<?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="2009-12-03 21:14:24"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C10HBa0155I21-b5ANO/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C10HBa0155I21-b5ANO/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-C10HBa0155I21-b5ANO/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="TG566-R" ref_strand="+" ref_description="TG566-R">
      <seq>ctgctcttgtcatcgcgaatgatacttgggaaagatgggagcttttataagtacattagtagtagtttttattgaaatgaagtagcagatcttggtagtacagtctctgacattcctatcagtgacattagttccaatggattttaatgtatcgttagtcggtattgaagtggtaggtacataagttggtatgcagtttttgtctttcctatcagcagcattagttcctttggttctagtatattcctttagtttttttgacataattatataacctcttttttttgctcgaaacgacaacaacccaaattatatattaaatggtttcatgagattatagtacagatctgacctggtcttggcaaaatgttaacattagcgatcctcagataataccacttctccgngattctttttttgttgtcttccttcatcttgcaacttcttcgacaaacttgggtccatcaattgctgatatttcaagaatgctggctaagttgaatcaagaaaagggaaagtggcatgagtagtgtaactcatgagagtgcaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C10HBa0155I21-b5ANO/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C10HBa0155I21.2" temp_strand="+" temp_description="C10HBa0155I21.2  AC233124.5 htgs_phase:1 submitted_to_sgn_as:C10HBa0155I21 upload_account_name:manual">
        <position start="60657" stop="61808"/>
      </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="60957" g_stop="61508" g_length="552"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="552" r_length="552" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C10HBa0155I21.2" gen_strand="+" ref_id="TG566-R" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>552</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C10HBa0155I21.2" gen_strand="+"/>
        <rDNA rDNA_id="TG566-R" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="60957" e_stop="61508"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGCTCTTGTCATCGCGAATGATACTTGGGTAAGATGGGAGCTTTTATAAGTACATTAGTAGTAGTTTTTATTGAAATGAAGTAGCAGATCTTGGTAGTACAGTCTCTGACATTCCTATCAGTGACATTAGTTCCAATGGATTTTAATGTATCGTTAGTCGGTATTGAAGTGGTAGGTACATAAGTTGGTATGCAGTTTTTGTCTTTCCTATCAGCAGCATTAGTTCCTTTGGTTCTAGTATATTCCTTTAGTTTTTTTGACATAATTATATAACCTCTTTTTTTTGCTCGAAACGACAACAACCCAAATTATATATTAAATGGTTTCATGAGATTATAGTACAGATCTGACCTGGTCTTGGCAAAATGTTAACATTAGCGATCCTCAGATAATACCACTTCTCCGTGATTCTTTTTTTGTTGTCTTCCTTCATCTTGCAACTTCTTCGACAAACTTGGGTCCATCAATTGCTGATATTTCAGGAATGCTGGCTAAGTTGAATCAGGAAAAGGGAAAGTGGCATGAGTAGTGTAACTCATGAGAGTGCAAAA</genome_strand>
        <mrna_strand>CTGCTCTTGTCATCGCGAATGATACTTGGGAAAGATGGGAGCTTTTATAAGTACATTAGTAGTAGTTTTTATTGAAATGAAGTAGCAGATCTTGGTAGTACAGTCTCTGACATTCCTATCAGTGACATTAGTTCCAATGGATTTTAATGTATCGTTAGTCGGTATTGAAGTGGTAGGTACATAAGTTGGTATGCAGTTTTTGTCTTTCCTATCAGCAGCATTAGTTCCTTTGGTTCTAGTATATTCCTTTAGTTTTTTTGACATAATTATATAACCTCTTTTTTTTGCTCGAAACGACAACAACCCAAATTATATATTAAATGGTTTCATGAGATTATAGTACAGATCTGACCTGGTCTTGGCAAAATGTTAACATTAGCGATCCTCAGATAATACCACTTCTCCGNGATTCTTTTTTTGTTGTCTTCCTTCATCTTGCAACTTCTTCGACAAACTTGGGTCCATCAATTGCTGATATTTCAAGAATGCTGGCTAAGTTGAATCAAGAAAAGGGAAAGTGGCATGAGTAGTGTAACTCATGAGAGTGCAAAA</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-C10HBa0155I21-b5ANO/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="TG566-F" ref_strand="+" ref_description="TG566-F">
      <seq>tatactacatgacaccaccaagttggtccaactggattttgccagtatggagctgcaacatctgctacagtgacatcatcttcctcatcactgagatcaacaggctgagaggcccaaccactatcaatctgcactgtttgaagcagctcagatattctagaccagcctattggtatccagtaattaccaggagacgtttctcgggaatgataaggatagtcttgatgataactttggctatctccattctcgatgtcaacatacgcagattctgttggataatgaggttctatgaagtgatccttgtcaacatcttggggtgagaaattacttgcaccatatttatataatggtggttttttagggtccctgacagcataatgttcagtagctctcgcgccatttgtcttcctttggccacggacaaattcaaaggcacaaagcaggccatctgtccatagctcactacccagcatgacatctctggacagttgctgtttatgattctctcggttcttcgtaccattgttcatttttgcactctcatgagttacactactcatgccactttccctttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C10HBa0155I21-b5ANO/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C10HBa0155I21.2" temp_strand="-" temp_description="C10HBa0155I21.2  AC233124.5 htgs_phase:1 submitted_to_sgn_as:C10HBa0155I21 upload_account_name:manual">
