<?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 09:56:09"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C02HBa0190P16-RQ8ln/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C02HBa0190P16-RQ8ln/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-C02HBa0190P16-RQ8ln/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="C2_At3g27925" ref_strand="+" ref_description="C2_At3g27925">
      <seq>tcctctttgctctcaccagttgtcttcttaacaatggctgcatcttcacactccctagcttcttctgcttgcttctccacaactccggcacggaaattttccggctcagatcgatttcaacttgctaagtctttactctgccggaaaatacctggtttctccggcagtgtggtctgcgctcggcgtatttgctctaactatgcctcttccggtgaccagtccaactacgggaagaagcttatggatagtatttttgtggcatgcacttccgttgccttgtctttctctctctatatagcagacgttgaccctgcctcggcttttgtagtcacttcacccaggaaattgcagactgatgaacttgctactgttcgtctcttccaagagaatacaccttccgttgtgtatattactaatcttgcttccaggcaggatatgttcacactggatgtatttgaggtgcctcaagggtctgggtcaggcttcgtctgggataaaaatggaaatattgttactaattatcatgtgattcgaggtgcttctgatctcagagtgactcttgctgatcaaactacttatgatgcaaaagttgttggatttgaccaagataaagatgttgctgtgttgcatattgatgcaccaaaagacaagttgcgacctataccaattggcgtatcggcagacttgctcgttggtcaaaaagtatttgctattggaaatccatttggacttgatcatacactcaccactggtgtaatcagtgggcttaggagagaaatcaattctgcggctactggccgcccaatccaagatgttattcagacagatgcagcaatcaatcctggtaacagtggagggccacttctagatagttctggaaatcttattggaataaatactgctatatattctccttccggtgcatcatcaggtgttggattttcaattccagttgatactgtcagtggcattgttgatcagttagtgcagtttgggaaagtcacaaggccaattttgggcataaagtttgcacctgatcagtccgttgagcaactgggagtcactggagtacttgtcctggatgctcctccaaatggtcctgcaggcaaagcaggtcttctacctactaaacgtgattcctacggaagacttattttaggtgatataatcacatctataaatggaaagaaggtctctaatggcaccgacttgtacagaattcttgaccaatgcaaagttggagaaaaggtaattgtggaagtgctgcgtggggatcagaaagagaagatccctgtacttctggaaccaaagcctgaagaatcgtagttcctcaaatggatagagtatgtgttgatatgcatttcttggcgaacaagcccatattattagtgcatcaattgttgaatggttgtgtatatacaaaacaacgcttaaaactagggtgcaagcaatatagttgggagtctaacactgctgcctaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaagggggggggccgggccccctttccccctttgggggggtttttaaaaatttcggggggggtttttaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C02HBa0190P16-RQ8ln/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C02HBa0190P16.1" temp_strand="-" temp_description="C02HBa0190P16.1  AC215415.2 htgs_phase:3 submitted_to_sgn_as:C02HBa0190P16 sequenced_by:kribb upload_account_name:korea">
        <position start="23302" stop="18755"/>
      </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="23002" g_stop="22575" g_length="428"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="428" r_length="428" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22574" i_stop="22392" i_length="183">
            <donor d_prob="0.964" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22391" g_stop="22269" g_length="123"/>
          <reference_exon_boundary r_type="cDNA" r_start="429" r_stop="551" r_length="123" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22268" i_stop="21962" i_length="307">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="21961" g_stop="21790" g_length="172"/>
          <reference_exon_boundary r_type="cDNA" r_start="552" r_stop="723" r_length="172" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21789" i_stop="21066" i_length="724">
            <donor d_prob="0.928" d_score="1.00"/>
            <acceptor a_prob="0.991" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="21065" g_stop="21028" g_length="38"/>
          <reference_exon_boundary r_type="cDNA" r_start="724" r_stop="761" r_length="38" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="21027" i_stop="20616" i_length="412">
            <donor d_prob="0.968" d_score="0.00"/>
            <acceptor a_prob="0.886" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="20615" g_stop="20417" g_length="199"/>
          <reference_exon_boundary r_type="cDNA" r_start="762" r_stop="960" r_length="199" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="20416" i_stop="20235" i_length="182">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="20234" g_stop="20082" g_length="153"/>
          <reference_exon_boundary r_type="cDNA" r_start="961" r_stop="1113" r_length="153" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="20081" i_stop="19882" i_length="200">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.908" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="19881" g_stop="19747" g_length="135"/>
          <reference_exon_boundary r_type="cDNA" r_start="1114" r_stop="1248" r_length="135" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="19746" i_stop="19291" i_length="456">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="19290" g_stop="19058" g_length="233"/>
