<?xml version="1.0" encoding="ISO-8859-1"?>
<GTH_output xmlns="http://www.genomethreader.org/GTH_output/" GTH_XML_version="1.1">
  <header xmlns="http://www.genomethreader.org/GTH_output/header/">
    <source program="GenomeThreader" version="0.9.54" build_date="2006-07-28 11:55:15" run_date="2009-01-17 11:45:40"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C07SLm0111C06-P2G61/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C07SLm0111C06-P2G61/gth_cdna_fileCXGN::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-C07SLm0111C06-P2G61/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M8782" ref_strand="+" ref_description="SGN-M8782 C2_At5g20520 [cosii_markers]">
      <seq>ggtggtgaaacaaaaaggcatatcagtgtagacatgaggagttaacaaccattacacaagaatttcactcattttcctcctccaattgctactgtcaattcaaaaaagcttagcttgagggaacagaaatggtgtcgtacatgagcttgttgctgtacggagtgggaggaatagtggtcgccgggatggcaatactggtcgcctttcaggaaaaacttgtatatgttcccgtcttacctggactcactaaggcatatccaattactcccgctcgacttcgactcctttacgaagatgtttggctcagatcttcagacggtgttcgtcttcatgcttggttcatcaaactcttccctgactgcagaggtcctactatcatcttttttcaagagaatgcaggaaatattgcacatcgtcttgaaatggttcgcataatgttacaacgtttgcaatgcaatgtttttatgctttcttatcgaggttacggagccagtgatggatacccttctcaacatggaatcacaaaggatgctcaggctgcactggatcatttagttcagaggaccgatattgacacatcaagaatagtagtctttggaaggtcacttggaggagctgttggcactgttcttaccaaaaacaatcctgacaaggtagctgggctcattttggagaatactttcacctctatcctggatatggcaggagttctcttgccattcttgaagtgggtcattggtggcagtggctcaaagggtttcaagcttcttaactttgttgttcgatctccatggaataccattgatgtcattggtgagatcaggcaaccaatcctcttcctatctggattacaagatgagatggttccaccattccacatgcagatgctgtatgcaaaggcagcggcacgtaacaggcaatgcttatttgtggaatttcctagtgggatgcacatggatacctggttggcaggtggtgatcattattggaggacaattcagaaatatttggaagaaactgtcccagagaagaaggatgatgaatcaaagaaggattccgaactgtcctctaagcaaaatgtatcttcagatttcgctgcaagctgaaatgttgagtttcaggcagttcaaatgtaactttggattcgaggattcaaatacatttcttttgatgttgcagtgatgaagagcagtttgtgatatcaagggaatggaagtgcatcctttcaaatatttattcttctgatgatattttttggtgtcctattttcagaaggtaaaaagatgtgaagggtcttgatttatactgcatctcactaacaatactagggtgtcgaaatataggtccagctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C07SLm0111C06-P2G61/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C07SLm0111C06.1" temp_strand="-" temp_description="C07SLm0111C06.1  AC212654.1 htgs_phase:1 submitted_to_sgn_as:gi|158262147|gb|AC212654.1| upload_account_name:france Solanum lycopersicum chromosome 7 clone C07SLm0111C06, *** SEQUENCING IN PROGRESS ***, 12 unordered pieces">
        <position start="28133" stop="21197"/>
      </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="27833" g_stop="27468" g_length="366"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="366" r_length="366" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="27467" i_stop="26616" i_length="852">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.991" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="26615" g_stop="26580" g_length="36"/>
          <reference_exon_boundary r_type="cDNA" r_start="367" r_stop="402" r_length="36" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="26579" i_stop="26446" i_length="134">
            <donor d_prob="0.990" d_score="0.00"/>
            <acceptor a_prob="0.947" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="26445" g_stop="26367" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="403" r_stop="481" r_length="79" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="26366" i_stop="26269" i_length="98">
            <donor d_prob="0.803" d_score="1.00"/>
            <acceptor a_prob="0.984" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="26268" g_stop="26214" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="482" r_stop="536" r_length="55" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="26213" i_stop="26130" i_length="84">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="26129" g_stop="26013" g_length="117"/>
          <reference_exon_boundary r_type="cDNA" r_start="537" r_stop="653" r_length="117" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="26012" i_stop="24565" i_length="1448">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="24564" g_stop="24400" g_length="165"/>
          <reference_exon_boundary r_type="cDNA" r_start="654" r_stop="818" r_length="165" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="24399" i_stop="22660" i_length="1740">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.899" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="22659" g_stop="22398" g_length="262"/>