        <position start="62337" stop="61164"/>
      </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="62042" g_stop="61464" g_length="579"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="578" r_length="578" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C10HBa0155I21.2" gen_strand="-" ref_id="TG566-F" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>579</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C10HBa0155I21.2" gen_strand="-"/>
        <rDNA rDNA_id="TG566-F" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="62042" e_stop="61464"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCAGCTACATGACACCACCAAGTTGGTCCAACTGGATTTTGCCAGTATGGAGCTGCAACATCTGCTACAGTGACATCATCTTCCTCATCACTGAGATCAACAGGCTGAGAGGCCCAACCACTATCAATCTGCACTGTTTGAAGCAGCTCAGATATTCTAGACCAGCCTATTGGTATCCAGTAATTACCAGGAGACGTTTCTCGGGAATGATAAGGATAGTCTTGATGATAACTTTGGCTATCTCCATTCTCGATGTCAACATACGCAGATTCTGTTGGATAATGAGGTTCTATGAAGTGATCCTTGTCAACATCTTGGGGTGAGAAATTACTTGCACCATATTTATATAATGGTGGTTTTTTAGGGTCCCTGACAGCATAATGTTCAGTAGCTCTCGCGCCATTTGTCTTCCTTTGGCCACGGACAAATTCAAAGGCACAAAGCAGGCCATCTGTCCATAGCTCACTACCCAGCATGACATCTCTGGACAGTTGCTGTTTATGATTCTCTCGGTTCTTCGTACCATTGTTCATTTTTGCACTCTCATGAGTTACACTACTCATGCCACTTTCCCTTTT</genome_strand>
        <mrna_strand>TATA-CTACATGACACCACCAAGTTGGTCCAACTGGATTTTGCCAGTATGGAGCTGCAACATCTGCTACAGTGACATCATCTTCCTCATCACTGAGATCAACAGGCTGAGAGGCCCAACCACTATCAATCTGCACTGTTTGAAGCAGCTCAGATATTCTAGACCAGCCTATTGGTATCCAGTAATTACCAGGAGACGTTTCTCGGGAATGATAAGGATAGTCTTGATGATAACTTTGGCTATCTCCATTCTCGATGTCAACATACGCAGATTCTGTTGGATAATGAGGTTCTATGAAGTGATCCTTGTCAACATCTTGGGGTGAGAAATTACTTGCACCATATTTATATAATGGTGGTTTTTTAGGGTCCCTGACAGCATAATGTTCAGTAGCTCTCGCGCCATTTGTCTTCCTTTGGCCACGGACAAATTCAAAGGCACAAAGCAGGCCATCTGTCCATAGCTCACTACCCAGCATGACATCTCTGGACAGTTGCTGTTTATGATTCTCTCGGTTCTTCGTACCATTGTTCATTTTTGCACTCTCATGAGTTACACTACTCATGCCACTTTCCCTTTT</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-C10HBa0155I21-b5ANO/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="C2_At1g67930" ref_strand="+" ref_description="C2_At1g67930">
      <seq>ggagagttgaggggaactgtggatgggttagttagtaagtataaggcaatgggagtgaagagtataacgacggctttggatatgaaatctatatctgttggtggcggatttgggccgggaggggtgcagagaagtgggacaccacagtttgggggaagtgcaaaggcgaaggatgcattgtggcaaaggatgagtggttgtatggaccagttacattccattgtggttgctgtttggcatttgcagagggttttatcgaagaaaagagacccctttacgcatgtcttgctgcttgatgaggtcatgcaggaaggtgatccaatattgacagatcgtgtttgggaggcactgggtaaatcttttgcgaaccaaatgaagtccactttcagcacatcaagttttgttaaggagatattcactcttggatatccaaaactcttctctatgttagaaaacctgcttgaaagaatttcacgtgatacagatgtcaaaggagttccaccagctctcagttcagaagcaaaggaccaaatgttatcttccattgaaatattccagactgctttcctaaccctctgtctgagccgtctttcagaacttgttaatactgtatttccagtgtccagtcgtggaactgttccttcaaaagatcatatagcaaggattatatcacgaattcaagaagaaatagaagccgtccagatggatgctcg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C10HBa0155I21-b5ANO/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C10HBa0155I21.2" temp_strand="+" temp_description="C10HBa0155I21.2  AC233124.5 htgs_phase:1 submitted_to_sgn_as:C10HBa0155I21 upload_account_name:manual">
        <position start="72753" stop="76513"/>
      </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="73052" g_stop="73360" g_length="309"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="309" r_length="309" r_score="0.964"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="73361" i_stop="75810" i_length="2450">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="75811" g_stop="76214" g_length="404"/>
          <reference_exon_boundary r_type="cDNA" r_start="310" r_stop="713" r_length="404" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C10HBa0155I21.2" gen_strand="+" ref_id="C2_At1g67930" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>713</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C10HBa0155I21.2" gen_strand="+"/>
        <rDNA rDNA_id="C2_At1g67930" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="73052" e_stop="73360"/>
