<?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="2009-07-24 21:54:17"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C07SLm0097J03-WGw74/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C07SLm0097J03-WGw74/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-C07SLm0097J03-WGw74/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M7677" ref_strand="+" ref_description="SGN-M7677 C2_At3g09850 [cosii_markers]">
      <seq>gaaaatgatgggtcatctgatagtgattcagatgttgatgaagaggttgctgcagattattatgaaggaactggtgggctgtgcaaagtaattgatgttagacagttggttggacaagttcctagtagctgctctgatgatagcttagacgaaaccgtagagaagttgggtgggattcatcttcaggaagcctctagggtgtatggaatgaagaagcctaaaaaagagagaaagttccgaggaggtcagaaatctccttctgccaagcaagcccagggatctgatttggatggccttgtttttgtaaaggacccgagaacagtttcagggaaaaagaaacatgctgctaaatttcctcagtcatggccgtttgagtctcaaaagagtaaaaatttcgggaggtttccaggtgctaagaagaaacatcgcaaggagatgatggctgtgaagcgtcgagagagaatgctacaccgaggtgttgatcttcagaagataaatttaaaattacaccagatggttttggatggagctgatatgttatctttccaacctatgcattcgcgtgattgttctcaggttcagagattagctgcaatataccgcctgcgaagtggttgtcaaggttctggcaagaagaggtttgtgacagttaccaagacacagcatacggctatgccatcccccagtgataaaattcgtttggagaagttgataggagccggtgacgaggattctgatttcacagtcacgggtatacaaagttatagaaaggatgtaaatgcagccaaaaactcttcaaagggtagtggtggacaatctggcccaagcaatttgtttaaaatgccgataaatccacgtgggcaaaaagacagcagcaagaaacgaagggatcagaaaacagtctcctatgctcttcctgtctcctttgtttcaagtggtatcatgcgttcagagacagaagttgaggagaaatcaatcgaaacaacccagacaaccaccattgtccatgaaacaaaggttgtgaccaactcagtcgaatacggtgcattcgagatgcacactacaggtattggctcaaaactcatggcaaaaatgggttatcaagaaggcagaggcttagggaaagatggacagggtatttctgagcccatcgaagctcgccaacgaccaaaagctcttggattgggagctgaaatcccagaaacaagtattagatcatcaggaaagaaggattctctacccaaatcatctggtcgtggtgctgaagttgtcggtggaagtgggaaatccatcaggaaggagtcatctgttggatttgcaggatttgagagacacacaaaggggtttggatcaaagattatggcaaagatgggttttgttgaaggtatgggacttggtagaagttcacaaggcataaccaatcctttagttgctgttagacgtcctaaatcgcaaggattaggtgccaaaagttagaagaaaaaaaatcaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C07SLm0097J03-WGw74/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C07SLm0097J03.1" temp_strand="-" temp_description="C07SLm0097J03.1  AC236770.1 htgs_phase:2 submitted_to_sgn_as:gi|238909048|gb|AC236770.1| upload_account_name:france Solanum lycopersicum chromosome 7 clone C07SLm0097J03, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces">
        <position start="85929" stop="81494"/>
      </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="85629" g_stop="85221" g_length="409"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="409" r_length="409" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="85220" i_stop="84970" i_length="251">
            <donor d_prob="0.985" d_score="1.00"/>