          <reference_exon_boundary r_type="cDNA" r_start="819" r_stop="1080" r_length="262" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="22397" i_stop="21769" i_length="629">
            <donor d_prob="0.979" d_score="1.00"/>
            <acceptor a_prob="0.938" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="21768" g_stop="21497" g_length="272"/>
          <reference_exon_boundary r_type="cDNA" r_start="1081" r_stop="1352" r_length="272" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C07SLm0111C06.1" gen_strand="-" ref_id="SGN-M8782" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>1352</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C07SLm0111C06.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M8782" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="27833" e_stop="27468"/>
          <exon e_start="26615" e_stop="26580"/>
          <exon e_start="26445" e_stop="26367"/>
          <exon e_start="26268" e_stop="26214"/>
          <exon e_start="26129" e_stop="26013"/>
          <exon e_start="24564" e_stop="24400"/>
          <exon e_start="22659" e_stop="22398"/>
          <exon e_start="21768" e_stop="21497"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTGGTGAAACAAAAAGGCATATCAGTGTAGACATGAGGAGTTAACAACCATTACACAAGAATTTCACTCATTTTCCTCCTCCAATTGCTACTGTCAATTCAAAAAAGCTTAGCTTGAGGGAACAGAAATGGTGTCGTACATGAGCTTGTTGCTGTACGGAGTGGGAGGAATAGTGGTCGCCGGGATGGCAATACTGGTCGCCTTTCAGGAAAAACTTGTATATGTTCCCGTCTTACCTGGACTCACTAAGGCATATCCAATTACTCCCGCTCGACTTCGACTCCTTTACGAAGATGTTTGGCTCAGATCTTCAGACGGTGTTCGTCTTCATGCTTGGTTCATCAAACTCTTCCCTGACTGCAGAGGTCTCTCTTAAACTGCCTTTTCTTATGTTTTATCTACTCTAATTACACCAGATGGCCGTAATTTGTTTTCGATTTGTCATTTTCATCCATATTTTTTCAAGTTACTAGTGAACTTGTGGATGATTTTTGACCTAATTTCACTTGTACAACCTTTTTAGTTTATGTTTTACCTGAATTGTGCGAAAGAATGGATTAATGTTTATAGAAATAAGAGTTACTTTTTGAACGGAATAAGATTGGTTGATGCGGTTTTCTGATTTGTTCCTCAAATTTACTTGATAAATGATTCTTTGAGTAATTTATTTGTGCAAATGAGCTATGTTGTTCATGGAAAATGATTAATTCCTGGATCCCAAGAGTTTAGAATTAGTTGGTACCTATGTCTGCCAATAGTTTCGACAAAATCTAGTGGGGGCAAACTGTTAGAATGCTGCTACAGATAGATGCACATCAACATCTATCAGCGGAGATTAAAAATCCTGATTGTAAATTAGTGTATATGATAGTGGTTATTATGTTGCCAAGGCAAGAAGTATGGATGTGGTGGCAGGGTTGCTAGTTAACCATCTATCAGAGCAAGAATTGAAGTCAAATGCAATATCGGCATTCACCTTTGAACTCCAAGTCAGTATCTCATTTGAAGTTTTAAACTAATATATTTTCAGTACAGTTAGCAACCTAACCACCTAGCTGGAGCATGCACAGCTATGATGTTTCCGCATTGTTTTCTACTGATGTAGGAAGTGGTGCTTACAAGGATTTTAAACTAATTTGGATGTGTTGTCCACATATGATTAGTTTTTGTTTGCTGGTTAGCGTAATTTATGCTGAGATACTATTTTGGTTCTGCAGGTCCTACTATCATCTTTTTTCAAGAGAATGCAGGAAGTATCCTTTTGTTATAATGTCTTCTTGAATGATTGCAGACCTTCCTTTTCTTAATCTTCTTCTTGCACTCGTGTTGTAAAAGTCAACTTTATCTCTTTTGGTTATCCTGGTTATCCTTTACTAATTAATTGCAGATATTGCACATCGTCTTGAAATGGTTCGCATAATGTTACAACGTTTGCAATGCAATGTTTTTATGCTTTCTTATCGAGGGTATAAATCATTTCCCCTTATTTGTTAGTTTCCTGTCTGTGTTGTCTTTGATTAAACTAGTGTCTTTTTCTTTTTCTAATAATTTTGTTGTAACAAAGTTACGGAGCCAGTGATGGATACCCTTCTCAACATGGAATCACAAAGGATGCTCAGGTTTTGTTAGCTTTCTCAATTTCATAGATTTTGACCCAAACCTTATTTTTGAAATTACATAATTGTGCTTGTCTTGTTCAATAGGCTGCACTGGATCATTTAGTTCAGAGGACCGATATTGACACATCAAGAATAGTAGTCTTTGGAAGGTCACTTGGAGGAGCTGTTGGCACTGTTCTTACCAAAAACAATCCTGACAAGGTAATGTAGCAATTTATTTTTCTTTTTGTCATGCTGTTACGTCTAATAATGTTATAAAGCCTGATTATCTCTAATTTGTTTAGTTTCCTTTTTACTCCTTAAATTTGAGTTCAACATAGGTTCCATCACGGAAAGAGAATTTATAGTACTTTGTCAAGTTTCTTTCAAACTTATATGCTCTATGGGTGCTCTTGGCTCCACCTGGTTGAAGTAAATAACTTTAGAGGCACTCTTTCGAGCTTGATAGGAATACAAGCTTTCAAGCGAAAACTAAACTAATCTGAGTTCATCACCAGCATGAGAGGGGCAACTTATAAATATGACGAAGAAAAAAAGAACTATTTCTTTTCTAGAATAAAAACAAAGCTGCGTTTCTTTCCCTTTAGAGTAAAGAGAAATCTCTTCTGCACCTAAACTATTGACCGTAAGATAAGTTACTAGCTTGTAATATTGTAGATGTCTGATTTAATTCCTTTTTTTTTTCACTTCTTCAATGGATGAGTTTAGGAGAATGTTTGCTCCCATTTTTCTCAAATAAAATAGAAGTCCATATAATCTTATGATGTTAGTCTCTTGGGTGTATAACCTCTACGATTTATCTCATGACGGTGATGTTCTTTAAGTACATTATCCTCTTTTGCGCTATTTGTTCATTATGTAACTAGAAACTTTTGATGTGCTTCTAGTATTGAGACCCCATCAGAACCCGAGTTTGTTTATCTTACTCCATTTCCACATACTTTAATCTTCATCCAATATTACATCCAGTTCATGCATACAAGAAGAGTTTGGTATCTGAAAGAATGTAATAGTAGTCGAATGTTCAACAGAATCTTTATTTGTATTACAGAAATCATTAATTCCACATGCCAAGTGAAAAAATCTCCCTTAATGCAGTTCCATGGTTTGATGTGAGTGACCCAACGATCTAGATTTGGTAATTATATTAGTATTCATCAGTTGATCCCGCGTTTCTTAGATGATCCACAAATTGATATGCCTTGATTCCCGCGTTTCTTAGATGATCTACAAATTGATATTCCTTGATTATGGTTTTCTTGTTTGATATTCAAGTTCCTTGTTTATGATTTTCCTGTTTGATGTGTGAGGTGATCAGTTTATTTTTGAGGTTTTCCCACTGCCAATTACGTATAGTTGATTAAGCATGTTCTGGGTCAAGCTGCATAGAATAGAGTCTGTCTATTTTGTTTAGGGGAATCTATATGAACCTCTTTTTTGTTTCTTTCTGTTCTGTGTCTTTATCTTTCCGGGTTTTATTCCAAACTTTTCTGTTCCAAGGTGTGTAACTTGTACATGTGTTTTGACATTCAAATCCTAGTTTTCTTTCACTATCGTAGGTTGCGGGGCTCATTTTGGAGAATACTTTCACCTCTATCCTGGATATGGTTTTTTGACATTCAAATCCTAGTTTTCTTTCACTAATGTAGGTAGCTGGGCTCATTTTGGAGAATACTTTCACCTCTATCCTGGATATGGCAGGAGTTCTCTTGCCATTCTTGAAGTGGGTCATTGGTGGCAGTGGCTCAAAGGGTTTCAAGCTTCTTAACTTTGTTGTTCGATCTCCATGGAATACCATTGATGTCATTGGTGAGGTGAGGATGCATCTTTATAACTCTCTCTGTCCCATTTGAATTGACTTGAGTTTACTTTTTCTTCAGAGTAAACTTCATTTTTTTTGTTTTATTGAGTATACTAAAGGTAGAGAAAGTTGTGAAGATGTCACTCAAGTTTGTAAAGTTTAAGTTAAGTTCTTGGAGGGATAAAAATTATGTTTCTAGCAAATAGTTCATAATTTTTAGGATGGACTAAATAGAACTGGGTAATTAAGTTGGATTGAGGTAATATATTTCATGGTTTGACTAATAGCGAAGTGTTTTAAAGTAGTAACGTGGATAAGTCATTTCTGATCCTTTTTTCTGAGTAGGCATTTGGCCATGGAAACTAAATATTTTTCACTTTATTTGGGATTTCTGAAGTTGAAGTTGAAGATGGATTTGTGTATGGTTATAGCTTTTGCAAAGAATATTTGGTTGCTAATTTTCAAAAAAAGAATATTTGGCTTCTTGAATGTTTCTTTTCCATAGAACATGAAAATAATGAAATATGATTTGTACCCCTCAATTTTTAAAAAATAGCATAACCATCAAACGTAATGAATTTACATGAAACATACAATCTGATTTCTCTATAAGAGTAATATCTCGTAATGGATAGTCATATAATATCATAAATAGGATACCACGTTTTTAAAAAGTGAATCTTTGTAGAAAAAAAGAAATACAGAAATAGTCAGCTGGCTCCATTGATTTTGTTATCTACATTAACATTGGACCAAACAGACATAAAAGCACCAACAAAGTAATGGAACAGAAACTCTCCAAGAAATGAAAACCAGATCATACACAAAGCAGCCTAATTATCTACATACCTGTTTTACCATTTCAAAGGAACACAAAGAAAAATCAAAATCCAAGAGAAGTAAAAACAAGATTTCATAAGTAAAAGCACATACATATAATCAATGTTTTAACCTCCTATGTAAGCACTCATTTCAAAAAAATGCATAAAAGAGTGATACTTAATTTAGGCATGTTGCCAAGCAATTTCTTAAGTTCTGTTCTTCTTATAATTTCTTGGAAAGTGATCACTTGGATGGCTTAATAAAAACAAACTTTTTATAAAGTTCTGCACTTGTTAAAATTCCCTGGCTAGTGGCTGATTTAAACGGTCATTTTTTATAAAAACAAAACATTTAGGGCATTTTTTTTTTTAAAAAAGAGAAATAAATGCAATGGTCAAAAGTGAGATGGAAATAAGTGAAAACAAGTTTTGAGGTGTTTTCCGAATTTCAAATATAGCTTCAAGTTGTATTTGGAATTTTCATGGTTAATTGATGATTTTCAGATGAAATTTAGAAAAGAAAAAAGTGAATAATTCTGACGTATTCATTTACTATGAAATGCACTTGAATTGCATCTCAGTTGTATATTTGTAATTTCATAGATAAGATGCGATTGATGTGATATTGAGAGATCTAGTCACTGTTCTTGCACGTTTTGATAACAGCAGGGTTTCTTATCGACCATGAATCTGTATTTTATTATAGTTGCCTGAACCATCTTAGATTTTATTTTAACTTTGTGAAATAACTGTGTCTGCTAGCCTTTTATCTATTTATTGTTAAGTTGCTAGAAGCTGGTCGAAATTATGTTCTCTTCCCCCCTTTTTCAGAAGGAAGCTGGTTGTAATTATATTTCTGGCTTTTGTTGTCCTTGTTATGTTCAAGTTAGCTCAGACGTCTGGCTTATGTTATCTGATTGTTTTGAGTGCAGATCAGGCAACCAATCCTCTTCCTATCTGGATTACAAGATGAGATGGTTCCACCATTCCACATGCAGATGCTGTATGCAAAGGCAGCGGCACGTAACAGGCAATGCTTATTTGTGGAATTTCCTAGTGGGATGCACATGGATACCTGGTTGGCAGGTGGTGATCATTATTGGAGGACAATTCAGAAATATTTGGAAGAAACTGTCCCAGAGAAGAAGGATGATGAATCAAAGAAGGATTCCGAACTGTCCTCTAAGCAAAATGGTTAGTTGCAGATATCAACTTCATCTGCTATTGTTCTGCTATCTTTTCTTTGTTATATGGTTTTGGGCATCTTAATTATCGTCTAAGAAAATATTTGTGAAAACACAGATGATAAATCTTCTTTGAAGGATATTGTTAGTTAGGGTTCTAGAGGCTGCAATCCTTCTATATACCTGGACAGTCGGCCCCTTTTAAACTGTCTCGAAAAAAAAATTGCTCTGTCGAAGACTGGGTCAAGTATGACTGATCCCTCTAGAAATCTGAAAGGAAGTCATGTCCTATTTTATCAGCCTAAGGAATAGTCCATTTTGTTATGTCTAAAATCTATTTTCAAAATTAACTCATAAAATAGTATTTGGAAAAGACATTTGAGAGTATGATATCCAACAGGTATCTAATAATTCATAGAACAGTAAATGCTATAAATTCTTTTGATTTAGCTCCTGTTATAGCTCCTTTCTGAGACTACAAGATTGTTAAAGTATTACCTTATCCTGCTACCTCATATATCCATTTATCTTCACTTTGTGGATCATTGTTTCTCACTGTGTTGAATTTGAAAGCTGATGAACTTCAATTCTTGTCTAGGCTAATCGTGGCTGTTTGGTTTGTGATAATATCATTTGCAGTATCTTCAGATTTCGCTGCAAGCTGAAATGTTGAGTTTCAGGCAGTTCAAATGTAACTTTGGATTCGAGGATTCAAATACATTTCTTTTGATGTTGCAGTGATGAAGAGCAGTTTGTGATATCAAGGGAATGGAAGTGCATCCTTTCAAATATTTATTCTTCTGATGATATTTTTTGGTGTCCTATTTTCAGAAGGTAAAAAGATGTGAAGGGTCTTGATTTATACTGCATCTCACTAACAATACTAGGGTGTCGAAATATAGGTCCAGCTG</genome_strand>
        <mrna_strand>GGTGGTGAAACAAAAAGGCATATCAGTGTAGACATGAGGAGTTAACAACCATTACACAAGAATTTCACTCATTTTCCTCCTCCAATTGCTACTGTCAATTCAAAAAAGCTTAGCTTGAGGGAACAGAAATGGTGTCGTACATGAGCTTGTTGCTGTACGGAGTGGGAGGAATAGTGGTCGCCGGGATGGCAATACTGGTCGCCTTTCAGGAAAAACTTGTATATGTTCCCGTCTTACCTGGACTCACTAAGGCATATCCAATTACTCCCGCTCGACTTCGACTCCTTTACGAAGATGTTTGGCTCAGATCTTCAGACGGTGTTCGTCTTCATGCTTGGTTCATCAAACTCTTCCCTGACTGCAGAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCCTACTATCATCTTTTTTCAAGAGAATGCAGGAA......................................................................................................................................ATATTGCACATCGTCTTGAAATGGTTCGCATAATGTTACAACGTTTGCAATGCAATGTTTTTATGCTTTCTTATCGAGG..................................................................................................TTACGGAGCCAGTGATGGATACCCTTCTCAACATGGAATCACAAAGGATGCTCAG....................................................................................GCTGCACTGGATCATTTAGTTCAGAGGACCGATATTGACACATCAAGAATAGTAGTCTTTGGAAGGTCACTTGGAGGAGCTGTTGGCACTGTTCTTACCAAAAACAATCCTGACAAG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTAGCTGGGCTCATTTTGGAGAATACTTTCACCTCTATCCTGGATATGGCAGGAGTTCTCTTGCCATTCTTGAAGTGGGTCATTGGTGGCAGTGGCTCAAAGGGTTTCAAGCTTCTTAACTTTGTTGTTCGATCTCCATGGAATACCATTGATGTCATTGGTGAG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATCAGGCAACCAATCCTCTTCCTATCTGGATTACAAGATGAGATGGTTCCACCATTCCACATGCAGATGCTGTATGCAAAGGCAGCGGCACGTAACAGGCAATGCTTATTTGTGGAATTTCCTAGTGGGATGCACATGGATACCTGGTTGGCAGGTGGTGATCATTATTGGAGGACAATTCAGAAATATTTGGAAGAAACTGTCCCAGAGAAGAAGGATGATGAATCAAAGAAGGATTCCGAACTGTCCTCTAAGCAAAATG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATCTTCAGATTTCGCTGCAAGCTGAAATGTTGAGTTTCAGGCAGTTCAAATGTAACTTTGGATTCGAGGATTCAAATACATTTCTTTTGATGTTGCAGTGATGAAGAGCAGTTTGTGATATCAAGGGAATGGAAGTGCATCCTTTCAAATATTTATTCTTCTGATGATATTTTTTGGTGTCCTATTTTCAGAAGGTAAAAAGATGTGAAGGGTCTTGATTTATACTGCATCTCACTAACAATACTAGGGTGTCGAAATATAGGTCCAGCTG</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-C07SLm0111C06-P2G61/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M8782-2" ref_strand="+" ref_description="SGN-M8782-2 C2_At5g20520-2 [cosii_markers]">
