGCTGAACAATTAATTACTAATGCTGTTGCT.......................................................................................................................................ACTAAAGAAGATACTGCTGCAGCTTCTACTTCATCAAAGCCAGG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCATGAACTATTGCTCTTTGAGGCCCTCCGTGAAGGTCTTGAAGAAGAAATGGACAGGGATCCCGCTGTTTGTGTAATGGGTGAAGATGTCGGTCATTATGGAGGTTCGTACAAGGTGACTAAAGGCCTTGCCCCAAAATATGGTGATCTCAGGGTTCTTGACACTCCCATTGCTGAGAACTCTTTCACTGGTATGGGCATTGGAGCTGCAATGACCGGTTTGCGTCCAGTTATTGAGGGAATGAACATGGGATTTCTTCTTCTAGCCTTTAATCAAATATCTAACAACTGCGGTATGCTCCACTACACATCTGGTGGCCAGTTTAAGATACCAGTCGTCATC</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-C00HBa0198I15-ZLEof/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="SSR414" ref_strand="+" ref_description="SSR414">
      <seq>agagagagagagagagagagagagcgagagagagagagagagagagagagagagagaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0198I15-ZLEof/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C00HBa0198I15.2" temp_strand="-" temp_description="C00HBa0198I15.2  CU313315.6 htgs_phase:3 submitted_to_sgn_as:C04HBa0198I15 sequenced_by:sanger upload_account_name:uk">
        <position start="104761" stop="104105"/>
      </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="104463" g_stop="104404" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="60" r_length="60" r_score="0.933"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0198I15.2" gen_strand="-" ref_id="SSR414" ref_strand="+">
        <total_alignment_score>0.933</total_alignment_score>
        <cumulative_length_of_scored_exons>60</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0198I15.2" gen_strand="-"/>
        <rDNA rDNA_id="SSR414" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="104463" e_stop="104404"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAGAGAGAGAGAGAGAGAGAGAGAGAGAAAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG</genome_strand>
        <mrna_strand>AGAGAGAGAGAGAGAGAGAGAGAGCGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAAAA</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-C00HBa0198I15-ZLEof/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="SSR249" ref_strand="+" ref_description="SSR249">
      <seq>tctctctctctctctctctctctctctctctctctctctctctgtgtctctctctatctctctctatgtctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0198I15-ZLEof/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C00HBa0198I15.2" temp_strand="+" temp_description="C00HBa0198I15.2  CU313315.6 htgs_phase:3 submitted_to_sgn_as:C04HBa0198I15 sequenced_by:sanger upload_account_name:uk">
        <position start="104105" stop="104775"/>
      </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="104405" g_stop="104476" g_length="72"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="72" r_length="72" r_score="0.903"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0198I15.2" gen_strand="+" ref_id="SSR249" ref_strand="+">
        <total_alignment_score>0.903</total_alignment_score>
        <cumulative_length_of_scored_exons>72</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0198I15.2" gen_strand="+"/>
        <rDNA rDNA_id="SSR249" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="104405" e_stop="104476"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCTCTCTCTCTCTCTCTCTCTCTCTCTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTATATATA</genome_strand>
        <mrna_strand>TCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTGTCTCTCTCTATCTCTCTCTATGTCTC</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-C00HBa0198I15-ZLEof/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="SSR410" ref_strand="+" ref_description="SSR410">
      <seq>tctctctctctctctctctctctctctttctctctctctctctctctctctctctctctcgagccaaattatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0198I15-ZLEof/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C00HBa0198I15.2" temp_strand="+" temp_description="C00HBa0198I15.2  CU313315.6 htgs_phase:3 submitted_to_sgn_as:C04HBa0198I15 sequenced_by:sanger upload_account_name:uk">
        <position start="104107" stop="104766"/>