          <reference_exon_boundary r_type="cDNA" r_start="1249" r_stop="1481" r_length="233" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C02HBa0190P16.1" gen_strand="-" ref_id="C2_At3g27925" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>1481</cumulative_length_of_scored_exons>
        <coverage percentage="0.914" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C02HBa0190P16.1" gen_strand="-"/>
        <rDNA rDNA_id="C2_At3g27925" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23002" e_stop="22575"/>
          <exon e_start="22391" e_stop="22269"/>
          <exon e_start="21961" e_stop="21790"/>
          <exon e_start="21065" e_stop="21028"/>
          <exon e_start="20615" e_stop="20417"/>
          <exon e_start="20234" e_stop="20082"/>
          <exon e_start="19881" e_stop="19747"/>
          <exon e_start="19290" e_stop="19058"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCTCTTTGCTCTCACCAGTTGTCTTCTTAACAATGGCTGCATCTTCACACTCCCTAGCTTCTTCTGCTTGCTTCTCCACAACTCCGGCACGGAAATTTTCCGGCTCAGATCGATTTCAACTTGCTAAGTCTTTACTCTGCCGGAAAATACCTGGTTTCTCCGGCAGTGTGGTCTGCGCTCGGCGTATTTGCTCTAACTATGCCTCTTCCGGTGACCAGTCCAACTACGGGAAGAAGCTTATGGATAGTATTTTTGTGGCATGCACTTCCGTTGCCTTGTCTTTCTCTCTCTATATAGCAGACGTTGACCCTGCCTCGGCTTTTGTAGTCACTTCACCCAGGAAATTGCAGACTGATGAACTTGCTACTGTTCGTCTCTTCCAAGAGAATACACCTTCCGTTGTGTATATTACTAATCTTGCTTCCAGGTGATCTATCAATGAGGATGGTCCTTTTTTTTTTTTCCTTATATGTTAGTAATTCACGTGCATTTGAGTTTGTAGATATAGTGCTAGATGAAAGTCTGCTAGATGTATTTCCTGTTATTGTAATTGCCGTCCACCTTTGTTTTTCCGGTTTGGTTAATTTGGATTCCGTTTGTGATATAATAGGCAGGATATGTTCACACTGGATGTATTTGAGGTGCCTCAAGGGTCTGGGTCAGGCTTCGTCTGGGATAAAAATGGAAATATTGTTACTAATTATCATGTGATTCGAGGTGCTTCTGATCTCAGGTGAGTTAATTGGCAACTGGAAACACATTTTTCTGATTTAAACAAGTTTCTATTTATTAGTATCTGCCTAAATGATTTCAGTTTCAAGTTCCTTGCCACAGTCCTCATATTATTTCTATATGCTATCTGACTGCTCTTATACTAGCATGATTCTACAACTTCGATTGTCTTAGCTAATCGTGGAGTATTAGGAAACCTGCAATTTTTTTCATGATATGAATTTGTTTGGATTGAACAGTCTGTTAGTTGCTTAATTATGGTTTTACGCTCTAATTGCTAGTACTAATATAGTCTTAGTCTTGCTCAGAGTGACTCTTGCTGATCAAACTACTTATGATGCAAAAGTTGTTGGATTTGACCAAGATAAAGATGTTGCTGTGTTGCATATTGATGCACCAAAAGACAAGTTGCGACCTATACCAATTGGCGTATCGGCAGACTTGCTCGTTGGTCAAAAAGTATTTGCTATTGGAAATCCAGTATGTGACGAAATACAAACCTGCTAGAGAATTCTGTTCATGTAATAATAGTACTTTTATCTGCTCTGTTGTCCCTTCTCTAAACCTAGTTTGAGCCATTCTATATTCAGCTTTCGCTTTAGAGGAAAACTATCGTCTTGCAGGCGTTCATGAGCATTACAACAATTAGAAAGTATTAATTTGCATATAGAATGCTAGTGCATTTTGTTATCAATAAAATTTGTGCAAGTAAGGAAAAAAACCAACTGACAGCGAGTAAGGAAAAAAAACAACTGATAGCAAGTACAACTTAGTTCAGTCTTCTGGTTCAACTGCTTGCTTGTAAGCGCACCTTCTTCTCCAGCTAAAGAATCAGTATCTGAAAGTTGGCTGTTACTTCTGAACATTCATCGCCTGCTAATATTTTTAACTGCTTCTTTTCCCATTAGTTTAAAGCATAACAATTCCCCCCCTGTAGTGCTCCAACTTCTGCCAAAATGTGTCACTGACTTGCACTTAAATCAAATTACTTTTTAAGGGCCCTAAAACAATTGTTGACTTACACATTGAAAATCTCTTGTTGCAATGAGTATATGTTTCTTGTGTTTAGGTACCCCACCACTTCACACCTCTTTTTCCTCTTTATTCATATAAATTTACTATAAAACATGAATATTTTACTTCTCTTTTATGTTTCATATGTTAAACACATGATGAATGATTTATAATGTAAATATCTTTGCAGTTTGGACTTGATCATACACTCACCACTGGTGTAATCAGGTATTTAGACATTTCATTTATGGTGTGCAGGTTCCTAATGTTCAGATATTCCAGTGAAATGGTGTTAACTATGTTTCTGTGAAGATAGGAGATGAAATAAATGAATCTAGCCACTCAAAGTCGTGGTAAAAATGACGTTAACTTCTTCCATTGTTTAAAACGGAGATGAAGTAGAGAATTTTGTTTAATCTTTTCCGTGTATTCAACTGTAAGACTAGCCTTGTGATGTTGACGTGGTTGTCACTGTTGAGTGCCTTGCACCCATAAATTCCAAGAAGCAAACATAAATACTAACCATATGTCATGGTAAATGGATACATATGCATAAGCAAGCTGTGTTGGATATGGATTAACTTAATGCTATGGATCATGCATATTCTTTAACATCACTGATCAATTTATATGTTTCTAGTGGGCTTAGGAGAGAAATCAATTCTGCGGCTACTGGCCGCCCAATCCAAGATGTTATTCAGACAGATGCAGCAATCAATCCTGGTAACAGTGGAGGGCCACTTCTAGATAGTTCTGGAAATCTTATTGGAATAAATACTGCTATATATTCTCCTTCCGGTGCATCATCAGGTGTTGGATTTTCAATTCCAGTTGATACTGTAAGTTGTTATTTGTCTTTCAGAATTTTATTATTTGCAATGCTGATTGAAACTTTTAGGTTAAACATACTTCCCCATATAAAGCAAACTGATTTATTACACCCTGTGGTTCAGAAAGTTGCCCTTGCTTCTACTACGATGTGGTAGTCTCTCCCTGATGATTTTGATTTTTACCTATTCAGGTCAGTGGCATTGTTGATCAGTTAGTGCAGTTTGGGAAAGTCACAAGGCCAATTTTGGGCATAAAGTTTGCACCTGATCAGTCCGTTGAGCAACTGGGAGTCACTGGAGTACTTGTCCTGGATGCTCCTCCAAATGGTCCTGCAGGCAAAGCAGTATGTTATTTCCTGTATCTTTTCTCTTGACATTCCTTACCAGTTTCTCCTTCCTTTTATACACTATAATTATCAGCAGTTTCCACCAGTTATATCACCCTACCGATTTTCTTTCATGTGATTGTTTGTACAAGCCAGTATAAATTTGTGACCGACATGATGAGAAACCGAATATGAGATGTTAAATCTTGTAAATGCAGGGTCTTCTACCTACTAAACGTGATTCCTACGGAAGACTTATTTTAGGTGATATAATCACATCTATAAATGGAAAGAAGGTCTCTAATGGCACCGACTTGTACAGAATTCTTGACCAATGCAAAGTTGGAGAAAAGGTAATTCTCATACATCTATTACAAAAATTTTCATCTATATTGTTGGCTTAGAATTCATATGGAGTACAGAGAATTTCTCAAGCATACACCAACTCGCAACGCTTTTAGATAAACATCATATTTGGAATTGCACCTTTGCTTGCATGAAACTTTATTAGTTGATCTTCCTTTTTATTTCTGCAACTTTATTTAAGTGGTCTTTAAGAATATGAATAGTTAGGTATTTGACCTTGATATTGACAGTAGTAATGTTTCTCTTATCAATCTTGCTAAATATTTTGTTTTCCCCAAGTTTGTATACTTGCACATACTTTTTCATTAACATTTCCATTAGCTTTTCTCCTTCCAGTAATTATGAGATAATTGGAAAGTATTCAGTATGAAAAGGTAGTGAAACTTGGAACTACATTTGTGGAAATTGTAGAAAGCTAAGCTTACGGCTGATGTTATGAACAGGTAATTGTGGAAGTGCTGCGTGGGGATCAGAAAGAGAAGATCCCTGTACTTCTGGAACCAAAGCCTGAAGAATCGTAGTTCCTCAAATGGATAGAGTATGTGTTGATATGCATTTCTTGGCGAACAAGCCCATATTATTAGTGCATCAATTGTTGAATGGTTGTGTATATACAAAACAACGCTTAAAACTAGGGTGCAAGCAATATAGTTGGGAGTCTAACACTGCTGCCTAA</genome_strand>