      <seq>gtagacatgagttaacaacaattacagaagaatttaactcattttcctactcgaagtcctccattttctacagtcaattcgaaaagcttgagggaacagaaatggtgtcgtacgtgagcttgttgctgtacggagtgggaggaatagtggtggccgggatggcaatactggtcgcctttcaggaaaaacttgtatatgttccggtcttacctggactcactaaggcatatccaattactcccgctcgacttcgactcctttacgaagatgtttggctcagatcttcagacggtgttcgtcttcatgcttggttcatcaaactcttccctgactgcaaaggtccaactatcatcttttttcaagagaatgcaggaaatattgcacaccgtcttgaaatggttcgcataatgttacaacgtttgcaatgcaatgtttttatgctttcctatcgaggttacggagccagtgatggatacccttctcagcatgggatcacaaaggatgctcaggctgcactggatcatttagttcagaggaccgatattgacacatcaagaatagtagtctttggaaggtcacttggaggagctgttggtactgttcttaccaaaaacaatcctgacaaggtttctgggctcattttggagaatactttcacctctatcctggatatggcaggagttctcttgccattcttgaagtgggtcattggtggcagtggctcaaagggtttcaaacttcttaactttgttgttcgatctccatggaataccattgatgtcattggtgagatcaggcaaccaatcctcttcctatctggattacaagatgagatggttccaccattccacatgcagatgttgtatgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C07SLm0111C06-P2G61/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C07SLm0111C06.1" temp_strand="-" temp_description="C07SLm0111C06.1  AC212654.1 htgs_phase:1 submitted_to_sgn_as:gi|158262147|gb|AC212654.1| upload_account_name:france Solanum lycopersicum chromosome 7 clone C07SLm0111C06, *** SEQUENCING IN PROGRESS ***, 12 unordered pieces">
        <position start="28022" stop="22283"/>
      </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="27806" g_stop="27468" g_length="339"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="339" r_length="339" r_score="0.903"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="27467" i_stop="26616" i_length="852">
            <donor d_prob="0.990" d_score="0.98"/>
            <acceptor a_prob="0.991" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="26615" g_stop="26580" g_length="36"/>
          <reference_exon_boundary r_type="cDNA" r_start="340" r_stop="375" r_length="36" r_score="0.972"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="26579" i_stop="26446" i_length="134">
            <donor d_prob="0.990" d_score="0.00"/>
            <acceptor a_prob="0.947" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="26445" g_stop="26367" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="376" r_stop="454" r_length="79" r_score="0.975"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="26366" i_stop="26269" i_length="98">
            <donor d_prob="0.803" d_score="0.98"/>
            <acceptor a_prob="0.984" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="26268" g_stop="26214" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="455" r_stop="509" r_length="55" r_score="0.964"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="26213" i_stop="26130" i_length="84">
            <donor d_prob="0.997" d_score="0.96"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="26129" g_stop="26013" g_length="117"/>
          <reference_exon_boundary r_type="cDNA" r_start="510" r_stop="626" r_length="117" r_score="0.991"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="26012" i_stop="24565" i_length="1448">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.996" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="24564" g_stop="24400" g_length="165"/>
          <reference_exon_boundary r_type="cDNA" r_start="627" r_stop="791" r_length="165" r_score="0.982"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="24399" i_stop="22660" i_length="1740">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.899" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="22659" g_stop="22583" g_length="77"/>
          <reference_exon_boundary r_type="cDNA" r_start="792" r_stop="868" r_length="77" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C07SLm0111C06.1" gen_strand="-" ref_id="SGN-M8782-2" ref_strand="+">
        <total_alignment_score>0.950</total_alignment_score>
        <cumulative_length_of_scored_exons>868</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C07SLm0111C06.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M8782-2" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="27806" e_stop="27468"/>