          <exon e_start="75811" e_stop="76214"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGGGAGTTGAGGGGAACTGTGGATGGGTTAGTGAGCAAGTACAAGGCAATGGGAGTGAAGAGTATAACGACTGCTTTGGATATGAAAGCTATATCTGCTGGTGGCGGATTTGGTCCGGGAGGGGTGCAGAGAAGTGGGACACCACAGTTTGGGGGAAGTGCAAAGGCGAAGGATGCATTATGGCAAAGGATGAGTGGTTGTATGGACCAATTGCATTCCATTGTGGTTGCTGTTTGGCATTTGCAGAGGGTTTTATCGAAGAAAAGAGACCCCTTTACGCATGTCTTGCTGCTTGATGAGGTCATGCAGGTGTGTGAATGCATCTTTAGTTGATATGAATTGTTTCTAAGAAGTTATATATGATGCTTTTCTTATATTGAGTTATTTGTAGTCTAAAATGGCATGATCACATTAAGCCTGAATATGTTGCCTTGTGTTGGAAATATGGAATTGGTTAAGCTGCAAAATAACTTTATAGCTAGATAGAAACCGAAGACCTGGTTTGAGCCAGCTTAAGCGTGTTATCAGGATCTTTGCTAGAAAGGTTGGTTCCAAATGAAATATATATAATCCTAGGTAGTTACATTCAGGATATCTAAAAGAATACTCTATGGAAAACAATGAAATCATGGGAAGTACCGATAGACTGTCTTCACTACTCACCATTATGTAGTTGTGTTATTGATAATGCGGATATCCTTTTTCAGGGTCCTGATCCTGTGTTTAAGGGTGATTAGTGAGGCAATTAATAGGGAAAAAGTGGTCAGTATAAGTTTCGCAGAAAAAAGTACAGTATGGTGAGTACTGCTTGAGGAATAGTGAATTCTGATAGCAAGTAGTTTCTTCTTTTGGCTACTCCCAGGGAGCCCCCAAGTTTCATGACTTGTGGTAGCATTGAGCTTGAATCTGTTGCTCCGATTTGGTAACTTAGGTTTAGTTAACCTTGTTATGACTTTAACCTTGGTATGACCCAAGCGGACCAACTATGAACAATCATTTTTGGGATTGCATCAACTCTCTACTTAGAGCTTCGATTTTTGTATACGAGCTGACTCAATCTGTCTTTTGTAATTTTTGCTTTTGTTTCTGTTTGCTGCTATTAATGAAATCTACTTCAACACGAAAAAGACCAACTTTGAGCAATTTTTAAGGGAGATTAGCTGATTGTGTCCATAGGGTAAAAGAATTTTCATTCCAAAAGAAATGTATATAACCTTATGCAGTTACATTTAGGTATCCGAAAGCAATATTCTGTGGAAAATGATGAAATTAGCTGTAATCATGCGAGGTAGTGAGACACTGTCAACTCCTCATTATGTTGTTCTGTTCTCATAATGTGGGTCACAACAAGTCCTTTTGTCCCCAATTATAGCCCTGTGTTTGAGGGTGACTTATTTGACAATGAAAAGGAAACCATCGGTAATATTAAGTTAATCAGTCCATGAAATGGTTTCTGCTACCAAGGGTACAGTATGGTAAGTTCTTTTAAAGGAACGGTGAATCTGATAGAAAGTAAGGCTAACAAATCTGTAATGAAATGAGAAGTGTACTTGAGCTGATTCTATGATCCTATTTCCTAAAGATTTAAATCTTAGAAGAATAAAATTTTGAAATGAATTTTTGCTTGTCCCCCAAAAATCTTTCCTGCCATATAATCCCTGTGTAATATAACTCATGCATTGAGAGTGGGGCTGTCTTACTCCAACAATTGCTGCCTTCTCCTTTCACTGTGCAAAGGTCCACTGATCTATTAGAACAAATAATGCCCTCGTCCTACTAATTTACTTAATAATAGACTAAGAAACACAGTGAACTCTTATGTCTGGCTGTGTGACAATTTTCCGTATTTCTTAAATATCTACTCTGTTTTGATTGCAATTTGCATGTGATGAGACATGACCTAATTTAGAAATATTCCTCATTAAGTTCATTTAGTGTTTTATGATGAGGTTGGTAACAGAAAACACAAGGAAGCAAAGATGGCATCCCCTAAATATGACTGATTCAGAGATTTAATCTTCTGATGTGCCCAATTAGAAACTGAATATCTAACAATCCACCTTATTTTTCAATGGTGGACTCAACAACAGGCAATTTTATTCCTTTGCTTGTCCCTTTTTTTTTTACTCCATAAGTTAAGATTGTGCTATTGTAGTATACTAATAGGCTGTAGCTTATGGATCCGGCTGGTGAAAAATATTCAGAACAGAAAAAGTAAGGAAATATTTGTGGATTAAGTAAAGGTGACTAGCATACCTCAAGTTATTAGGATTAGTTTTCTGTGGTAGAAAGACATTCTCTTCCTTTTTTCATCTTTTAAGTCTTACCAATCAACATTAGCCAGTGCCGAAGGTATACCAGATAAACTAGTCTCCCATACTTTTCCACTCTATTTCCTCAAATTAATTGCATTGTTGAATATATATGAACTCATTGAATTTTAGATACTAGATTAGCCTTCGAACCTGTTTGGACTTCGGGACCATAGAATCATTGACACTCGCTGCTCGTTATGAGGTTCACTAAAATATAATCAGGTTATTTCTGGTCACATTACACTAAGATTAATCAAACCTAATTTATGGAATTTCATAAACGGTTAATGCTTATGCTCAATTGCAAATATATTTCTAAGAAAGACCAACCAAAGCTAAATGAAAAATTAAAGAGGGCAAGTAAGTTGTAAGATGATTAATGACACGAGGAAAAGCATGTTGTTGTTATTTCCATGGCTGCTTACATTGCTACATATTTTTCAGGAAGGTGATCCGATATTGACGGATCGTGTTTGGGAGGCACTGGGTAAATCTTTTGCTAACCAAATGAAGTCCACTTTCAGCACATCAAGTTTTGTTAAGGAGATATTCACTCTTGGATATCCAAAACTCTTCTCTATGTTAGAAAACCTGCTTGAAAGAATTTCACGTGATACAGACGTCAAAGGAGTTCCACCAGCTCTCAGTTCAGAAGCAAAGGACCAAATGTTATCTTCCATTGAAATATTCCAGACTGCTTTCCTAACCCTCTGTCTGAGCCGTCTTTCAGAACTTGTTAATACTGTATTTCCAGTGTCCGGTCGTGGAACTGTTCCTTCAAAAGATCACATAGCAAGGATTATATCACGAATTCAAGAAGAAATAGAAGCCGTCCAGATGGATGCTCA</genome_strand>
        <mrna_strand>GGAGAGTTGAGGGGAACTGTGGATGGGTTAGTTAGTAAGTATAAGGCAATGGGAGTGAAGAGTATAACGACGGCTTTGGATATGAAATCTATATCTGTTGGTGGCGGATTTGGGCCGGGAGGGGTGCAGAGAAGTGGGACACCACAGTTTGGGGGAAGTGCAAAGGCGAAGGATGCATTGTGGCAAAGGATGAGTGGTTGTATGGACCAGTTACATTCCATTGTGGTTGCTGTTTGGCATTTGCAGAGGGTTTTATCGAAGAAAAGAGACCCCTTTACGCATGTCTTGCTGCTTGATGAGGTCATGCAG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAAGGTGATCCAATATTGACAGATCGTGTTTGGGAGGCACTGGGTAAATCTTTTGCGAACCAAATGAAGTCCACTTTCAGCACATCAAGTTTTGTTAAGGAGATATTCACTCTTGGATATCCAAAACTCTTCTCTATGTTAGAAAACCTGCTTGAAAGAATTTCACGTGATACAGATGTCAAAGGAGTTCCACCAGCTCTCAGTTCAGAAGCAAAGGACCAAATGTTATCTTCCATTGAAATATTCCAGACTGCTTTCCTAACCCTCTGTCTGAGCCGTCTTTCAGAACTTGTTAATACTGTATTTCCAGTGTCCAGTCGTGGAACTGTTCCTTCAAAAGATCATATAGCAAGGATTATATCACGAATTCAAGAAGAAATAGAAGCCGTCCAGATGGATGCTCG</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-C10HBa0155I21-b5ANO/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="T1391" ref_strand="+" ref_description="T1391">