        <mrna_strand>TCCTCTTTGCTCTCACCAGTTGTCTTCTTAACAATGGCTGCATCTTCACACTCCCTAGCTTCTTCTGCTTGCTTCTCCACAACTCCGGCACGGAAATTTTCCGGCTCAGATCGATTTCAACTTGCTAAGTCTTTACTCTGCCGGAAAATACCTGGTTTCTCCGGCAGTGTGGTCTGCGCTCGGCGTATTTGCTCTAACTATGCCTCTTCCGGTGACCAGTCCAACTACGGGAAGAAGCTTATGGATAGTATTTTTGTGGCATGCACTTCCGTTGCCTTGTCTTTCTCTCTCTATATAGCAGACGTTGACCCTGCCTCGGCTTTTGTAGTCACTTCACCCAGGAAATTGCAGACTGATGAACTTGCTACTGTTCGTCTCTTCCAAGAGAATACACCTTCCGTTGTGTATATTACTAATCTTGCTTCCAG.......................................................................................................................................................................................GCAGGATATGTTCACACTGGATGTATTTGAGGTGCCTCAAGGGTCTGGGTCAGGCTTCGTCTGGGATAAAAATGGAAATATTGTTACTAATTATCATGTGATTCGAGGTGCTTCTGATCTCAG...................................................................................................................................................................................................................................................................................................................AGTGACTCTTGCTGATCAAACTACTTATGATGCAAAAGTTGTTGGATTTGACCAAGATAAAGATGTTGCTGTGTTGCATATTGATGCACCAAAAGACAAGTTGCGACCTATACCAATTGGCGTATCGGCAGACTTGCTCGTTGGTCAAAAAGTATTTGCTATTGGAAATCCA....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTGGACTTGATCATACACTCACCACTGGTGTAATCAG............................................................................................................................................................................................................................................................................................................................................................................................................................TGGGCTTAGGAGAGAAATCAATTCTGCGGCTACTGGCCGCCCAATCCAAGATGTTATTCAGACAGATGCAGCAATCAATCCTGGTAACAGTGGAGGGCCACTTCTAGATAGTTCTGGAAATCTTATTGGAATAAATACTGCTATATATTCTCCTTCCGGTGCATCATCAGGTGTTGGATTTTCAATTCCAGTTGATACT......................................................................................................................................................................................GTCAGTGGCATTGTTGATCAGTTAGTGCAGTTTGGGAAAGTCACAAGGCCAATTTTGGGCATAAAGTTTGCACCTGATCAGTCCGTTGAGCAACTGGGAGTCACTGGAGTACTTGTCCTGGATGCTCCTCCAAATGGTCCTGCAGGCAAAGCA........................................................................................................................................................................................................GGTCTTCTACCTACTAAACGTGATTCCTACGGAAGACTTATTTTAGGTGATATAATCACATCTATAAATGGAAAGAAGGTCTCTAATGGCACCGACTTGTACAGAATTCTTGACCAATGCAAAGTTGGAGAAAAG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTAATTGTGGAAGTGCTGCGTGGGGATCAGAAAGAGAAGATCCCTGTACTTCTGGAACCAAAGCCTGAAGAATCGTAGTTCCTCAAATGGATAGAGTATGTGTTGATATGCATTTCTTGGCGAACAAGCCCATATTATTAGTGCATCAATTGTTGAATGGTTGTGTATATACAAAACAACGCTTAAAACTAGGGTGCAAGCAATATAGTTGGGAGTCTAACACTGCTGCCTAA</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-C02HBa0190P16-RQ8ln/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="T1003" ref_strand="+" ref_description="T1003">
      <seq>gcttcgactgtgataaaaatggaaatattgttactaattatcatgtgattcgaggtgcttctgatctcaaagtgactcttgctgatcaaactacttatgatgcaaacgttgttggatttgaccaagatcaagatgttgctgtgttgcatattgatgcaccaaaagacaagttgcgacctataccaattggcgtctcggcagacttgctcgttggtcaaaaagtatttgctattggaaatccatttggacttgatcatacactcaccactggtgtaatcagtgggcttaggagagaaatcaattctgcggctactggccgaccaatccaagatgttattcagacagatgcagcaatcaatcctggtaacagtggagggccacttatagatagttctggaaatcttattggaataaatactgctatatattctccttccggagcatcatcaggtgttggattttcaattccagttgatactgacagtggcattgatgatcagttagtgcagtttgggaaagtcacaatgccaattctgggcataaagatcgcacctgatcagtccgtagagcaactggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C02HBa0190P16-RQ8ln/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C02HBa0190P16.1" temp_strand="-" temp_description="C02HBa0190P16.1  AC215415.2 htgs_phase:3 submitted_to_sgn_as:C02HBa0190P16 sequenced_by:kribb upload_account_name:korea">
        <position start="22638" stop="19837"/>
      </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="22338" g_stop="22269" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="70" r_length="70" r_score="0.957"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22268" i_stop="21962" i_length="307">
            <donor d_prob="0.997" d_score="0.98"/>
            <acceptor a_prob="0.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="21961" g_stop="21790" g_length="172"/>
          <reference_exon_boundary r_type="cDNA" r_start="71" r_stop="242" r_length="172" r_score="0.983"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="21789" i_stop="21066" i_length="724">
            <donor d_prob="0.928" d_score="0.98"/>
            <acceptor a_prob="0.991" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="21065" g_stop="21028" g_length="38"/>