            <acceptor a_prob="0.991" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="84969" g_stop="84878" g_length="92"/>
          <reference_exon_boundary r_type="cDNA" r_start="410" r_stop="501" r_length="92" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="84877" i_stop="83737" i_length="1141">
            <donor d_prob="0.386" d_score="1.00"/>
            <acceptor a_prob="0.956" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="83736" g_stop="83662" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="502" r_stop="576" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="83661" i_stop="83171" i_length="491">
            <donor d_prob="0.942" d_score="1.00"/>
            <acceptor a_prob="0.955" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="83170" g_stop="83109" g_length="62"/>
          <reference_exon_boundary r_type="cDNA" r_start="577" r_stop="638" r_length="62" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="83108" i_stop="82782" i_length="327">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.898" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="82781" g_stop="82712" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="639" r_stop="708" r_length="70" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="82711" i_stop="82578" i_length="134">
            <donor d_prob="0.633" d_score="1.00"/>
            <acceptor a_prob="0.687" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="82577" g_stop="81794" g_length="784"/>
          <reference_exon_boundary r_type="cDNA" r_start="709" r_stop="1492" r_length="784" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C07SLm0097J03.1" gen_strand="-" ref_id="SGN-M7677" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>1492</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C07SLm0097J03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M7677" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="85629" e_stop="85221"/>
          <exon e_start="84969" e_stop="84878"/>
          <exon e_start="83736" e_stop="83662"/>
          <exon e_start="83170" e_stop="83109"/>
          <exon e_start="82781" e_stop="82712"/>
          <exon e_start="82577" e_stop="81794"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAAATGATGGGTCATCTGATAGTGATTCAGATGTTGATGAAGAGGTTGCTGCAGATTATTATGAAGGAACTGGTGGGCTGTGCAAAGTAATTGATGTTAGACAGTTGGTTGGACAAGTTCCTAGTAGCTGCTCTGATGATAGCTTAGACGAAACCGTAGAGAAGTTGGGTGGGATTCATCTTCAGGAAGCCTCTAGGGTGTATGGAATGAAGAAGCCTAAAAAAGAGAGAAAGTTCCGAGGAGGTCAGAAATCTCCTTCTGCCAAGCAAGCCCAGGGATCTGATTTGGATGGCCTTGTTTTTGTAAAGGACCCGAGAACAGTTTCAGGGAAAAAGAAACATGCTGCTAAATTTCCTCAGTCATGGCCGTTTGAGTCTCAAAAGAGTAAAAATTTCGGGAGGTTTCCAGGTAAAGATATTTGCCCTATAGTGAGTTGCGACAATATGCTTTGTCTTTATTTAAATTTGCTTATGGTTAGCCATTAAATTTCAAGTATATATAACTTATTACTCTCTTGGATTGAAAGAGGATAAAGTTCCATTGGATTTCTCTCTCTGTGCTTTTGCTTTCATTGTTTTCTCTGCTGACCTTTTCTTTTTGTTTGTGTATTGCGATGTGCCTTCAACTCCACTGTATATACTCCTAGCTTATGTTTTCAGGTGCTAAGAAGAAACATCGCAAGGAGATGATGGCTGTGAAGCGTCGAGAGAGAATGCTACACCGAGGTGTTGATCTTCAGAAGATAAATTTAGTAAGAGCTTGAAATTGTTTTCCTTGTTAGGAGTCTCGAGTCTTTTGTCTTTCGAACCAGCTTGATCGTTTGAAACATGCCTATGATCCTGTGTAGATCCGTCTTTTTGACATCAGATGGTAACTTTTCCTTGTTTGATATTTTTCTGTTCCACTAAATTTATTTAATAACTTTGTCAGTGAGAAACTTAGTAGTATGAAAAGTTATCTCAACTATGTCCTTTTGGTGAAAATAAGAATTGAGCATTTCAGTTTCGAGCTTGCTTGTATGTTTAGGCTGACATATTTGTCTTGAAGTCTTTATATTTGTCCCGTTGTATGTTGATCTTGTTTGTAAAGTTAATCTGTAAGTTGGAGCCAGGTCATAAGCGAATGCGGATGTACTGCAGATAGTTGTATAACCAAATTTTACTGCAAATACTTGTTGGTAAGGGTTGTAGATTTTTAGGAGGTTCCTAATCGAATTTAGACAGTTCCCCTTGTTAGATTTTGGATCAGATTTTTTTTTTTGAAATGAAATAGAAAACAGGGTTCTCCTGCCTAAACAATGAAGTATCAGTAATGTGGAGTTCTTGGTCTTTAAACATCACCTATCTACTGACATGAAACATAACTTCATTTGATTGATGGTGTCTCTTCTTTTTCCTCTTTGTATTTATGGTTTTGTTCATCTCAGCTGGTTAAGTAGTTCGGTGAGCAGATCATAATGGTGTAAACTGAAGCTGCGATTGGATGTTCATTGAGTTACTTTATATCCCTTTTCATATTATTTCCTTTTGTAGCTGAGTCACTGTGCTAGTTTTTCTGGAACAAAGACGAGCCACAGTTGCTGCCTTTAAGTTGGCTAGTTTTGTAGGTGACTTTTTATAGATGCTCTATTTAGCTCCTAGAAACTGATTTTTGCCCTAAAATCGGAGACCTCTGTATATCTTGACAGTGTGTACAGGGTGGGGAACCCCTTTGTTGCCTTGTCATTGAATCATCACCTTCCGAGTACCATAGTCCTTACTAAAAATACGGTGCATACTTTATCAAAGTGCATCAAAATCAAAGAAACCAAATTGATGTTGTGTAGATCTATTCAAAAGCTATAAATTTTTTTTTCCTTTTTACTGAAATTTCCTTTCACTCTTAAAATGTAGAAATTACACCAGATGGTTTTGGATGGAGCTGATATGTTATCTTTCCAACCTATGCATTCGCGTGATTGTTCTCAGGTATTGTGTTTTGTCATAGCTATGTTCAGGAAATAAAGTCCTTTTACTTATCTACGTGCAATCCAGTAACTTCTCATCTTTATTTTTAACGTACCTTGGGAACTACTTCCATTAAGTGCCAATGTGATACTACTGCTGTTTTACCCAAGTAGGTATTATCTCATGTATAGTGGAAAATAATTAAGAAAAAAGGCGTATTTACAAAGAAAACTTCTTCATATGATAACCTGGATTCTTCTGGTGCTGCTTCTTTTTTTTGAAAGCTGTAAAAAGTTGCTCTTTTACTCATTTGACCTTATTTTGCCCTTTCTTATGAAAAAAGGAACATTGCTTTAATAATTAAGGCTCAAGTTCACCATTTGTAGTCATGATTACTGACTTTATGACTAGCTTGCAATAGGAAGGAATTATTTGTCATTCAGTCGAGTGTCTTCTATGAGTACAATGACTATAAATCACTTGTTTTGACATTCAGTGCTGAATATGCACAGGTTCAGAGATTAGCTGCAATATACCGCCTGCGAAGTGGTTGTCAAGGTTCTGGCAAGAAGAGGTAGGAACTTTTTCCCTTTTAGTCTTTCAGATGTGAATTTCAGAGATAATCAAGAGGGTGTTTTGTTGGCCTTTAGTTAGTTGTGAAAATTATGGTTATTTTGATAGCTTATTCTACGGGTAGAAGGCATTTTACCTTAAGATGTTAATATTAGTAATGGAAAAGCTTTTTAGAGAAGATTTGTATCGTAAACTGACTTTTGCATCTGCTATATGTGGCTTCTGCATCTCCATTTTCTTTGGACTGCTTTGGACATGTATATTAGATGTAATACTGCTATGGGAAGAAACTTTACTCGTTGAAGTCATCCGTGTTCCTTTTTTCCAGGTTTGTGACAGTTACCAAGACACAGCATACGGCTATGCCATCCCCCAGTGATAAAATTCGTTTGGAGAAGGTTATGTTGCTTGAAACCTCCAGTCCGTCGAAGAGTTCAATTTTTTGGTTTACATAATATATACCTTAAATAAACATTCTGTAAAGATGCATGTTTCTGTCTGACATGAAGATTTCCATTTTTTGACCATTCAGTTGATAGGAGCCGGTGACGAGGATTCTGATTTCACAGTCACGGGTATACAAAGTTATAGAAAGGATGTAAATGCAGCCAAAAACTCTTCAAAGGGTAGTGGTGGACAATCTGGCCCAAGCAATTTGTTTAAAATGCCGATAAATCCACGTGGGCAAAAAGACAGCAGCAAGAAACGAAGGGATCAGAAAACAGTCTCCTATGCTCTTCCTGTCTCCTTTGTTTCAAGTGGTATCATGCGTTCAGAGACAGAAGTTGAGGAGAAATCAATCGAAACAACCCAGACAACCACCATTGTCCATGAAACAAAGGTTGTGACCAACTCAGTCGAATACGGTGCATTCGAGATGCACACTACAGGTATTGGCTCAAAACTCATGGCAAAAATGGGTTATCAAGAAGGCAGAGGCTTAGGGAAAGATGGACAGGGTATTTCTGAGCCCATCGAAGCTCGCCAACGACCAAAAGCTCTTGGATTGGGAGCTGAAATCCCAGAAACAAGTATTAGATCATCAGGAAAGAAGGATTCTCTACCCAAATCATCTGGTCGTGGTGCTGAAGTTGTCGGTGGAAGTGGGAAATCCATCAGGAAGGAGTCATCTGTTGGATTTGCAGGATTTGAGAGACACACAAAGGGGTTTGGATCAAAGATTATGGCAAAGATGGGTTTTGTTGAAGGTATGGGACTTGGTAGAAGTTCACAAGGCATAACCAATCCTTTAGTTGCTGTTAGACGTCCTAAATCGCAAGGATTAGGTGCCAAAAGTTAGAAGAAAAAAAATCACA</genome_strand>
        <mrna_strand>GAAAATGATGGGTCATCTGATAGTGATTCAGATGTTGATGAAGAGGTTGCTGCAGATTATTATGAAGGAACTGGTGGGCTGTGCAAAGTAATTGATGTTAGACAGTTGGTTGGACAAGTTCCTAGTAGCTGCTCTGATGATAGCTTAGACGAAACCGTAGAGAAGTTGGGTGGGATTCATCTTCAGGAAGCCTCTAGGGTGTATGGAATGAAGAAGCCTAAAAAAGAGAGAAAGTTCCGAGGAGGTCAGAAATCTCCTTCTGCCAAGCAAGCCCAGGGATCTGATTTGGATGGCCTTGTTTTTGTAAAGGACCCGAGAACAGTTTCAGGGAAAAAGAAACATGCTGCTAAATTTCCTCAGTCATGGCCGTTTGAGTCTCAAAAGAGTAAAAATTTCGGGAGGTTTCCAG...........................................................................................................................................................................................................................................................GTGCTAAGAAGAAACATCGCAAGGAGATGATGGCTGTGAAGCGTCGAGAGAGAATGCTACACCGAGGTGTTGATCTTCAGAAGATAAATTTA.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAATTACACCAGATGGTTTTGGATGGAGCTGATATGTTATCTTTCCAACCTATGCATTCGCGTGATTGTTCTCAG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTCAGAGATTAGCTGCAATATACCGCCTGCGAAGTGGTTGTCAAGGTTCTGGCAAGAAGAG.......................................................................................................................................................................................................................................................................................................................................GTTTGTGACAGTTACCAAGACACAGCATACGGCTATGCCATCCCCCAGTGATAAAATTCGTTTGGAGAAG......................................................................................................................................TTGATAGGAGCCGGTGACGAGGATTCTGATTTCACAGTCACGGGTATACAAAGTTATAGAAAGGATGTAAATGCAGCCAAAAACTCTTCAAAGGGTAGTGGTGGACAATCTGGCCCAAGCAATTTGTTTAAAATGCCGATAAATCCACGTGGGCAAAAAGACAGCAGCAAGAAACGAAGGGATCAGAAAACAGTCTCCTATGCTCTTCCTGTCTCCTTTGTTTCAAGTGGTATCATGCGTTCAGAGACAGAAGTTGAGGAGAAATCAATCGAAACAACCCAGACAACCACCATTGTCCATGAAACAAAGGTTGTGACCAACTCAGTCGAATACGGTGCATTCGAGATGCACACTACAGGTATTGGCTCAAAACTCATGGCAAAAATGGGTTATCAAGAAGGCAGAGGCTTAGGGAAAGATGGACAGGGTATTTCTGAGCCCATCGAAGCTCGCCAACGACCAAAAGCTCTTGGATTGGGAGCTGAAATCCCAGAAACAAGTATTAGATCATCAGGAAAGAAGGATTCTCTACCCAAATCATCTGGTCGTGGTGCTGAAGTTGTCGGTGGAAGTGGGAAATCCATCAGGAAGGAGTCATCTGTTGGATTTGCAGGATTTGAGAGACACACAAAGGGGTTTGGATCAAAGATTATGGCAAAGATGGGTTTTGTTGAAGGTATGGGACTTGGTAGAAGTTCACAAGGCATAACCAATCCTTTAGTTGCTGTTAGACGTCCTAAATCGCAAGGATTAGGTGCCAAAAGTTAGAAGAAAAAAAATCACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>1</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="85629" PGL_stop="81794"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="85629" e_stop="85221"/>
            <exon e_start="84969" e_stop="84878"/>
            <exon e_start="83736" e_stop="83662"/>
            <exon e_start="83170" e_stop="83109"/>
            <exon e_start="82781" e_stop="82712"/>
            <exon e_start="82577" e_stop="81794"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.985" acc_prob="0.991" e_score="1.000"/>
          <exon-intron don_prob="0.386" acc_prob="0.956" e_score="1.000"/>
          <exon-intron don_prob="0.942" acc_prob="0.955" e_score="1.000"/>
          <exon-intron don_prob="0.976" acc_prob="0.898" e_score="1.000"/>
          <exon-intron don_prob="0.633" acc_prob="0.687" 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="85629" e_stop="85221" e_length="409"/>
          </exon>
          <intron i_serial="1" don_prob="0.985" acc_prob="0.991">
            <gDNA_intron_boundary i_start="85220" i_stop="84970" i_length="251"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="84969" e_stop="84878" e_length="92"/>
          </exon>
          <intron i_serial="2" don_prob="0.386" acc_prob="0.956">
            <gDNA_intron_boundary i_start="84877" i_stop="83737" i_length="1141"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="83736" e_stop="83662" e_length="75"/>
          </exon>
          <intron i_serial="3" don_prob="0.942" acc_prob="0.955">
            <gDNA_intron_boundary i_start="83661" i_stop="83171" i_length="491"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="83170" e_stop="83109" e_length="62"/>
          </exon>
          <intron i_serial="4" don_prob="0.976" acc_prob="0.898">
            <gDNA_intron_boundary i_start="83108" i_stop="82782" i_length="327"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="82781" e_stop="82712" e_length="70"/>
          </exon>
          <intron i_serial="5" don_prob="0.633" acc_prob="0.687">
            <gDNA_intron_boundary i_start="82711" i_stop="82578" i_length="134"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="82577" e_stop="81794" e_length="784"/>
          </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="85629" stop="85221"/>
              <exon start="84969" stop="84878"/>
              <exon start="83736" stop="83662"/>
              <exon start="83170" stop="83109"/>