      <seq>ctgaagcacgggagaactccggcggaacgcctttcccgccgatggatgagcagcggcagtcatagcaaaacaacggtgatgagcttcggtgacggaagccacggagctttgggccttccgtcgtccatcattggtatgggatccgacgcttacgagcctactcctatacccggtctcccgcctgacgtcgttaccgtcgccgccggtcacttccactccctcgccgttacttctgagggacatgtttgggcttggggacgtaataatgaaggccagcttggccgtgatcccctttctcccagagaaacgtggaatgaaccaaaaagagtagaaggactacataaagtacgagttcaaaccgcatttgcatcaggtgtcatttctgccgccataggagatgatggatctctatgggtttggggaagttctaagcgtgggcagcttggtcttggcaagggaatcaccaacactgcattaccttcgaaaattgaaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C10HBa0155I21-b5ANO/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C10HBa0155I21.2" temp_strand="+" temp_description="C10HBa0155I21.2  AC233124.5 htgs_phase:1 submitted_to_sgn_as:C10HBa0155I21 upload_account_name:manual">
        <position start="97250" stop="99951"/>
      </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="97550" g_stop="97851" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="302" r_length="302" r_score="0.974"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97852" i_stop="99459" i_length="1608">
            <donor d_prob="0.997" d_score="0.98"/>
            <acceptor a_prob="0.962" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="99460" g_stop="99651" g_length="192"/>
          <reference_exon_boundary r_type="cDNA" r_start="303" r_stop="494" r_length="192" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C10HBa0155I21.2" gen_strand="+" ref_id="T1391" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>494</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C10HBa0155I21.2" gen_strand="+"/>
        <rDNA rDNA_id="T1391" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97550" e_stop="97851"/>
          <exon e_start="99460" e_stop="99651"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGAAGCACGGGAGAACTCCGGCGGGTCGCCTTCCCCGCCGATGGATGAGCAGCGGCAGTCATAGCAAAACAACGGTGATGAGCTTCGGTGACGGAAGCCACGGAGCTTTGGGCCTTCCGTCATCCATCATTGGTATGGGATCCGACGCTTACGAGCCTACTCCTATACCCGGTCTCCCGCCTGACGTCGTTTCCGTCGCCGCCGGTCACTTCCATTCTCTCGCCGTTACTTCTGAGGGACATGTTTGGGCTTGGGGACGTAACAATGAAGGCCAGCTTGGCCGTGATCCCCTTTCTCCCAGGTGAGTTAATGATCAAAAACGCACGGTATCCGATTTTTCGAGTTTTATATCTGAATTATTAGATATTCAAGTTTCCTAATCAAACTATCACTGACTATTTATCAAAACACACTATTATTTTCCCGGCGTGAAATATCACCATTATTCAGGCAGGAAAAAAAGGAAAGAAACAGTTGTTAATAGTTAATATAAGAAATTCCGATACAAAAAAGTTTCGGTATGAAACTTGAAAAATTGTTTGGAATACTTTAGTTGTGTTTTTAACCTTACATGTTTGTATATGTATGTCCACTGATTGAACAGGCAAAAACTTGTAACTTACTTATCAGTAACTGTATTGAATTGTGGCTTGATATTGTGTAAATTGACAGTGTTTTATGTGTCATATGCTTGCTTTCTATGTCTGTTAGTAGTACAAGTTGGAGAAAATTGTGTATTTCATTGTATTCGTTAAATGGAATGTGCTTCAATCTCGAGTTAGTAAGAAGTCTGCTGTATGTGGAATCCTCTGTATCTATTCAGCTTTATTCGATGCGTGTGCTCACAAGTTTGGATTGAGAAGGATTCATTATAGTTAAGCAATTATTATGTTGATGTAATCCTCTTCGAAGAAAGTAGCTTTCAGATTAAATCTGGCAATTTCGTGTTTATGACCTTGCGAGGAACTGTAAAGAGGTTGTTTGAGCTGAAGATTCATATATCTGATGCAGTCATGCCATTGCTTGTATATATGCTCTTTTAGTTCACATTCATGTTTCCACCCTCATTGATAAGGAAATGTAATAAGTAAACTGATTTCAACATAAGCGAGTCAAGTGTGCGTGCAAATGTAACAGATGAAAGAAAGCTCTGGAAGAAGACTATACCTTGAGGCCATTAATTTGCTTTTGCTTCTTGAGTAGACTGGAGAGCTCTGGTGGTTTGTTGTTTCTTATATAAATGATTAACATTCCAAGAAAAGCTTAATCTGGCCAAAGCATGATCCTCGCAATCTGATGTATGAAAAGCATTAAGTTCTGCCAACAGAACATTGTAACAGTAGTAGACAAGTTGTTTGGTCAACCACACAACCTCAGCTTAGTTCCATAGTTTAACAGTAGCTGTAAAGAATGTTGCCATGATAATGCCGAGTGCCGACTGTAACAGATTTCTTTACTGCTGTGAGAAAAGAGCAATTTCTCTTAGTATTGAAAGTTTCTGTGACATCCTAGTTTACCTCTATTTGTTTGTTTGTATGACTCTAGAAAGGTACTAAAATTTCGGTTTCTAGACTGTGTTAGCCTATGTTGCTCGGACTCTCCAAAATTGTTGTCGCACCCATGTCCGATTCTTCAAATGCACTACTTTTGTAGTATCCGACGTGCACCCATAGACATTTTTGAAGAGTGCAACCCACATAGGTGTTAGCTATCTCTGTGCTAACCTTTTCTTCTCCATATGCTGGATATCCAGATGAAGTGACTATTGTTTTCCAAAGGATCTCATGTATTTCCTTCTCTGTCCTGTTTTCACCCTGTCTTGCTTTTCTTCTTTTACTTAGGGTTGGTTTGGGGTTGTAGGGTGTTTGTATTACTGACATGGAAATCCTTTTTTGTTGAGCTTGTTCAGAGAAACGTGGAATGAACCAAAAAGAGTAGAAGGACTACATAAAGTACGAGTTCAAACCGCATTTGCATCAGGTGTCATTTCTGCCGCCATAGGAGATGATGGATCTCTATGGGTTTGGGGAAGTTCTAAGCGTGGGCAGCTTGGTCTTGGCAAGGGAATCACCAACACTGCATTACCTTTGAAAATTGAAAC</genome_strand>