          <reference_exon_boundary r_type="cDNA" r_start="243" r_stop="280" r_length="38" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21027" i_stop="20616" i_length="412">
            <donor d_prob="0.968" d_score="0.00"/>
            <acceptor a_prob="0.886" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="20615" g_stop="20417" g_length="199"/>
          <reference_exon_boundary r_type="cDNA" r_start="281" r_stop="479" r_length="199" r_score="0.985"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="20416" i_stop="20235" i_length="182">
            <donor d_prob="0.996" d_score="0.98"/>
            <acceptor a_prob="0.999" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="20234" g_stop="20137" g_length="98"/>
          <reference_exon_boundary r_type="cDNA" r_start="480" r_stop="577" r_length="98" r_score="0.929"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C02HBa0190P16.1" gen_strand="-" ref_id="T1003" ref_strand="+">
        <total_alignment_score>0.970</total_alignment_score>
        <cumulative_length_of_scored_exons>577</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C02HBa0190P16.1" gen_strand="-"/>
        <rDNA rDNA_id="T1003" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22338" e_stop="22269"/>
          <exon e_start="21961" e_stop="21790"/>
          <exon e_start="21065" e_stop="21028"/>
          <exon e_start="20615" e_stop="20417"/>
          <exon e_start="20234" e_stop="20137"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTTCGTCTGGGATAAAAATGGAAATATTGTTACTAATTATCATGTGATTCGAGGTGCTTCTGATCTCAGGTGAGTTAATTGGCAACTGGAAACACATTTTTCTGATTTAAACAAGTTTCTATTTATTAGTATCTGCCTAAATGATTTCAGTTTCAAGTTCCTTGCCACAGTCCTCATATTATTTCTATATGCTATCTGACTGCTCTTATACTAGCATGATTCTACAACTTCGATTGTCTTAGCTAATCGTGGAGTATTAGGAAACCTGCAATTTTTTTCATGATATGAATTTGTTTGGATTGAACAGTCTGTTAGTTGCTTAATTATGGTTTTACGCTCTAATTGCTAGTACTAATATAGTCTTAGTCTTGCTCAGAGTGACTCTTGCTGATCAAACTACTTATGATGCAAAAGTTGTTGGATTTGACCAAGATAAAGATGTTGCTGTGTTGCATATTGATGCACCAAAAGACAAGTTGCGACCTATACCAATTGGCGTATCGGCAGACTTGCTCGTTGGTCAAAAAGTATTTGCTATTGGAAATCCAGTATGTGACGAAATACAAACCTGCTAGAGAATTCTGTTCATGTAATAATAGTACTTTTATCTGCTCTGTTGTCCCTTCTCTAAACCTAGTTTGAGCCATTCTATATTCAGCTTTCGCTTTAGAGGAAAACTATCGTCTTGCAGGCGTTCATGAGCATTACAACAATTAGAAAGTATTAATTTGCATATAGAATGCTAGTGCATTTTGTTATCAATAAAATTTGTGCAAGTAAGGAAAAAAACCAACTGACAGCGAGTAAGGAAAAAAAACAACTGATAGCAAGTACAACTTAGTTCAGTCTTCTGGTTCAACTGCTTGCTTGTAAGCGCACCTTCTTCTCCAGCTAAAGAATCAGTATCTGAAAGTTGGCTGTTACTTCTGAACATTCATCGCCTGCTAATATTTTTAACTGCTTCTTTTCCCATTAGTTTAAAGCATAACAATTCCCCCCCTGTAGTGCTCCAACTTCTGCCAAAATGTGTCACTGACTTGCACTTAAATCAAATTACTTTTTAAGGGCCCTAAAACAATTGTTGACTTACACATTGAAAATCTCTTGTTGCAATGAGTATATGTTTCTTGTGTTTAGGTACCCCACCACTTCACACCTCTTTTTCCTCTTTATTCATATAAATTTACTATAAAACATGAATATTTTACTTCTCTTTTATGTTTCATATGTTAAACACATGATGAATGATTTATAATGTAAATATCTTTGCAGTTTGGACTTGATCATACACTCACCACTGGTGTAATCAGGTATTTAGACATTTCATTTATGGTGTGCAGGTTCCTAATGTTCAGATATTCCAGTGAAATGGTGTTAACTATGTTTCTGTGAAGATAGGAGATGAAATAAATGAATCTAGCCACTCAAAGTCGTGGTAAAAATGACGTTAACTTCTTCCATTGTTTAAAACGGAGATGAAGTAGAGAATTTTGTTTAATCTTTTCCGTGTATTCAACTGTAAGACTAGCCTTGTGATGTTGACGTGGTTGTCACTGTTGAGTGCCTTGCACCCATAAATTCCAAGAAGCAAACATAAATACTAACCATATGTCATGGTAAATGGATACATATGCATAAGCAAGCTGTGTTGGATATGGATTAACTTAATGCTATGGATCATGCATATTCTTTAACATCACTGATCAATTTATATGTTTCTAGTGGGCTTAGGAGAGAAATCAATTCTGCGGCTACTGGCCGCCCAATCCAAGATGTTATTCAGACAGATGCAGCAATCAATCCTGGTAACAGTGGAGGGCCACTTCTAGATAGTTCTGGAAATCTTATTGGAATAAATACTGCTATATATTCTCCTTCCGGTGCATCATCAGGTGTTGGATTTTCAATTCCAGTTGATACTGTAAGTTGTTATTTGTCTTTCAGAATTTTATTATTTGCAATGCTGATTGAAACTTTTAGGTTAAACATACTTCCCCATATAAAGCAAACTGATTTATTACACCCTGTGGTTCAGAAAGTTGCCCTTGCTTCTACTACGATGTGGTAGTCTCTCCCTGATGATTTTGATTTTTACCTATTCAGGTCAGTGGCATTGTTGATCAGTTAGTGCAGTTTGGGAAAGTCACAAGGCCAATTTTGGGCATAAAGTTTGCACCTGATCAGTCCGTTGAGCAACTGGG</genome_strand>
        <mrna_strand>GCTTCGACTGTGATAAAAATGGAAATATTGTTACTAATTATCATGTGATTCGAGGTGCTTCTGATCTCAA...................................................................................................................................................................................................................................................................................................................AGTGACTCTTGCTGATCAAACTACTTATGATGCAAACGTTGTTGGATTTGACCAAGATCAAGATGTTGCTGTGTTGCATATTGATGCACCAAAAGACAAGTTGCGACCTATACCAATTGGCGTCTCGGCAGACTTGCTCGTTGGTCAAAAAGTATTTGCTATTGGAAATCCA....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTGGACTTGATCATACACTCACCACTGGTGTAATCAG............................................................................................................................................................................................................................................................................................................................................................................................................................TGGGCTTAGGAGAGAAATCAATTCTGCGGCTACTGGCCGACCAATCCAAGATGTTATTCAGACAGATGCAGCAATCAATCCTGGTAACAGTGGAGGGCCACTTATAGATAGTTCTGGAAATCTTATTGGAATAAATACTGCTATATATTCTCCTTCCGGAGCATCATCAGGTGTTGGATTTTCAATTCCAGTTGATACT......................................................................................................................................................................................GACAGTGGCATTGATGATCAGTTAGTGCAGTTTGGGAAAGTCACAATGCCAATTCTGGGCATAAAGATCGCACCTGATCAGTCCGTAGAGCAACTGGG</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-C02HBa0190P16-RQ8ln/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="T0628" ref_strand="+" ref_description="T0628">