          <exon e_start="26615" e_stop="26580"/>
          <exon e_start="26445" e_stop="26367"/>
          <exon e_start="26268" e_stop="26214"/>
          <exon e_start="26129" e_stop="26013"/>
          <exon e_start="24564" e_stop="24400"/>
          <exon e_start="22659" e_stop="22583"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAGACATGAGGAGTTAACAACCATTACACAAGAATTTCACTCATTTTCCTCCTCCAATTGCTAC-TGT-C-AATTCAAAAAAGCTTAGCTTGAGGGAACAGAAATGGTGTCGTACATGAGCTTGTTGCTGTACGGAGTGGGAGGAATAGTGGTCGCCGGGATGGCAATACTGGTCGCCTTTCAGGAAAAACTTGTATATGTTCCCGTCTTACCTGGACTCACTAAGGCATATCCAATTACTCCCGCTCGACTTCGACTCCTTTACGAAGATGTTTGGCTCAGATCTTCAGACGGTGTTCGTCTTCATGCTTGGTTCATCAAACTCTTCCCTGACTGCAGAGGTCTCTCTTAAACTGCCTTTTCTTATGTTTTATCTACTCTAATTACACCAGATGGCCGTAATTTGTTTTCGATTTGTCATTTTCATCCATATTTTTTCAAGTTACTAGTGAACTTGTGGATGATTTTTGACCTAATTTCACTTGTACAACCTTTTTAGTTTATGTTTTACCTGAATTGTGCGAAAGAATGGATTAATGTTTATAGAAATAAGAGTTACTTTTTGAACGGAATAAGATTGGTTGATGCGGTTTTCTGATTTGTTCCTCAAATTTACTTGATAAATGATTCTTTGAGTAATTTATTTGTGCAAATGAGCTATGTTGTTCATGGAAAATGATTAATTCCTGGATCCCAAGAGTTTAGAATTAGTTGGTACCTATGTCTGCCAATAGTTTCGACAAAATCTAGTGGGGGCAAACTGTTAGAATGCTGCTACAGATAGATGCACATCAACATCTATCAGCGGAGATTAAAAATCCTGATTGTAAATTAGTGTATATGATAGTGGTTATTATGTTGCCAAGGCAAGAAGTATGGATGTGGTGGCAGGGTTGCTAGTTAACCATCTATCAGAGCAAGAATTGAAGTCAAATGCAATATCGGCATTCACCTTTGAACTCCAAGTCAGTATCTCATTTGAAGTTTTAAACTAATATATTTTCAGTACAGTTAGCAACCTAACCACCTAGCTGGAGCATGCACAGCTATGATGTTTCCGCATTGTTTTCTACTGATGTAGGAAGTGGTGCTTACAAGGATTTTAAACTAATTTGGATGTGTTGTCCACATATGATTAGTTTTTGTTTGCTGGTTAGCGTAATTTATGCTGAGATACTATTTTGGTTCTGCAGGTCCTACTATCATCTTTTTTCAAGAGAATGCAGGAAGTATCCTTTTGTTATAATGTCTTCTTGAATGATTGCAGACCTTCCTTTTCTTAATCTTCTTCTTGCACTCGTGTTGTAAAAGTCAACTTTATCTCTTTTGGTTATCCTGGTTATCCTTTACTAATTAATTGCAGATATTGCACATCGTCTTGAAATGGTTCGCATAATGTTACAACGTTTGCAATGCAATGTTTTTATGCTTTCTTATCGAGGGTATAAATCATTTCCCCTTATTTGTTAGTTTCCTGTCTGTGTTGTCTTTGATTAAACTAGTGTCTTTTTCTTTTTCTAATAATTTTGTTGTAACAAAGTTACGGAGCCAGTGATGGATACCCTTCTCAACATGGAATCACAAAGGATGCTCAGGTTTTGTTAGCTTTCTCAATTTCATAGATTTTGACCCAAACCTTATTTTTGAAATTACATAATTGTGCTTGTCTTGTTCAATAGGCTGCACTGGATCATTTAGTTCAGAGGACCGATATTGACACATCAAGAATAGTAGTCTTTGGAAGGTCACTTGGAGGAGCTGTTGGCACTGTTCTTACCAAAAACAATCCTGACAAGGTAATGTAGCAATTTATTTTTCTTTTTGTCATGCTGTTACGTCTAATAATGTTATAAAGCCTGATTATCTCTAATTTGTTTAGTTTCCTTTTTACTCCTTAAATTTGAGTTCAACATAGGTTCCATCACGGAAAGAGAATTTATAGTACTTTGTCAAGTTTCTTTCAAACTTATATGCTCTATGGGTGCTCTTGGCTCCACCTGGTTGAAGTAAATAACTTTAGAGGCACTCTTTCGAGCTTGATAGGAATACAAGCTTTCAAGCGAAAACTAAACTAATCTGAGTTCATCACCAGCATGAGAGGGGCAACTTATAAATATGACGAAGAAAAAAAGAACTATTTCTTTTCTAGAATAAAAACAAAGCTGCGTTTCTTTCCCTTTAGAGTAAAGAGAAATCTCTTCTGCACCTAAACTATTGACCGTAAGATAAGTTACTAGCTTGTAATATTGTAGATGTCTGATTTAATTCCTTTTTTTTTTCACTTCTTCAATGGATGAGTTTAGGAGAATGTTTGCTCCCATTTTTCTCAAATAAAATAGAAGTCCATATAATCTTATGATGTTAGTCTCTTGGGTGTATAACCTCTACGATTTATCTCATGACGGTGATGTTCTTTAAGTACATTATCCTCTTTTGCGCTATTTGTTCATTATGTAACTAGAAACTTTTGATGTGCTTCTAGTATTGAGACCCCATCAGAACCCGAGTTTGTTTATCTTACTCCATTTCCACATACTTTAATCTTCATCCAATATTACATCCAGTTCATGCATACAAGAAGAGTTTGGTATCTGAAAGAATGTAATAGTAGTCGAATGTTCAACAGAATCTTTATTTGTATTACAGAAATCATTAATTCCACATGCCAAGTGAAAAAATCTCCCTTAATGCAGTTCCATGGTTTGATGTGAGTGACCCAACGATCTAGATTTGGTAATTATATTAGTATTCATCAGTTGATCCCGCGTTTCTTAGATGATCCACAAATTGATATGCCTTGATTCCCGCGTTTCTTAGATGATCTACAAATTGATATTCCTTGATTATGGTTTTCTTGTTTGATATTCAAGTTCCTTGTTTATGATTTTCCTGTTTGATGTGTGAGGTGATCAGTTTATTTTTGAGGTTTTCCCACTGCCAATTACGTATAGTTGATTAAGCATGTTCTGGGTCAAGCTGCATAGAATAGAGTCTGTCTATTTTGTTTAGGGGAATCTATATGAACCTCTTTTTTGTTTCTTTCTGTTCTGTGTCTTTATCTTTCCGGGTTTTATTCCAAACTTTTCTGTTCCAAGGTGTGTAACTTGTACATGTGTTTTGACATTCAAATCCTAGTTTTCTTTCACTATCGTAGGTTGCGGGGCTCATTTTGGAGAATACTTTCACCTCTATCCTGGATATGGTTTTTTGACATTCAAATCCTAGTTTTCTTTCACTAATGTAGGTAGCTGGGCTCATTTTGGAGAATACTTTCACCTCTATCCTGGATATGGCAGGAGTTCTCTTGCCATTCTTGAAGTGGGTCATTGGTGGCAGTGGCTCAAAGGGTTTCAAGCTTCTTAACTTTGTTGTTCGATCTCCATGGAATACCATTGATGTCATTGGTGAGGTGAGGATGCATCTTTATAACTCTCTCTGTCCCATTTGAATTGACTTGAGTTTACTTTTTCTTCAGAGTAAACTTCATTTTTTTTGTTTTATTGAGTATACTAAAGGTAGAGAAAGTTGTGAAGATGTCACTCAAGTTTGTAAAGTTTAAGTTAAGTTCTTGGAGGGATAAAAATTATGTTTCTAGCAAATAGTTCATAATTTTTAGGATGGACTAAATAGAACTGGGTAATTAAGTTGGATTGAGGTAATATATTTCATGGTTTGACTAATAGCGAAGTGTTTTAAAGTAGTAACGTGGATAAGTCATTTCTGATCCTTTTTTCTGAGTAGGCATTTGGCCATGGAAACTAAATATTTTTCACTTTATTTGGGATTTCTGAAGTTGAAGTTGAAGATGGATTTGTGTATGGTTATAGCTTTTGCAAAGAATATTTGGTTGCTAATTTTCAAAAAAAGAATATTTGGCTTCTTGAATGTTTCTTTTCCATAGAACATGAAAATAATGAAATATGATTTGTACCCCTCAATTTTTAAAAAATAGCATAACCATCAAACGTAATGAATTTACATGAAACATACAATCTGATTTCTCTATAAGAGTAATATCTCGTAATGGATAGTCATATAATATCATAAATAGGATACCACGTTTTTAAAAAGTGAATCTTTGTAGAAAAAAAGAAATACAGAAATAGTCAGCTGGCTCCATTGATTTTGTTATCTACATTAACATTGGACCAAACAGACATAAAAGCACCAACAAAGTAATGGAACAGAAACTCTCCAAGAAATGAAAACCAGATCATACACAAAGCAGCCTAATTATCTACATACCTGTTTTACCATTTCAAAGGAACACAAAGAAAAATCAAAATCCAAGAGAAGTAAAAACAAGATTTCATAAGTAAAAGCACATACATATAATCAATGTTTTAACCTCCTATGTAAGCACTCATTTCAAAAAAATGCATAAAAGAGTGATACTTAATTTAGGCATGTTGCCAAGCAATTTCTTAAGTTCTGTTCTTCTTATAATTTCTTGGAAAGTGATCACTTGGATGGCTTAATAAAAACAAACTTTTTATAAAGTTCTGCACTTGTTAAAATTCCCTGGCTAGTGGCTGATTTAAACGGTCATTTTTTATAAAAACAAAACATTTAGGGCATTTTTTTTTTTAAAAAAGAGAAATAAATGCAATGGTCAAAAGTGAGATGGAAATAAGTGAAAACAAGTTTTGAGGTGTTTTCCGAATTTCAAATATAGCTTCAAGTTGTATTTGGAATTTTCATGGTTAATTGATGATTTTCAGATGAAATTTAGAAAAGAAAAAAGTGAATAATTCTGACGTATTCATTTACTATGAAATGCACTTGAATTGCATCTCAGTTGTATATTTGTAATTTCATAGATAAGATGCGATTGATGTGATATTGAGAGATCTAGTCACTGTTCTTGCACGTTTTGATAACAGCAGGGTTTCTTATCGACCATGAATCTGTATTTTATTATAGTTGCCTGAACCATCTTAGATTTTATTTTAACTTTGTGAAATAACTGTGTCTGCTAGCCTTTTATCTATTTATTGTTAAGTTGCTAGAAGCTGGTCGAAATTATGTTCTCTTCCCCCCTTTTTCAGAAGGAAGCTGGTTGTAATTATATTTCTGGCTTTTGTTGTCCTTGTTATGTTCAAGTTAGCTCAGACGTCTGGCTTATGTTATCTGATTGTTTTGAGTGCAGATCAGGCAACCAATCCTCTTCCTATCTGGATTACAAGATGAGATGGTTCCACCATTCCACATGCAGATGCTGTATGC</genome_strand>
        <mrna_strand>GTAGACAT---GAGTTAACAACAATTACAGAAGAATTTAACTCATTTTCCTACTCGAAGTCCTCCATTTTCTACAGTCAATTCGAAAAGCTTGAGGGAACAGAAATGGTGTCGTACGTGAGCTTGTTGCTGTACGGAGTGGGAGGAATAGTGGTGGCCGGGATGGCAATACTGGTCGCCTTTCAGGAAAAACTTGTATATGTTCCGGTCTTACCTGGACTCACTAAGGCATATCCAATTACTCCCGCTCGACTTCGACTCCTTTACGAAGATGTTTGGCTCAGATCTTCAGACGGTGTTCGTCTTCATGCTTGGTTCATCAAACTCTTCCCTGACTGCAAAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCCAACTATCATCTTTTTTCAAGAGAATGCAGGAA......................................................................................................................................ATATTGCACACCGTCTTGAAATGGTTCGCATAATGTTACAACGTTTGCAATGCAATGTTTTTATGCTTTCCTATCGAGG..................................................................................................TTACGGAGCCAGTGATGGATACCCTTCTCAGCATGGGATCACAAAGGATGCTCAG....................................................................................GCTGCACTGGATCATTTAGTTCAGAGGACCGATATTGACACATCAAGAATAGTAGTCTTTGGAAGGTCACTTGGAGGAGCTGTTGGTACTGTTCTTACCAAAAACAATCCTGACAAG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTCTGGGCTCATTTTGGAGAATACTTTCACCTCTATCCTGGATATGGCAGGAGTTCTCTTGCCATTCTTGAAGTGGGTCATTGGTGGCAGTGGCTCAAAGGGTTTCAAACTTCTTAACTTTGTTGTTCGATCTCCATGGAATACCATTGATGTCATTGGTGAG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATCAGGCAACCAATCCTCTTCCTATCTGGATTACAAGATGAGATGGTTCCACCATTCCACATGCAGATGTTGTATGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>2</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="27833" PGL_stop="21497"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="27833" e_stop="27468"/>
            <exon e_start="26615" e_stop="26580"/>
            <exon e_start="26445" e_stop="26367"/>
            <exon e_start="26268" e_stop="26214"/>
            <exon e_start="26129" e_stop="26013"/>
            <exon e_start="24564" e_stop="24400"/>
            <exon e_start="22659" e_stop="22398"/>
            <exon e_start="21768" e_stop="21497"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.990" acc_prob="0.991" e_score="1.000"/>
          <exon-intron don_prob="0.990" acc_prob="0.947" e_score="1.000"/>
          <exon-intron don_prob="0.803" acc_prob="0.984" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="0.996" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.996" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="0.899" e_score="1.000"/>
          <exon-intron don_prob="0.979" acc_prob="0.938" 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="27833" e_stop="27468" e_length="366"/>
          </exon>
          <intron i_serial="1" don_prob="0.990" acc_prob="0.991">
            <gDNA_intron_boundary i_start="27467" i_stop="26616" i_length="852"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="26615" e_stop="26580" e_length="36"/>
          </exon>
          <intron i_serial="2" don_prob="0.990" acc_prob="0.947">
            <gDNA_intron_boundary i_start="26579" i_stop="26446" i_length="134"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="26445" e_stop="26367" e_length="79"/>
          </exon>
          <intron i_serial="3" don_prob="0.803" acc_prob="0.984">
            <gDNA_intron_boundary i_start="26366" i_stop="26269" i_length="98"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="26268" e_stop="26214" e_length="55"/>
          </exon>
          <intron i_serial="4" don_prob="0.997" acc_prob="0.996">