      </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="104407" g_stop="104475" g_length="69"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="69" r_length="69" r_score="0.913"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0198I15.2" gen_strand="+" ref_id="SSR410" ref_strand="+">
        <total_alignment_score>0.913</total_alignment_score>
        <cumulative_length_of_scored_exons>69</cumulative_length_of_scored_exons>
        <coverage percentage="0.945" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0198I15.2" gen_strand="+"/>
        <rDNA rDNA_id="SSR410" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="104407" e_stop="104475"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCTCTCTCTCTCTCTCTCTCTCTCTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTATATAT</genome_strand>
        <mrna_strand>TCTCTCTCTCTCTCTCTCTCTCTCTCTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCGAGCCAAAT</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-C00HBa0198I15-ZLEof/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="SSR415" ref_strand="+" ref_description="SSR415">
      <seq>ctctctctctctctctctctctctctttctctctctctctctctctctctctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0198I15-ZLEof/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C00HBa0198I15.2" temp_strand="+" temp_description="C00HBa0198I15.2  CU313315.6 htgs_phase:3 submitted_to_sgn_as:C04HBa0198I15 sequenced_by:sanger upload_account_name:uk">
        <position start="104108" stop="104760"/>
      </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="104408" g_stop="104460" g_length="53"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="53" r_length="53" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0198I15.2" gen_strand="+" ref_id="SSR415" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>53</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0198I15.2" gen_strand="+"/>
        <rDNA rDNA_id="SSR415" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="104408" e_stop="104460"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCTCTCTCTCTCTCTCTCTCTCTCTTTCTCTCTCTCTCTCTCTCTCTCTCTC</genome_strand>
        <mrna_strand>CTCTCTCTCTCTCTCTCTCTCTCTCTTTCTCTCTCTCTCTCTCTCTCTCTCTC</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-C00HBa0198I15-ZLEof/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="SSR512" ref_strand="+" ref_description="SSR512">
      <seq>tctctctctctctctctctctctgtctctctctctctctctctctctctcctcgcgcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0198I15-ZLEof/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C00HBa0198I15.2" temp_strand="+" temp_description="C00HBa0198I15.2  CU313315.6 htgs_phase:3 submitted_to_sgn_as:C04HBa0198I15 sequenced_by:sanger upload_account_name:uk">
        <position start="104111" stop="104768"/>
      </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="104411" g_stop="104469" g_length="59"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="58" r_length="58" r_score="0.915"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0198I15.2" gen_strand="+" ref_id="SSR512" ref_strand="+">
        <total_alignment_score>0.915</total_alignment_score>
        <cumulative_length_of_scored_exons>59</cumulative_length_of_scored_exons>
        <coverage percentage="1.017" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0198I15.2" gen_strand="+"/>
        <rDNA rDNA_id="SSR512" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="104411" e_stop="104469"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCTCTCTCTCTCTCTCTCTCTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCT</genome_strand>
        <mrna_strand>TCTCTCTCTCTCTCTCTCTCTCTGTCTCTCTCTCTCTCTCTCTCTCTCTC-CTCGCGCC</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-C00HBa0198I15-ZLEof/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="SSR416" ref_strand="+" ref_description="SSR416">
      <seq>ctctctctctctctctctctctctctctctctctctctctctctctctctctctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0198I15-ZLEof/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C00HBa0198I15.2" temp_strand="+" temp_description="C00HBa0198I15.2  CU313315.6 htgs_phase:3 submitted_to_sgn_as:C04HBa0198I15 sequenced_by:sanger upload_account_name:uk">