      <seq>gtactctggagtaggagcagccattgaatacgccgttcttcatcttaaggtggagaacatcgttgtcattggccacagtgcttgtggaggtatcaaaggtctcatgtcactacctgaagatggtagtgaatcaactgcctttattgaggattgggtaaaaatttgtttacctgccaaggcaaaggttctggccgatcacggagggaaagaatttgcacatcaatgcacagcttgtgagaaggaagctgtgaacgtttcacttggaaatctgcttacgtatccattcgtgagagaaggattggtgaagaaaacattggcattgaagggaggttactatgatttcttgaagggtggatttgagctgtggggacttgagttcggtctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C02HBa0190P16-RQ8ln/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C02HBa0190P16.1" temp_strand="-" temp_description="C02HBa0190P16.1  AC215415.2 htgs_phase:3 submitted_to_sgn_as:C02HBa0190P16 sequenced_by:kribb upload_account_name:korea">
        <position start="26383" stop="25242"/>
      </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="26083" g_stop="25949" g_length="135"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="135" r_length="135" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25948" i_stop="25872" i_length="77">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.948" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25871" g_stop="25766" g_length="106"/>
          <reference_exon_boundary r_type="cDNA" r_start="136" r_stop="241" r_length="106" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="25765" i_stop="25686" i_length="80">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="25685" g_stop="25542" g_length="144"/>
          <reference_exon_boundary r_type="cDNA" r_start="242" r_stop="385" r_length="144" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C02HBa0190P16.1" gen_strand="-" ref_id="T0628" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>385</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C02HBa0190P16.1" gen_strand="-"/>
        <rDNA rDNA_id="T0628" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="26083" e_stop="25949"/>
          <exon e_start="25871" e_stop="25766"/>
          <exon e_start="25685" e_stop="25542"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTACTCTGGAGTAGGAGCAGCCATTGAATACGCCGTTCTTCATCTTAAGGTGGAGAACATCGTTGTCATTGGCCACAGTGCTTGTGGAGGTATCAAAGGTCTCATGTCACTACCTGAAGATGGTAGTGAATCAACGTACGTCACTCTATAAATCTATTCATTCAAAACACTTATCCTTAACAGATGATTGATTAATAATCTAATATACGCAGTGCCTTTATTGAGGATTGGGTAAAAATTTGTTTACCTGCCAAGGCAAAGGTTCTGGCCGATCACGGAGGGAAAGAATTTGCACATCAATGCACAGCTTGTGAGAAGGTAAAATTCAAATTTAACTTTTTGATTATCAATTAATTACATATATAGCAGTATTTTATAATTGATGAAAAATGTTGCAGGAAGCTGTGAACGTTTCACTTGGAAATCTGCTTACGTATCCATTCGTGAGAGAAGGATTGGTGAAGAAAACATTGGCATTGAAGGGAGGTTACTATGATTTCGTGAAGGGTGGATTTGAGCTGTGGGGACTTGAGTTCGGTCTT</genome_strand>
        <mrna_strand>GTACTCTGGAGTAGGAGCAGCCATTGAATACGCCGTTCTTCATCTTAAGGTGGAGAACATCGTTGTCATTGGCCACAGTGCTTGTGGAGGTATCAAAGGTCTCATGTCACTACCTGAAGATGGTAGTGAATCAAC.............................................................................TGCCTTTATTGAGGATTGGGTAAAAATTTGTTTACCTGCCAAGGCAAAGGTTCTGGCCGATCACGGAGGGAAAGAATTTGCACATCAATGCACAGCTTGTGAGAAG................................................................................GAAGCTGTGAACGTTTCACTTGGAAATCTGCTTACGTATCCATTCGTGAGAGAAGGATTGGTGAAGAAAACATTGGCATTGAAGGGAGGTTACTATGATTTCTTGAAGGGTGGATTTGAGCTGTGGGGACTTGAGTTCGGTCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>3</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="23002" PGL_stop="19058"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="23002" e_stop="22575"/>
            <exon e_start="22391" e_stop="22269"/>
            <exon e_start="21961" e_stop="21790"/>
            <exon e_start="21065" e_stop="21028"/>
            <exon e_start="20615" e_stop="20417"/>
            <exon e_start="20234" e_stop="20082"/>
            <exon e_start="19881" e_stop="19747"/>
            <exon e_start="19290" e_stop="19058"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.964" acc_prob="0.997" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="0.000" e_score="1.000"/>
          <exon-intron don_prob="0.928" acc_prob="0.991" e_score="1.000"/>
          <exon-intron don_prob="0.968" acc_prob="0.886" e_score="1.000"/>