            <gDNA_intron_boundary i_start="26213" i_stop="26130" i_length="84"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="26129" e_stop="26013" e_length="117"/>
          </exon>
          <intron i_serial="5" don_prob="1.000" acc_prob="0.996">
            <gDNA_intron_boundary i_start="26012" i_stop="24565" i_length="1448"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="24564" e_stop="24400" e_length="165"/>
          </exon>
          <intron i_serial="6" don_prob="0.997" acc_prob="0.899">
            <gDNA_intron_boundary i_start="24399" i_stop="22660" i_length="1740"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="22659" e_stop="22398" e_length="262"/>
          </exon>
          <intron i_serial="7" don_prob="0.979" acc_prob="0.938">
            <gDNA_intron_boundary i_start="22397" i_stop="21769" i_length="629"/>
          </intron>
          <exon e_serial="8" e_score="1.000">
            <gDNA_exon_boundary e_start="21768" e_stop="21497" e_length="272"/>
          </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="27833" stop="27468"/>
              <exon start="26615" stop="26580"/>
              <exon start="26445" stop="26367"/>
              <exon start="26268" stop="26214"/>
              <exon start="26129" stop="26013"/>
              <exon start="24564" stop="24400"/>
              <exon start="22659" stop="22398"/>
              <exon start="21768" stop="21497"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M8782" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="27806" stop="27468"/>
              <exon start="26615" stop="26580"/>
              <exon start="26445" stop="26367"/>
              <exon start="26268" stop="26214"/>
              <exon start="26129" stop="26013"/>
              <exon start="24564" stop="24400"/>
              <exon start="22659" stop="22583"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M8782-2" 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>GGTGGTGAAACAAAAAGGCATATCAGTGTAGACATGAGGAGTTAACAACCATTACACAAGAATTTCACTCATTTTCCTCCTCCAATTGCTACTGTCAATTCAAAAAAGCTTAGCTTGAGGGAACAGAAATGGTGTCGTACATGAGCTTGTTGCTGTACGGAGTGGGAGGAATAGTGGTCGCCGGGATGGCAATACTGGTCGCCTTTCAGGAAAAACTTGTATATGTTCCCGTCTTACCTGGACTCACTAAGGCATATCCAATTACTCCCGCTCGACTTCGACTCCTTTACGAAGATGTTTGGCTCAGATCTTCAGACGGTGTTCGTCTTCATGCTTGGTTCATCAAACTCTTCCCTGACTGCAGAG : GTCCTACTATCATCTTTTTTCAAGAGAATGCAGGAA : ATATTGCACATCGTCTTGAAATGGTTCGCATAATGTTACAACGTTTGCAATGCAATGTTTTTATGCTTTCTTATCGAGG : TTACGGAGCCAGTGATGGATACCCTTCTCAACATGGAATCACAAAGGATGCTCAG : GCTGCACTGGATCATTTAGTTCAGAGGACCGATATTGACACATCAAGAATAGTAGTCTTTGGAAGGTCACTTGGAGGAGCTGTTGGCACTGTTCTTACCAAAAACAATCCTGACAAG : GTAGCTGGGCTCATTTTGGAGAATACTTTCACCTCTATCCTGGATATGGCAGGAGTTCTCTTGCCATTCTTGAAGTGGGTCATTGGTGGCAGTGGCTCAAAGGGTTTCAAGCTTCTTAACTTTGTTGTTCGATCTCCATGGAATACCATTGATGTCATTGGTGAG : ATCAGGCAACCAATCCTCTTCCTATCTGGATTACAAGATGAGATGGTTCCACCATTCCACATGCAGATGCTGTATGCAAAGGCAGCGGCACGTAACAGGCAATGCTTATTTGTGGAATTTCCTAGTGGGATGCACATGGATACCTGGTTGGCAGGTGGTGATCATTATTGGAGGACAATTCAGAAATATTTGGAAGAAACTGTCCCAGAGAAGAAGGATGATGAATCAAAGAAGGATTCCGAACTGTCCTCTAAGCAAAATG : TATCTTCAGATTTCGCTGCAAGCTGAAATGTTGAGTTTCAGGCAGTTCAAATGTAACTTTGGATTCGAGGATTCAAATACATTTCTTTTGATGTTGCAGTGATGAAGAGCAGTTTGTGATATCAAGGGAATGGAAGTGCATCCTTTCAAATATTTATTCTTCTGATGATATTTTTTGGTGTCCTATTTTCAGAAGGTAAAAAGATGTGAAGGGTCTTGATTTATACTGCATCTCACTAACAATACTAGGGTGTCGAAATATAGGTCCAGCTG</gDNA_template>
            <first_frame> G  G  E  T  K  R  H  I  S  V  D  M  R  S  *  Q  P  L  H  K  N  F  T  H  F  P  P  P  I  A  T  V  N  S  K  K  L  S  L  R  E  Q  K  W  C  R  T  *  A  C  C  C  T  E  W  E  E  *  W  S  P  G  W  Q  Y  W  S  P  F  R  K  N  L  Y  M  F  P  S  Y  L  D  S  L  R  H  I  Q  L  L  P  L  D  F  D  S  F  T  K  M  F  G  S  D  L  Q  T  V  F  V  F  M  L  G  S  S  N  S  S  L  T  A  E  :  V  L  L  S  S  F  F  K  R  M  Q  E  :  I  L  H  I  V  L  K  W  F  A  *  C  Y  N  V  C  N  A  M  F  L  C  F  L  I  E   : V  T  E  P  V  M  D  T  L  L  N  M  E  S  Q  R  M  L  R :   L  H  W  I  I  *  F  R  G  P  I  L  T  H  Q  E  *  *  S  L  E  G  H  L  E  E  L  L  A  L  F  L  P  K  T  I  L  T  R :   *  L  G  S  F  W  R  I  L  S  P  L  S  W  I  W  Q  E  F  S  C  H  S  *  S  G  S  L  V  A  V  A  Q  R  V  S  S  F  L  T  L  L  F  D  L  H  G  I  P  L  M  S  L  V  R :   S  G  N  Q  S  S  S  Y  L  D  Y  K  M  R  W  F  H  H  S  T  C  R  C  C  M  Q  R  Q  R  H  V  T  G  N  A  Y  L  W  N  F  L  V  G  C  T  W  I  P  G  W  Q  V  V  I  I  I  G  G  Q  F  R  N  I  W  K  K  L  S  Q  R  R  R  M  M  N  Q  R  R  I  P  N  C  P  L  S  K  M  :  Y  L  Q  I  S  L  Q  A  E  M  L  S  F  R  Q  F  K  C  N  F  G  F  E  D  S  N  T  F  L  L  M  L  Q  *  *  R  A  V  C  D  I  K  G  M  E  V  H  P  F  K  Y  L  F  F  *  *  Y  F  L  V  S  Y  F  Q  K  V  K  R  C  E  G  S  *  F  I  L  H  L  T  N  N  T  R  V  S  K  Y  R  S  S   </first_frame>