        <mrna_strand>CTGAAGCACGGGAGAACTCCGGCGGAACGCCTTTCCCGCCGATGGATGAGCAGCGGCAGTCATAGCAAAACAACGGTGATGAGCTTCGGTGACGGAAGCCACGGAGCTTTGGGCCTTCCGTCGTCCATCATTGGTATGGGATCCGACGCTTACGAGCCTACTCCTATACCCGGTCTCCCGCCTGACGTCGTTACCGTCGCCGCCGGTCACTTCCACTCCCTCGCCGTTACTTCTGAGGGACATGTTTGGGCTTGGGGACGTAATAATGAAGGCCAGCTTGGCCGTGATCCCCTTTCTCCCAG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAAACGTGGAATGAACCAAAAAGAGTAGAAGGACTACATAAAGTACGAGTTCAAACCGCATTTGCATCAGGTGTCATTTCTGCCGCCATAGGAGATGATGGATCTCTATGGGTTTGGGGAAGTTCTAAGCGTGGGCAGCTTGGTCTTGGCAAGGGAATCACCAACACTGCATTACCTTCGAAAATTGAAAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>4</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="60957" PGL_stop="61508"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="60957" e_stop="61508"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.993"/>
        </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="0.993">
            <gDNA_exon_boundary e_start="60957" e_stop="61508" e_length="552"/>
          </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="60957" stop="61508"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="TG566-R" 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>CTGCTCTTGTCATCGCGAATGATACTTGGGTAAGATGGGAGCTTTTATAAGTACATTAGTAGTAGTTTTTATTGAAATGAAGTAGCAGATCTTGGTAGTACAGTCTCTGACATTCCTATCAGTGACATTAGTTCCAATGGATTTTAATGTATCGTTAGTCGGTATTGAAGTGGTAGGTACATAAGTTGGTATGCAGTTTTTGTCTTTCCTATCAGCAGCATTAGTTCCTTTGGTTCTAGTATATTCCTTTAGTTTTTTTGACATAATTATATAACCTCTTTTTTTTGCTCGAAACGACAACAACCCAAATTATATATTAAATGGTTTCATGAGATTATAGTACAGATCTGACCTGGTCTTGGCAAAATGTTAACATTAGCGATCCTCAGATAATACCACTTCTCCGTGATTCTTTTTTTGTTGTCTTCCTTCATCTTGCAACTTCTTCGACAAACTTGGGTCCATCAATTGCTGATATTTCAGGAATGCTGGCTAAGTTGAATCAGGAAAAGGGAAAGTGGCATGAGTAGTGTAACTCATGAGAGTGCAAAA</gDNA_template>
            <first_frame> L  L  L  S  S  R  M  I  L  G  *  D  G  S  F  Y  K  Y  I  S  S  S  F  Y  *  N  E  V  A  D  L  G  S  T  V  S  D  I  P  I  S  D  I  S  S  N  G  F  *  C  I  V  S  R  Y  *  S  G  R  Y  I  S  W  Y  A  V  F  V  F  P  I  S  S  I  S  S  F  G  S  S  I  F  L  *  F  F  *  H  N  Y  I  T  S  F  F  C  S  K  R  Q  Q  P  K  L  Y  I  K  W  F  H  E  I  I  V  Q  I  *  P  G  L  G  K  M  L  T  L  A  I  L  R  *  Y  H  F  S  V  I  L  F  L  L  S  S  F  I  L  Q  L  L  R  Q  T  W  V  H  Q  L  L  I  F  Q  E  C  W  L  S  *  I  R  K  R  E  S  G  M  S  S  V  T  H  E  S  A  K </first_frame>
            <second_frame>  C  S  C  H  R  E  *  Y  L  G  K  M  G  A  F  I  S  T  L  V  V  V  F  I  E  M  K  *  Q  I  L  V  V  Q  S  L  T  F  L  S  V  T  L  V  P  M  D  F  N  V  S  L  V  G  I  E  V  V  G  T  *  V  G  M  Q  F  L  S  F  L  S  A  A  L  V  P  L  V  L  V  Y  S  F  S  F  F  D  I  I  I  *  P  L  F  F  A  R  N  D  N  N  P  N  Y  I  L  N  G  F  M  R  L  *  Y  R  S  D  L  V  L  A  K  C  *  H  *  R  S  S  D  N  T  T  S  P  *  F  F  F  C  C  L  P  S  S  C  N  F  F  D  K  L  G  S  I  N  C  *  Y  F  R  N  A  G  *  V  E  S  G  K  G  K  V  A  *  V  V  *  L  M  R  V  Q   </second_frame>
            <third_frame>   A  L  V  I  A  N  D  T  W  V  R  W  E  L  L  *  V  H  *  *  *  F  L  L  K  *  S  S  R  S  W  *  Y  S  L  *  H  S  Y  Q  *  H  *  F  Q  W  I  L  M  Y  R  *  S  V  L  K  W  *  V  H  K  L  V  C  S  F  C  L  S  Y  Q  Q  H  *  F  L  W  F  *  Y  I  P  L  V  F  L  T  *  L  Y  N  L  F  F  L  L  E  T  T  T  T  Q  I  I  Y  *  M  V  S  *  D  Y  S  T  D  L  T  W  S  W  Q  N  V  N  I  S  D  P  Q  I  I  P  L  L  R  D  S  F  F  V  V  F  L  H  L  A  T  S  S  T  N  L  G  P  S  I  A  D  I  S  G  M  L  A  K  L  N  Q  E  K  G  K  W  H  E  *  C  N  S  *  E  C  K  </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="C10HBa0155I21.2" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="61289" stop="61486"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>195</number_coding_nucleotides>
                  <number_encoded_amino_acids>65</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>DYSTDLTWSWQNVNISDPQIIPLLRDSFFVVFLHLATSSTNLGPSIADISGMLAKLNQEKGKWHE*</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="62042" PGL_stop="61464"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="62042" e_stop="61464"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.995"/>
        </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="0.995">
            <gDNA_exon_boundary e_start="62042" e_stop="61464" e_length="579"/>
          </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="62042" stop="61464"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="TG566-F" 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>TGCAGCTACATGACACCACCAAGTTGGTCCAACTGGATTTTGCCAGTATGGAGCTGCAACATCTGCTACAGTGACATCATCTTCCTCATCACTGAGATCAACAGGCTGAGAGGCCCAACCACTATCAATCTGCACTGTTTGAAGCAGCTCAGATATTCTAGACCAGCCTATTGGTATCCAGTAATTACCAGGAGACGTTTCTCGGGAATGATAAGGATAGTCTTGATGATAACTTTGGCTATCTCCATTCTCGATGTCAACATACGCAGATTCTGTTGGATAATGAGGTTCTATGAAGTGATCCTTGTCAACATCTTGGGGTGAGAAATTACTTGCACCATATTTATATAATGGTGGTTTTTTAGGGTCCCTGACAGCATAATGTTCAGTAGCTCTCGCGCCATTTGTCTTCCTTTGGCCACGGACAAATTCAAAGGCACAAAGCAGGCCATCTGTCCATAGCTCACTACCCAGCATGACATCTCTGGACAGTTGCTGTTTATGATTCTCTCGGTTCTTCGTACCATTGTTCATTTTTGCACTCTCATGAGTTACACTACTCATGCCACTTTCCCTTTT</gDNA_template>
            <first_frame> C  S  Y  M  T  P  P  S  W  S  N  W  I  L  P  V  W  S  C  N  I  C  Y  S  D  I  I  F  L  I  T  E  I  N  R  L  R  G  P  T  T  I  N  L  H  C  L  K  Q  L  R  Y  S  R  P  A  Y  W  Y  P  V  I  T  R  R  R  F  S  G  M  I  R  I  V  L  M  I  T  L  A  I  S  I  L  D  V  N  I  R  R  F  C  W  I  M  R  F  Y  E  V  I  L  V  N  I  L  G  *  E  I  T  C  T  I  F  I  *  W  W  F  F  R  V  P  D  S  I  M  F  S  S  S  R  A  I  C  L  P  L  A  T  D  K  F  K  G  T  K  Q  A  I  C  P  *  L  T  T  Q  H  D  I  S  G  Q  L  L  F  M  I  L  S  V  L  R  T  I  V  H  F  C  T  L  M  S  Y  T  T  H  A  T  F  P  F </first_frame>
            <second_frame>  A  A  T  *  H  H  Q  V  G  P  T  G  F  C  Q  Y  G  A  A  T  S  A  T  V  T  S  S  S  S  S  L  R  S  T  G  *  E  A  Q  P  L  S  I  C  T  V  *  S  S  S  D  I  L  D  Q  P  I  G  I  Q  *  L  P  G  D  V  S  R  E  *  *  G  *  S  *  *  *  L  W  L  S  P  F  S  M  S  T  Y  A  D  S  V  G  *  *  G  S  M  K  *  S  L  S  T  S  W  G  E  K  L  L  A  P  Y  L  Y  N  G  G  F  L  G  S  L  T  A  *  C  S  V  A  L  A  P  F  V  F  L  W  P  R  T  N  S  K  A  Q  S  R  P  S  V  H  S  S  L  P  S  M  T  S  L  D  S  C  C  L  *  F  S  R  F  F  V  P  L  F  I  F  A  L  S  *  V  T  L  L  M  P  L  S  L   </second_frame>
            <third_frame>   Q  L  H  D  T  T  K  L  V  Q  L  D  F  A  S  M  E  L  Q  H  L  L  Q  *  H  H  L  P  H  H  *  D  Q  Q  A  E  R  P  N  H  Y  Q  S  A  L  F  E  A  A  Q  I  F  *  T  S  L  L  V  S  S  N  Y  Q  E  T  F  L  G  N  D  K  D  S  L  D  D  N  F  G  Y  L  H  S  R  C  Q  H  T  Q  I  L  L  D  N  E  V  L  *  S  D  P  C  Q  H  L  G  V  R  N  Y  L  H  H  I  Y  I  M  V  V  F  *  G  P  *  Q  H  N  V  Q  *  L  S  R  H  L  S  S  F  G  H  G  Q  I  Q  R  H  K  A  G  H  L  S  I  A  H  Y  P  A  *  H  L  W  T  V  A  V  Y  D  S  L  G  S  S  Y  H  C  S  F  L  H  S  H  E  L  H  Y  S  C  H  F  P  F  </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="C10HBa0155I21.2" strand="-"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="62042" stop="61719"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>321</number_coding_nucleotides>
                  <number_encoded_amino_acids>107</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>CSYMTPPSWSNWILPVWSCNICYSDIIFLITEINRLRGPTTINLHCLKQLRYSRPAYWYPVITRRRFSGMIRIVLMITLAISILDVNIRRFCWIMRFYEVILVNILG*</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="73052" PGL_stop="76214"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="73052" e_stop="73360"/>
            <exon e_start="75811" e_stop="76214"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.996" acc_prob="0.998" e_score="0.964"/>
          <exon-only e_score="0.983"/>
        </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="0.964">
            <gDNA_exon_boundary e_start="73052" e_stop="73360" e_length="309"/>
          </exon>
          <intron i_serial="1" don_prob="0.996" acc_prob="0.998">
            <gDNA_intron_boundary i_start="73361" i_stop="75810" i_length="2450"/>
          </intron>
          <exon e_serial="2" e_score="0.983">
            <gDNA_exon_boundary e_start="75811" e_stop="76214" e_length="404"/>