          <exon-intron don_prob="0.996" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.908" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.995" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="23002" e_stop="22575" e_length="428"/>
          </exon>
          <intron i_serial="1" don_prob="0.964" acc_prob="0.997">
            <gDNA_intron_boundary i_start="22574" i_stop="22392" i_length="183"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="22391" e_stop="22269" e_length="123"/>
          </exon>
          <intron i_serial="2" don_prob="0.997" acc_prob="0.000">
            <gDNA_intron_boundary i_start="22268" i_stop="21962" i_length="307"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="21961" e_stop="21790" e_length="172"/>
          </exon>
          <intron i_serial="3" don_prob="0.928" acc_prob="0.991">
            <gDNA_intron_boundary i_start="21789" i_stop="21066" i_length="724"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="21065" e_stop="21028" e_length="38"/>
          </exon>
          <intron i_serial="4" don_prob="0.968" acc_prob="0.886">
            <gDNA_intron_boundary i_start="21027" i_stop="20616" i_length="412"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="20615" e_stop="20417" e_length="199"/>
          </exon>
          <intron i_serial="5" don_prob="0.996" acc_prob="0.999">
            <gDNA_intron_boundary i_start="20416" i_stop="20235" i_length="182"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="20234" e_stop="20082" e_length="153"/>
          </exon>
          <intron i_serial="6" don_prob="1.000" acc_prob="0.908">
            <gDNA_intron_boundary i_start="20081" i_stop="19882" i_length="200"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="19881" e_stop="19747" e_length="135"/>
          </exon>
          <intron i_serial="7" don_prob="0.999" acc_prob="0.995">
            <gDNA_intron_boundary i_start="19746" i_stop="19291" i_length="456"/>
          </intron>
          <exon e_serial="8" e_score="1.000">
            <gDNA_exon_boundary e_start="19290" e_stop="19058" e_length="233"/>
          </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="23002" stop="22575"/>
              <exon start="22391" stop="22269"/>
              <exon start="21961" stop="21790"/>
              <exon start="21065" stop="21028"/>
              <exon start="20615" stop="20417"/>
              <exon start="20234" stop="20082"/>
              <exon start="19881" stop="19747"/>
              <exon start="19290" stop="19058"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="C2_At3g27925" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22338" stop="22269"/>
              <exon start="21961" stop="21790"/>
              <exon start="21065" stop="21028"/>
              <exon start="20615" stop="20417"/>
              <exon start="20234" stop="20137"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="T1003" 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>TCCTCTTTGCTCTCACCAGTTGTCTTCTTAACAATGGCTGCATCTTCACACTCCCTAGCTTCTTCTGCTTGCTTCTCCACAACTCCGGCACGGAAATTTTCCGGCTCAGATCGATTTCAACTTGCTAAGTCTTTACTCTGCCGGAAAATACCTGGTTTCTCCGGCAGTGTGGTCTGCGCTCGGCGTATTTGCTCTAACTATGCCTCTTCCGGTGACCAGTCCAACTACGGGAAGAAGCTTATGGATAGTATTTTTGTGGCATGCACTTCCGTTGCCTTGTCTTTCTCTCTCTATATAGCAGACGTTGACCCTGCCTCGGCTTTTGTAGTCACTTCACCCAGGAAATTGCAGACTGATGAACTTGCTACTGTTCGTCTCTTCCAAGAGAATACACCTTCCGTTGTGTATATTACTAATCTTGCTTCCAG : GCAGGATATGTTCACACTGGATGTATTTGAGGTGCCTCAAGGGTCTGGGTCAGGCTTCGTCTGGGATAAAAATGGAAATATTGTTACTAATTATCATGTGATTCGAGGTGCTTCTGATCTCAG : AGTGACTCTTGCTGATCAAACTACTTATGATGCAAAAGTTGTTGGATTTGACCAAGATAAAGATGTTGCTGTGTTGCATATTGATGCACCAAAAGACAAGTTGCGACCTATACCAATTGGCGTATCGGCAGACTTGCTCGTTGGTCAAAAAGTATTTGCTATTGGAAATCCA : TTTGGACTTGATCATACACTCACCACTGGTGTAATCAG : TGGGCTTAGGAGAGAAATCAATTCTGCGGCTACTGGCCGCCCAATCCAAGATGTTATTCAGACAGATGCAGCAATCAATCCTGGTAACAGTGGAGGGCCACTTCTAGATAGTTCTGGAAATCTTATTGGAATAAATACTGCTATATATTCTCCTTCCGGTGCATCATCAGGTGTTGGATTTTCAATTCCAGTTGATACT : GTCAGTGGCATTGTTGATCAGTTAGTGCAGTTTGGGAAAGTCACAAGGCCAATTTTGGGCATAAAGTTTGCACCTGATCAGTCCGTTGAGCAACTGGGAGTCACTGGAGTACTTGTCCTGGATGCTCCTCCAAATGGTCCTGCAGGCAAAGCA : GGTCTTCTACCTACTAAACGTGATTCCTACGGAAGACTTATTTTAGGTGATATAATCACATCTATAAATGGAAAGAAGGTCTCTAATGGCACCGACTTGTACAGAATTCTTGACCAATGCAAAGTTGGAGAAAAG : GTAATTGTGGAAGTGCTGCGTGGGGATCAGAAAGAGAAGATCCCTGTACTTCTGGAACCAAAGCCTGAAGAATCGTAGTTCCTCAAATGGATAGAGTATGTGTTGATATGCATTTCTTGGCGAACAAGCCCATATTATTAGTGCATCAATTGTTGAATGGTTGTGTATATACAAAACAACGCTTAAAACTAGGGTGCAAGCAATATAGTTGGGAGTCTAACACTGCTGCCTAA</gDNA_template>