        <position start="104104" stop="104758"/>
      </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="104414" g_stop="104468" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="55" r_length="55" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0198I15.2" gen_strand="+" ref_id="SSR416" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>55</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0198I15.2" gen_strand="+"/>
        <rDNA rDNA_id="SSR416" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="104414" e_stop="104468"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCTCTCTCTCTCTCTCTCTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTC</genome_strand>
        <mrna_strand>CTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>7</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="37637" PGL_stop="29663"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="37637" e_stop="37522"/>
            <exon e_start="37386" e_stop="37343"/>
            <exon e_start="30005" e_stop="29663"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.998" acc_prob="1.000" e_score="0.897"/>
          <exon-intron don_prob="1.000" acc_prob="0.985" e_score="0.886"/>
          <exon-only e_score="0.950"/>
        </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="0.897">
            <gDNA_exon_boundary e_start="37637" e_stop="37522" e_length="116"/>
          </exon>
          <intron i_serial="1" don_prob="0.998" acc_prob="1.000">
            <gDNA_intron_boundary i_start="37521" i_stop="37387" i_length="135"/>
          </intron>
          <exon e_serial="2" e_score="0.886">
            <gDNA_exon_boundary e_start="37386" e_stop="37343" e_length="44"/>
          </exon>
          <intron i_serial="2" don_prob="1.000" acc_prob="0.985">
            <gDNA_intron_boundary i_start="37342" i_stop="30006" i_length="7337"/>
          </intron>
          <exon e_serial="3" e_score="0.950">
            <gDNA_exon_boundary e_start="30005" e_stop="29663" e_length="343"/>
          </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="37637" stop="37522"/>
              <exon start="37386" stop="37343"/>
              <exon start="30005" stop="29663"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="T0506" 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>ATTGGTTTGCAGAGAGGAAAGGAAGGTTATTTGTGGCTAGATCTGATGGGCGTTTAAGCAGTGGTTTGAATGGACGTGGAGGAAGAGCTGAACAATTAATCACTAATGCTGTTGCT : GCAAAAGAAGATGCTGCTGCAGCTTCTACTTCATTCAAGCCAGG : GCATGAACTGTTGCTCTTTGAGGCCCTCCGCGAAGGCCTGGAAGAAGAGATGGACAGAGATCCCACTGTTTGTGTAATGGGTGAAGATGTCGGTCATTACGGAGGTTCGTACAAGGTGACTAAAGGCCTTGCCCCAAAATATGGTGATCTCAGGGTTCTTGATACTCCTATTGCTGAGAACTCTTTCACTGGTATGGGCATTGGAGCTGCAATGACTGGCTTGCGTCCAGTTATTGAGGGAATGAACATGGGATTTCTTCTTCTGGCCTTCAACCAGATATCTAACAACTGCGGTATGCTCCACTACACATCTGGTGGCCAGTTTAAGATACCAGTTGTCATC</gDNA_template>
            <first_frame> I  G  L  Q  R  G  K  E  G  Y  L  W  L  D  L  M  G  V  *  A  V  V  *  M  D  V  E  E  E  L  N  N  *  S  L  M  L  L  L :   Q  K  K  M  L  L  Q  L  L  L  H  S  S  Q   : G  M  N  C  C  S  L  R  P  S  A  K  A  W  K  K  R  W  T  E  I  P  L  F  V  *  W  V  K  M  S  V  I  T  E  V  R  T  R  *  L  K  A  L  P  Q  N  M  V  I  S  G  F  L  I  L  L  L  L  R  T  L  S  L  V  W  A  L  E  L  Q  *  L  A  C  V  Q  L  L  R  E  *  T  W  D  F  F  F  W  P  S  T  R  Y  L  T  T  A  V  C  S  T  T  H  L  V  A  S  L  R  Y  Q  L  S   </first_frame>
            <second_frame>  L  V  C  R  E  E  R  K  V  I  C  G  *  I  *  W  A  F  K  Q  W  F  E  W  T  W  R  K  S  *  T  I  N  H  *  C  C  C   : C  K  R  R  C  C  C  S  F  Y  F  I  Q  A  R  :  A  *  T  V  A  L  *  G  P  P  R  R  P  G  R  R  D  G  Q  R  S  H  C  L  C  N  G  *  R  C  R  S  L  R  R  F  V  Q  G  D  *  R  P  C  P  K  I  W  *  S  Q  G  S  *  Y  S  Y  C  *  E  L  F  H  W  Y  G  H  W  S  C  N  D  W  L  A  S  S  Y  *  G  N  E  H  G  I  S  S  S  G  L  Q  P  D  I  *  Q  L  R  Y  A  P  L  H  I  W  W  P  V  *  D  T  S  C  H  </second_frame>