          </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="73052" stop="73360"/>
              <exon start="75811" stop="76214"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="C2_At1g67930" 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>GGGGAGTTGAGGGGAACTGTGGATGGGTTAGTGAGCAAGTACAAGGCAATGGGAGTGAAGAGTATAACGACTGCTTTGGATATGAAAGCTATATCTGCTGGTGGCGGATTTGGTCCGGGAGGGGTGCAGAGAAGTGGGACACCACAGTTTGGGGGAAGTGCAAAGGCGAAGGATGCATTATGGCAAAGGATGAGTGGTTGTATGGACCAATTGCATTCCATTGTGGTTGCTGTTTGGCATTTGCAGAGGGTTTTATCGAAGAAAAGAGACCCCTTTACGCATGTCTTGCTGCTTGATGAGGTCATGCAG : GAAGGTGATCCGATATTGACGGATCGTGTTTGGGAGGCACTGGGTAAATCTTTTGCTAACCAAATGAAGTCCACTTTCAGCACATCAAGTTTTGTTAAGGAGATATTCACTCTTGGATATCCAAAACTCTTCTCTATGTTAGAAAACCTGCTTGAAAGAATTTCACGTGATACAGACGTCAAAGGAGTTCCACCAGCTCTCAGTTCAGAAGCAAAGGACCAAATGTTATCTTCCATTGAAATATTCCAGACTGCTTTCCTAACCCTCTGTCTGAGCCGTCTTTCAGAACTTGTTAATACTGTATTTCCAGTGTCCGGTCGTGGAACTGTTCCTTCAAAAGATCACATAGCAAGGATTATATCACGAATTCAAGAAGAAATAGAAGCCGTCCAGATGGATGCTCA</gDNA_template>
            <first_frame> G  E  L  R  G  T  V  D  G  L  V  S  K  Y  K  A  M  G  V  K  S  I  T  T  A  L  D  M  K  A  I  S  A  G  G  G  F  G  P  G  G  V  Q  R  S  G  T  P  Q  F  G  G  S  A  K  A  K  D  A  L  W  Q  R  M  S  G  C  M  D  Q  L  H  S  I  V  V  A  V  W  H  L  Q  R  V  L  S  K  K  R  D  P  F  T  H  V  L  L  L  D  E  V  M  Q  :  E  G  D  P  I  L  T  D  R  V  W  E  A  L  G  K  S  F  A  N  Q  M  K  S  T  F  S  T  S  S  F  V  K  E  I  F  T  L  G  Y  P  K  L  F  S  M  L  E  N  L  L  E  R  I  S  R  D  T  D  V  K  G  V  P  P  A  L  S  S  E  A  K  D  Q  M  L  S  S  I  E  I  F  Q  T  A  F  L  T  L  C  L  S  R  L  S  E  L  V  N  T  V  F  P  V  S  G  R  G  T  V  P  S  K  D  H  I  A  R  I  I  S  R  I  Q  E  E  I  E  A  V  Q  M  D  A   </first_frame>
            <second_frame>  G  S  *  G  E  L  W  M  G  *  *  A  S  T  R  Q  W  E  *  R  V  *  R  L  L  W  I  *  K  L  Y  L  L  V  A  D  L  V  R  E  G  C  R  E  V  G  H  H  S  L  G  E  V  Q  R  R  R  M  H  Y  G  K  G  *  V  V  V  W  T  N  C  I  P  L  W  L  L  F  G  I  C  R  G  F  Y  R  R  K  E  T  P  L  R  M  S  C  C  L  M  R  S  C  R :   K  V  I  R  Y  *  R  I  V  F  G  R  H  W  V  N  L  L  L  T  K  *  S  P  L  S  A  H  Q  V  L  L  R  R  Y  S  L  L  D  I  Q  N  S  S  L  C  *  K  T  C  L  K  E  F  H  V  I  Q  T  S  K  E  F  H  Q  L  S  V  Q  K  Q  R  T  K  C  Y  L  P  L  K  Y  S  R  L  L  S  *  P  S  V  *  A  V  F  Q  N  L  L  I  L  Y  F  Q  C  P  V  V  E  L  F  L  Q  K  I  T  *  Q  G  L  Y  H  E  F  K  K  K  *  K  P  S  R  W  M  L  </second_frame>
            <third_frame>   G  V  E  G  N  C  G  W  V  S  E  Q  V  Q  G  N  G  S  E  E  Y  N  D  C  F  G  Y  E  S  Y  I  C  W  W  R  I  W  S  G  R  G  A  E  K  W  D  T  T  V  W  G  K  C  K  G  E  G  C  I  M  A  K  D  E  W  L  Y  G  P  I  A  F  H  C  G  C  C  L  A  F  A  E  G  F  I  E  E  K  R  P  L  Y  A  C  L  A  A  *  *  G  H  A   : G  R  *  S  D  I  D  G  S  C  L  G  G  T  G  *  I  F  C  *  P  N  E  V  H  F  Q  H  I  K  F  C  *  G  D  I  H  S  W  I  S  K  T  L  L  Y  V  R  K  P  A  *  K  N  F  T  *  Y  R  R  Q  R  S  S  T  S  S  Q  F  R  S  K  G  P  N  V  I  F  H  *  N  I  P  D  C  F  P  N  P  L  S  E  P  S  F  R  T  C  *  Y  C  I  S  S  V  R  S  W  N  C  S  F  K  R  S  H  S  K  D  Y  I  T  N  S  R  R  N  R  S  R  P  D  G  C  S </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="C10HBa0155I21.2" strand="+"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="73052" stop="73360"/>
                    <exon start="75811" stop="76212"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>711</number_coding_nucleotides>
                  <number_encoded_amino_acids>237</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>GELRGTVDGLVSKYKAMGVKSITTALDMKAISAGGGFGPGGVQRSGTPQFGGSAKAKDALWQRMSGCMDQLHSIVVAVWHLQRVLSKKRDPFTHVLLLDEVMQEGDPILTDRVWEALGKSFANQMKSTFSTSSFVKEIFTLGYPKLFSMLENLLERISRDTDVKGVPPALSSEAKDQMLSSIEIFQTAFLTLCLSRLSELVNTVFPVSGRGTVPSKDHIARIISRIQEEIEAVQMDA</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="97550" PGL_stop="99651"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="97550" e_stop="97851"/>