            <first_frame> S  S  L  L  S  P  V  V  F  L  T  M  A  A  S  S  H  S  L  A  S  S  A  C  F  S  T  T  P  A  R  K  F  S  G  S  D  R  F  Q  L  A  K  S  L  L  C  R  K  I  P  G  F  S  G  S  V  V  C  A  R  R  I  C  S  N  Y  A  S  S  G  D  Q  S  N  Y  G  K  K  L  M  D  S  I  F  V  A  C  T  S  V  A  L  S  F  S  L  Y  I  A  D  V  D  P  A  S  A  F  V  V  T  S  P  R  K  L  Q  T  D  E  L  A  T  V  R  L  F  Q  E  N  T  P  S  V  V  Y  I  T  N  L  A  S  R :   Q  D  M  F  T  L  D  V  F  E  V  P  Q  G  S  G  S  G  F  V  W  D  K  N  G  N  I  V  T  N  Y  H  V  I  R  G  A  S  D  L  R :   V  T  L  A  D  Q  T  T  Y  D  A  K  V  V  G  F  D  Q  D  K  D  V  A  V  L  H  I  D  A  P  K  D  K  L  R  P  I  P  I  G  V  S  A  D  L  L  V  G  Q  K  V  F  A  I  G  N  P  :  F  G  L  D  H  T  L  T  T  G  V  I  S :   G  L  R  R  E  I  N  S  A  A  T  G  R  P  I  Q  D  V  I  Q  T  D  A  A  I  N  P  G  N  S  G  G  P  L  L  D  S  S  G  N  L  I  G  I  N  T  A  I  Y  S  P  S  G  A  S  S  G  V  G  F  S  I  P  V  D  T  :  V  S  G  I  V  D  Q  L  V  Q  F  G  K  V  T  R  P  I  L  G  I  K  F  A  P  D  Q  S  V  E  Q  L  G  V  T  G  V  L  V  L  D  A  P  P  N  G  P  A  G  K  A  :  G  L  L  P  T  K  R  D  S  Y  G  R  L  I  L  G  D  I  I  T  S  I  N  G  K  K  V  S  N  G  T  D  L  Y  R  I  L  D  Q  C  K  V  G  E  K  :  V  I  V  E  V  L  R  G  D  Q  K  E  K  I  P  V  L  L  E  P  K  P  E  E  S  *  F  L  K  W  I  E  Y  V  L  I  C  I  S  W  R  T  S  P  Y  Y  *  C  I  N  C  *  M  V  V  Y  I  Q  N  N  A  *  N  *  G  A  S  N  I  V  G  S  L  T  L  L  P   </first_frame>
            <second_frame>  P  L  C  S  H  Q  L  S  S  *  Q  W  L  H  L  H  T  P  *  L  L  L  L  A  S  P  Q  L  R  H  G  N  F  P  A  Q  I  D  F  N  L  L  S  L  Y  S  A  G  K  Y  L  V  S  P  A  V  W  S  A  L  G  V  F  A  L  T  M  P  L  P  V  T  S  P  T  T  G  R  S  L  W  I  V  F  L  W  H  A  L  P  L  P  C  L  S  L  S  I  *  Q  T  L  T  L  P  R  L  L  *  S  L  H  P  G  N  C  R  L  M  N  L  L  L  F  V  S  S  K  R  I  H  L  P  L  C  I  L  L  I  L  L  P   : G  R  I  C  S  H  W  M  Y  L  R  C  L  K  G  L  G  Q  A  S  S  G  I  K  M  E  I  L  L  L  I  I  M  *  F  E  V  L  L  I  S   : E  *  L  L  L  I  K  L  L  M  M  Q  K  L  L  D  L  T  K  I  K  M  L  L  C  C  I  L  M  H  Q  K  T  S  C  D  L  Y  Q  L  A  Y  R  Q  T  C  S  L  V  K  K  Y  L  L  L  E  I  H :   L  D  L  I  I  H  S  P  L  V  *  S   : V  G  L  G  E  K  S  I  L  R  L  L  A  A  Q  S  K  M  L  F  R  Q  M  Q  Q  S  I  L  V  T  V  E  G  H  F  *  I  V  L  E  I  L  L  E  *  I  L  L  Y  I  L  L  P  V  H  H  Q  V  L  D  F  Q  F  Q  L  I  L :   S  V  A  L  L  I  S  *  C  S  L  G  K  S  Q  G  Q  F  W  A  *  S  L  H  L  I  S  P  L  S  N  W  E  S  L  E  Y  L  S  W  M  L  L  Q  M  V  L  Q  A  K  Q :   V  F  Y  L  L  N  V  I  P  T  E  D  L  F  *  V  I  *  S  H  L  *  M  E  R  R  S  L  M  A  P  T  C  T  E  F  L  T  N  A  K  L  E  K  R :   *  L  W  K  C  C  V  G  I  R  K  R  R  S  L  Y  F  W  N  Q  S  L  K  N  R  S  S  S  N  G  *  S  M  C  *  Y  A  F  L  G  E  Q  A  H  I  I  S  A  S  I  V  E  W  L  C  I  Y  K  T  T  L  K  T  R  V  Q  A  I  *  L  G  V  *  H  C  C  L  </second_frame>
            <third_frame>   L  F  A  L  T  S  C  L  L  N  N  G  C  I  F  T  L  P  S  F  F  C  L  L  L  H  N  S  G  T  E  I  F  R  L  R  S  I  S  T  C  *  V  F  T  L  P  E  N  T  W  F  L  R  Q  C  G  L  R  S  A  Y  L  L  *  L  C  L  F  R  *  P  V  Q  L  R  E  E  A  Y  G  *  Y  F  C  G  M  H  F  R  C  L  V  F  L  S  L  Y  S  R  R  *  P  C  L  G  F  C  S  H  F  T  Q  E  I  A  D  *  *  T  C  Y  C  S  S  L  P  R  E  Y  T  F  R  C  V  Y  Y  *  S  C  F  Q  :  A  G  Y  V  H  T  G  C  I  *  G  A  S  R  V  W  V  R  L  R  L  G  *  K  W  K  Y  C  Y  *  L  S  C  D  S  R  C  F  *  S  Q  :  S  D  S  C  *  S  N  Y  L  *  C  K  S  C  W  I  *  P  R  *  R  C  C  C  V  A  Y  *  C  T  K  R  Q  V  A  T  Y  T  N  W  R  I  G  R  L  A  R  W  S  K  S  I  C  Y  W  K  S   : I  W  T  *  S  Y  T  H  H  W  C  N  Q  :  W  A  *  E  R  N  Q  F  C  G  Y  W  P  P  N  P  R  C  Y  S  D  R  C  S  N  Q  S  W  *  Q  W  R  A  T  S  R  *  F  W  K  S  Y  W  N  K  Y  C  Y  I  F  S  F  R  C  I  I  R  C  W  I  F  N  S  S  *  Y   : C  Q  W  H  C  *  S  V  S  A  V  W  E  S  H  K  A  N  F  G  H  K  V  C  T  *  S  V  R  *  A  T  G  S  H  W  S  T  C  P  G  C  S  S  K  W  S  C  R  Q  S   : R  S  S  T  Y  *  T  *  F  L  R  K  T  Y  F  R  *  Y  N  H  I  Y  K  W  K  E  G  L  *  W  H  R  L  V  Q  N  S  *  P  M  Q  S  W  R  K   : G  N  C  G  S  A  A  W  G  S  E  R  E  D  P  C  T  S  G  T  K  A  *  R  I  V  V  P  Q  M  D  R  V  C  V  D  M  H  F  L  A  N  K  P  I  L  L  V  H  Q  L  L  N  G  C  V  Y  T  K  Q  R  L  K  L  G  C  K  Q  Y  S  W  E  S  N  T  A  A  * </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="C02HBa0190P16.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="23002" stop="22575"/>
                    <exon start="22391" stop="22269"/>
                    <exon start="21961" stop="21790"/>
                    <exon start="21065" stop="21028"/>
                    <exon start="20615" stop="20417"/>
                    <exon start="20234" stop="20082"/>
                    <exon start="19881" stop="19747"/>