            <third_frame>   W  F  A  E  R  K  G  R  L  F  V  A  R  S  D  G  R  L  S  S  G  L  N  G  R  G  G  R  A  E  Q  L  I  T  N  A  V  A  :  A  K  E  D  A  A  A  A  S  T  S  F  K  P  G :   H  E  L  L  L  F  E  A  L  R  E  G  L  E  E  E  M  D  R  D  P  T  V  C  V  M  G  E  D  V  G  H  Y  G  G  S  Y  K  V  T  K  G  L  A  P  K  Y  G  D  L  R  V  L  D  T  P  I  A  E  N  S  F  T  G  M  G  I  G  A  A  M  T  G  L  R  P  V  I  E  G  M  N  M  G  F  L  L  L  A  F  N  Q  I  S  N  N  C  G  M  L  H  Y  T  S  G  G  Q  F  K  I  P  V  V  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="C00HBa0198I15.2" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="37635" stop="37522"/>
                    <exon start="37386" stop="37343"/>
                    <exon start="30005" stop="29663"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>501</number_coding_nucleotides>
                  <number_encoded_amino_acids>167</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>WFAERKGRLFVARSDGRLSSGLNGRGGRAEQLITNAVAAKEDAAAASTSFKPGHELLLFEALREGLEEEMDRDPTVCVMGEDVGHYGGSYKVTKGLAPKYGDLRVLDTPIAENSFTGMGIGAAMTGLRPVIEGMNMGFLLLAFNQISNNCGMLHYTSGGQFKIPVVI</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="104463" PGL_stop="104404"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="104463" e_stop="104404"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <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="0.933">
            <gDNA_exon_boundary e_start="104463" e_stop="104404" e_length="60"/>
          </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="104463" stop="104404"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SSR414" 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>AGAGAGAGAGAGAGAGAGAGAGAGAGAGAAAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG</gDNA_template>
            <first_frame> R  E  R  E  R  E  R  E  R  E  R  E  R  E  R  E  R  E  R  E </first_frame>
            <second_frame>  E  R  E  R  E  R  E  R  E  K  E  R  E  R  E  R  E  R  E   </second_frame>
            <third_frame>   R  E  R  E  R  E  R  E  R  K  R  E  R  E  R  E  R  E  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="C00HBa0198I15.2"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="3" PGL_strand="+" PGL_start="104405" PGL_stop="104476"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="104405" e_stop="104476"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <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="104405" e_stop="104476" e_length="72"/>
          </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="104405" stop="104476"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SSR249" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="104407" stop="104475"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SSR410" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="104408" stop="104460"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SSR415" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="104411" stop="104469"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SSR512" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="104414" stop="104468"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SSR416" 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>TCTCTCTCTCTCTCTCTCTCTCTCTCTCTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTATATATA</gDNA_template>
            <first_frame> S  L  S  L  S  L  S  L  S  L  S  L  S  L  S  L  S  L  S  L  S  L  Y  I </first_frame>
            <second_frame>  L  S  L  S  L  S  L  S  L  F  L  S  L  S  L  S  L  S  L  S  L  Y  I   </second_frame>
            <third_frame>   S  L  S  L  S  L  S  L  S  F  S  L  S  L  S  L  S  L  S  L  S  I  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/">
            <none gDNA_id="C00HBa0198I15.2"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 185 chains have been computed
$ 
$ memory statistics:
$ 14776 bytes spliced alignments in total
$ 7 spliced alignments have been stored
$ 2110 bytes was the average size of a spliced alignment
$ 7944 bytes predicted gene locations in total
$ 3 predicted gene locations have been stored
$ 2648 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 189 backtrace matrices have been allocated
$ 
$ date finished: 2009-12-01 06:02:52
-->