            <second_frame>  V  V  K  Q  K  G  I  S  V  *  T  *  G  V  N  N  H  Y  T  R  I  S  L  I  F  L  L  Q  L  L  L  S  I  Q  K  S  L  A  *  G  N  R  N  G  V  V  H  E  L  V  A  V  R  S  G  R  N  S  G  R  R  D  G  N  T  G  R  L  S  G  K  T  C  I  C  S  R  L  T  W  T  H  *  G  I  S  N  Y  S  R  S  T  S  T  P  L  R  R  C  L  A  Q  I  F  R  R  C  S  S  S  C  L  V  H  Q  T  L  P  *  L  Q  R :   S  Y  Y  H  L  F  S  R  E  C  R  K :   Y  C  T  S  S  *  N  G  S  H  N  V  T  T  F  A  M  Q  C  F  Y  A  F  L  S  R  :  L  R  S  Q  *  W  I  P  F  S  T  W  N  H  K  G  C  S   : G  C  T  G  S  F  S  S  E  D  R  Y  *  H  I  K  N  S  S  L  W  K  V  T  W  R  S  C  W  H  C  S  Y  Q  K  Q  S  *  Q   : G  S  W  A  H  F  G  E  Y  F  H  L  Y  P  G  Y  G  R  S  S  L  A  I  L  E  V  G  H  W  W  Q  W  L  K  G  F  Q  A  S  *  L  C  C  S  I  S  M  E  Y  H  *  C  H  W  *   : D  Q  A  T  N  P  L  P  I  W  I  T  R  *  D  G  S  T  I  P  H  A  D  A  V  C  K  G  S  G  T  *  Q  A  M  L  I  C  G  I  S  *  W  D  A  H  G  Y  L  V  G  R  W  *  S  L  L  E  D  N  S  E  I  F  G  R  N  C  P  R  E  E  G  *  *  I  K  E  G  F  R  T  V  L  *  A  K  C :   I  F  R  F  R  C  K  L  K  C  *  V  S  G  S  S  N  V  T  L  D  S  R  I  Q  I  H  F  F  *  C  C  S  D  E  E  Q  F  V  I  S  R  E  W  K  C  I  L  S  N  I  Y  S  S  D  D  I  F  W  C  P  I  F  R  R  *  K  D  V  K  G  L  D  L  Y  C  I  S  L  T  I  L  G  C  R  N  I  G  P  A  </second_frame>
            <third_frame>   W  *  N  K  K  A  Y  Q  C  R  H  E  E  L  T  T  I  T  Q  E  F  H  S  F  S  S  S  N  C  Y  C  Q  F  K  K  A  *  L  E  G  T  E  M  V  S  Y  M  S  L  L  L  Y  G  V  G  G  I  V  V  A  G  M  A  I  L  V  A  F  Q  E  K  L  V  Y  V  P  V  L  P  G  L  T  K  A  Y  P  I  T  P  A  R  L  R  L  L  Y  E  D  V  W  L  R  S  S  D  G  V  R  L  H  A  W  F  I  K  L  F  P  D  C  R   : G  P  T  I  I  F  F  Q  E  N  A  G   : N  I  A  H  R  L  E  M  V  R  I  M  L  Q  R  L  Q  C  N  V  F  M  L  S  Y  R  G :   Y  G  A  S  D  G  Y  P  S  Q  H  G  I  T  K  D  A  Q  :  A  A  L  D  H  L  V  Q  R  T  D  I  D  T  S  R  I  V  V  F  G  R  S  L  G  G  A  V  G  T  V  L  T  K  N  N  P  D  K  :  V  A  G  L  I  L  E  N  T  F  T  S  I  L  D  M  A  G  V  L  L  P  F  L  K  W  V  I  G  G  S  G  S  K  G  F  K  L  L  N  F  V  V  R  S  P  W  N  T  I  D  V  I  G  E  :  I  R  Q  P  I  L  F  L  S  G  L  Q  D  E  M  V  P  P  F  H  M  Q  M  L  Y  A  K  A  A  A  R  N  R  Q  C  L  F  V  E  F  P  S  G  M  H  M  D  T  W  L  A  G  G  D  H  Y  W  R  T  I  Q  K  Y  L  E  E  T  V  P  E  K  K  D  D  E  S  K  K  D  S  E  L  S  S  K  Q  N   : V  S  S  D  F  A  A  S  *  N  V  E  F  Q  A  V  Q  M  *  L  W  I  R  G  F  K  Y  I  S  F  D  V  A  V  M  K  S  S  L  *  Y  Q  G  N  G  S  A  S  F  Q  I  F  I  L  L  M  I  F  F  G  V  L  F  S  E  G  K  K  M  *  R  V  L  I  Y  T  A  S  H  *  Q  Y  *  G  V  E  I  *  V  Q  L </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C07SLm0111C06.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="27720" stop="27468"/>
                    <exon start="26615" stop="26580"/>
                    <exon start="26445" stop="26367"/>
                    <exon start="26268" stop="26214"/>
                    <exon start="26129" stop="26013"/>
                    <exon start="24564" stop="24400"/>
                    <exon start="22659" stop="22398"/>
                    <exon start="21768" stop="21743"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>990</number_coding_nucleotides>
                  <number_encoded_amino_acids>330</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LEGTEMVSYMSLLLYGVGGIVVAGMAILVAFQEKLVYVPVLPGLTKAYPITPARLRLLYEDVWLRSSDGVRLHAWFIKLFPDCRGPTIIFFQENAGNIAHRLEMVRIMLQRLQCNVFMLSYRGYGASDGYPSQHGITKDAQAALDHLVQRTDIDTSRIVVFGRSLGGAVGTVLTKNNPDKVAGLILENTFTSILDMAGVLLPFLKWVIGGSGSKGFKLLNFVVRSPWNTIDVIGEIRQPILFLSGLQDEMVPPFHMQMLYAKAAARNRQCLFVEFPSGMHMDTWLAGGDHYWRTIQKYLEETVPEKKDDESKKDSELSSKQNVSSDFAAS*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 52 chains have been computed
$ 
$ memory statistics:
$ 4560 bytes spliced alignments in total
$ 2 spliced alignments have been stored
$ 2280 bytes was the average size of a spliced alignment
$ 5752 bytes predicted gene locations in total
$ 1 predicted gene locations have been stored
$ 5752 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 52 backtrace matrices have been allocated
$ 
$ date finished: 2009-01-17 11:45:46
-->