                    <exon start="19290" stop="19213"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>1323</number_coding_nucleotides>
                  <number_encoded_amino_acids>441</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SSLLSPVVFLTMAASSHSLASSACFSTTPARKFSGSDRFQLAKSLLCRKIPGFSGSVVCARRICSNYASSGDQSNYGKKLMDSIFVACTSVALSFSLYIADVDPASAFVVTSPRKLQTDELATVRLFQENTPSVVYITNLASRQDMFTLDVFEVPQGSGSGFVWDKNGNIVTNYHVIRGASDLRVTLADQTTYDAKVVGFDQDKDVAVLHIDAPKDKLRPIPIGVSADLLVGQKVFAIGNPFGLDHTLTTGVISGLRREINSAATGRPIQDVIQTDAAINPGNSGGPLLDSSGNLIGINTAIYSPSGASSGVGFSIPVDTVSGIVDQLVQFGKVTRPILGIKFAPDQSVEQLGVTGVLVLDAPPNGPAGKAGLLPTKRDSYGRLILGDIITSINGKKVSNGTDLYRILDQCKVGEKVIVEVLRGDQKEKIPVLLEPKPEES*</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="26083" PGL_stop="25542"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="26083" e_stop="25949"/>
            <exon e_start="25871" e_stop="25766"/>
            <exon e_start="25685" e_stop="25542"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="0.948" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.997" e_score="1.000"/>
          <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="1.000">
            <gDNA_exon_boundary e_start="26083" e_stop="25949" e_length="135"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="0.948">
            <gDNA_intron_boundary i_start="25948" i_stop="25872" i_length="77"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="25871" e_stop="25766" e_length="106"/>
          </exon>
          <intron i_serial="2" don_prob="1.000" acc_prob="0.997">
            <gDNA_intron_boundary i_start="25765" i_stop="25686" i_length="80"/>
          </intron>
          <exon e_serial="3" e_score="0.993">
            <gDNA_exon_boundary e_start="25685" e_stop="25542" e_length="144"/>
          </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="26083" stop="25949"/>
              <exon start="25871" stop="25766"/>
              <exon start="25685" stop="25542"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="T0628" 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>GTACTCTGGAGTAGGAGCAGCCATTGAATACGCCGTTCTTCATCTTAAGGTGGAGAACATCGTTGTCATTGGCCACAGTGCTTGTGGAGGTATCAAAGGTCTCATGTCACTACCTGAAGATGGTAGTGAATCAAC : TGCCTTTATTGAGGATTGGGTAAAAATTTGTTTACCTGCCAAGGCAAAGGTTCTGGCCGATCACGGAGGGAAAGAATTTGCACATCAATGCACAGCTTGTGAGAAG : GAAGCTGTGAACGTTTCACTTGGAAATCTGCTTACGTATCCATTCGTGAGAGAAGGATTGGTGAAGAAAACATTGGCATTGAAGGGAGGTTACTATGATTTCGTGAAGGGTGGATTTGAGCTGTGGGGACTTGAGTTCGGTCTT</gDNA_template>
            <first_frame> V  L  W  S  R  S  S  H  *  I  R  R  S  S  S  *  G  G  E  H  R  C  H  W  P  Q  C  L  W  R  Y  Q  R  S  H  V  T  T  *  R  W  *  *  I  N  :  C  L  Y  *  G  L  G  K  N  L  F  T  C  Q  G  K  G  S  G  R  S  R  R  E  R  I  C  T  S  M  H  S  L  *  E   : G  S  C  E  R  F  T  W  K  S  A  Y  V  S  I  R  E  R  R  I  G  E  E  N  I  G  I  E  G  R  L  L  *  F  R  E  G  W  I  *  A  V  G  T  *  V  R  S  </first_frame>
            <second_frame>  Y  S  G  V  G  A  A  I  E  Y  A  V  L  H  L  K  V  E  N  I  V  V  I  G  H  S  A  C  G  G  I  K  G  L  M  S  L  P  E  D  G  S  E  S  T :   A  F  I  E  D  W  V  K  I  C  L  P  A  K  A  K  V  L  A  D  H  G  G  K  E  F  A  H  Q  C  T  A  C  E  K  :  E  A  V  N  V  S  L  G  N  L  L  T  Y  P  F  V  R  E  G  L  V  K  K  T  L  A  L  K  G  G  Y  Y  D  F  V  K  G  G  F  E  L  W  G  L  E  F  G  L </second_frame>
            <third_frame>   T  L  E  *  E  Q  P  L  N  T  P  F  F  I  L  R  W  R  T  S  L  S  L  A  T  V  L  V  E  V  S  K  V  S  C  H  Y  L  K  M  V  V  N  Q   : L  P  L  L  R  I  G  *  K  F  V  Y  L  P  R  Q  R  F  W  P  I  T  E  G  K  N  L  H  I  N  A  Q  L  V  R  R :   K  L  *  T  F  H  L  E  I  C  L  R  I  H  S  *  E  K  D  W  *  R  K  H  W  H  *  R  E  V  T  M  I  S  *  R  V  D  L  S  C  G  D  L  S  S  V   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C02HBa0190P16.1" strand="-"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="26082" stop="25949"/>
                    <exon start="25871" stop="25766"/>
                    <exon start="25685" stop="25542"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>384</number_coding_nucleotides>
                  <number_encoded_amino_acids>128</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>YSGVGAAIEYAVLHLKVENIVVIGHSACGGIKGLMSLPEDGSESTAFIEDWVKICLPAKAKVLADHGGKEFAHQCTACEKEAVNVSLGNLLTYPFVREGLVKKTLALKGGYYDFVKGGFELWGLEFGL</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 64 chains have been computed
$ 
$ memory statistics:
$ 6584 bytes spliced alignments in total
$ 3 spliced alignments have been stored
$ 2194 bytes was the average size of a spliced alignment
$ 6992 bytes predicted gene locations in total
$ 2 predicted gene locations have been stored
$ 3496 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 64 backtrace matrices have been allocated
$ 
$ date finished: 2009-12-01 09:56:13
-->