            <exon e_start="99460" e_stop="99651"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.997" acc_prob="0.962" e_score="0.974"/>
          <exon-only e_score="0.995"/>
        </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="0.974">
            <gDNA_exon_boundary e_start="97550" e_stop="97851" e_length="302"/>
          </exon>
          <intron i_serial="1" don_prob="0.997" acc_prob="0.962">
            <gDNA_intron_boundary i_start="97852" i_stop="99459" i_length="1608"/>
          </intron>
          <exon e_serial="2" e_score="0.995">
            <gDNA_exon_boundary e_start="99460" e_stop="99651" e_length="192"/>
          </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="97550" stop="97851"/>
              <exon start="99460" stop="99651"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="T1391" 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>CTGAAGCACGGGAGAACTCCGGCGGGTCGCCTTCCCCGCCGATGGATGAGCAGCGGCAGTCATAGCAAAACAACGGTGATGAGCTTCGGTGACGGAAGCCACGGAGCTTTGGGCCTTCCGTCATCCATCATTGGTATGGGATCCGACGCTTACGAGCCTACTCCTATACCCGGTCTCCCGCCTGACGTCGTTTCCGTCGCCGCCGGTCACTTCCATTCTCTCGCCGTTACTTCTGAGGGACATGTTTGGGCTTGGGGACGTAACAATGAAGGCCAGCTTGGCCGTGATCCCCTTTCTCCCAG : AGAAACGTGGAATGAACCAAAAAGAGTAGAAGGACTACATAAAGTACGAGTTCAAACCGCATTTGCATCAGGTGTCATTTCTGCCGCCATAGGAGATGATGGATCTCTATGGGTTTGGGGAAGTTCTAAGCGTGGGCAGCTTGGTCTTGGCAAGGGAATCACCAACACTGCATTACCTTTGAAAATTGAAAC</gDNA_template>
            <first_frame> L  K  H  G  R  T  P  A  G  R  L  P  R  R  W  M  S  S  G  S  H  S  K  T  T  V  M  S  F  G  D  G  S  H  G  A  L  G  L  P  S  S  I  I  G  M  G  S  D  A  Y  E  P  T  P  I  P  G  L  P  P  D  V  V  S  V  A  A  G  H  F  H  S  L  A  V  T  S  E  G  H  V  W  A  W  G  R  N  N  E  G  Q  L  G  R  D  P  L  S  P  R :   E  T  W  N  E  P  K  R  V  E  G  L  H  K  V  R  V  Q  T  A  F  A  S  G  V  I  S  A  A  I  G  D  D  G  S  L  W  V  W  G  S  S  K  R  G  Q  L  G  L  G  K  G  I  T  N  T  A  L  P  L  K  I  E   </first_frame>
            <second_frame>  *  S  T  G  E  L  R  R  V  A  F  P  A  D  G  *  A  A  A  V  I  A  K  Q  R  *  *  A  S  V  T  E  A  T  E  L  W  A  F  R  H  P  S  L  V  W  D  P  T  L  T  S  L  L  L  Y  P  V  S  R  L  T  S  F  P  S  P  P  V  T  S  I  L  S  P  L  L  L  R  D  M  F  G  L  G  D  V  T  M  K  A  S  L  A  V  I  P  F  L  P   : E  K  R  G  M  N  Q  K  E  *  K  D  Y  I  K  Y  E  F  K  P  H  L  H  Q  V  S  F  L  P  P  *  E  M  M  D  L  Y  G  F  G  E  V  L  S  V  G  S  L  V  L  A  R  E  S  P  T  L  H  Y  L  *  K  L  K  </second_frame>
            <third_frame>   E  A  R  E  N  S  G  G  S  P  S  P  P  M  D  E  Q  R  Q  S  *  Q  N  N  G  D  E  L  R  *  R  K  P  R  S  F  G  P  S  V  I  H  H  W  Y  G  I  R  R  L  R  A  Y  S  Y  T  R  S  P  A  *  R  R  F  R  R  R  R  S  L  P  F  S  R  R  Y  F  *  G  T  C  L  G  L  G  T  *  Q  *  R  P  A  W  P  *  S  P  F  S  Q  :  R  N  V  E  *  T  K  K  S  R  R  T  T  *  S  T  S  S  N  R  I  C  I  R  C  H  F  C  R  H  R  R  *  W  I  S  M  G  L  G  K  F  *  A  W  A  A  W  S  W  Q  G  N  H  Q  H  C  I  T  F  E  N  *  N </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="C10HBa0155I21.2" strand="+"/>
                <serials PGL_serial="4" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="97550" stop="97851"/>
                    <exon start="99460" stop="99649"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>492</number_coding_nucleotides>
                  <number_encoded_amino_acids>164</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LKHGRTPAGRLPRRWMSSGSHSKTTVMSFGDGSHGALGLPSSIIGMGSDAYEPTPIPGLPPDVVSVAAGHFHSLAVTSEGHVWAWGRNNEGQLGRDPLSPRETWNEPKRVEGLHKVRVQTAFASGVISAAIGDDGSLWVWGSSKRGQLGLGKGITNTALPLKIE</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 145 chains have been computed
$ 
$ memory statistics:
$ 8640 bytes spliced alignments in total
$ 4 spliced alignments have been stored
$ 2160 bytes was the average size of a spliced alignment
$ 9120 bytes predicted gene locations in total
$ 4 predicted gene locations have been stored
$ 2280 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 145 backtrace matrices have been allocated
$ 
$ date finished: 2009-12-03 21:15:02
-->