              <exon start="82781" stop="82712"/>
              <exon start="82577" stop="81794"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M7677" 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>GAAAATGATGGGTCATCTGATAGTGATTCAGATGTTGATGAAGAGGTTGCTGCAGATTATTATGAAGGAACTGGTGGGCTGTGCAAAGTAATTGATGTTAGACAGTTGGTTGGACAAGTTCCTAGTAGCTGCTCTGATGATAGCTTAGACGAAACCGTAGAGAAGTTGGGTGGGATTCATCTTCAGGAAGCCTCTAGGGTGTATGGAATGAAGAAGCCTAAAAAAGAGAGAAAGTTCCGAGGAGGTCAGAAATCTCCTTCTGCCAAGCAAGCCCAGGGATCTGATTTGGATGGCCTTGTTTTTGTAAAGGACCCGAGAACAGTTTCAGGGAAAAAGAAACATGCTGCTAAATTTCCTCAGTCATGGCCGTTTGAGTCTCAAAAGAGTAAAAATTTCGGGAGGTTTCCAG : GTGCTAAGAAGAAACATCGCAAGGAGATGATGGCTGTGAAGCGTCGAGAGAGAATGCTACACCGAGGTGTTGATCTTCAGAAGATAAATTTA : AAATTACACCAGATGGTTTTGGATGGAGCTGATATGTTATCTTTCCAACCTATGCATTCGCGTGATTGTTCTCAG : GTTCAGAGATTAGCTGCAATATACCGCCTGCGAAGTGGTTGTCAAGGTTCTGGCAAGAAGAG : GTTTGTGACAGTTACCAAGACACAGCATACGGCTATGCCATCCCCCAGTGATAAAATTCGTTTGGAGAAG : TTGATAGGAGCCGGTGACGAGGATTCTGATTTCACAGTCACGGGTATACAAAGTTATAGAAAGGATGTAAATGCAGCCAAAAACTCTTCAAAGGGTAGTGGTGGACAATCTGGCCCAAGCAATTTGTTTAAAATGCCGATAAATCCACGTGGGCAAAAAGACAGCAGCAAGAAACGAAGGGATCAGAAAACAGTCTCCTATGCTCTTCCTGTCTCCTTTGTTTCAAGTGGTATCATGCGTTCAGAGACAGAAGTTGAGGAGAAATCAATCGAAACAACCCAGACAACCACCATTGTCCATGAAACAAAGGTTGTGACCAACTCAGTCGAATACGGTGCATTCGAGATGCACACTACAGGTATTGGCTCAAAACTCATGGCAAAAATGGGTTATCAAGAAGGCAGAGGCTTAGGGAAAGATGGACAGGGTATTTCTGAGCCCATCGAAGCTCGCCAACGACCAAAAGCTCTTGGATTGGGAGCTGAAATCCCAGAAACAAGTATTAGATCATCAGGAAAGAAGGATTCTCTACCCAAATCATCTGGTCGTGGTGCTGAAGTTGTCGGTGGAAGTGGGAAATCCATCAGGAAGGAGTCATCTGTTGGATTTGCAGGATTTGAGAGACACACAAAGGGGTTTGGATCAAAGATTATGGCAAAGATGGGTTTTGTTGAAGGTATGGGACTTGGTAGAAGTTCACAAGGCATAACCAATCCTTTAGTTGCTGTTAGACGTCCTAAATCGCAAGGATTAGGTGCCAAAAGTTAGAAGAAAAAAAATCACA</gDNA_template>
            <first_frame> E  N  D  G  S  S  D  S  D  S  D  V  D  E  E  V  A  A  D  Y  Y  E  G  T  G  G  L  C  K  V  I  D  V  R  Q  L  V  G  Q  V  P  S  S  C  S  D  D  S  L  D  E  T  V  E  K  L  G  G  I  H  L  Q  E  A  S  R  V  Y  G  M  K  K  P  K  K  E  R  K  F  R  G  G  Q  K  S  P  S  A  K  Q  A  Q  G  S  D  L  D  G  L  V  F  V  K  D  P  R  T  V  S  G  K  K  K  H  A  A  K  F  P  Q  S  W  P  F  E  S  Q  K  S  K  N  F  G  R  F  P   : G  A  K  K  K  H  R  K  E  M  M  A  V  K  R  R  E  R  M  L  H  R  G  V  D  L  Q  K  I  N  L  :  K  L  H  Q  M  V  L  D  G  A  D  M  L  S  F  Q  P  M  H  S  R  D  C  S  Q  :  V  Q  R  L  A  A  I  Y  R  L  R  S  G  C  Q  G  S  G  K  K  R :   F  V  T  V  T  K  T  Q  H  T  A  M  P  S  P  S  D  K  I  R  L  E  K  :  L  I  G  A  G  D  E  D  S  D  F  T  V  T  G  I  Q  S  Y  R  K  D  V  N  A  A  K  N  S  S  K  G  S  G  G  Q  S  G  P  S  N  L  F  K  M  P  I  N  P  R  G  Q  K  D  S  S  K  K  R  R  D  Q  K  T  V  S  Y  A  L  P  V  S  F  V  S  S  G  I  M  R  S  E  T  E  V  E  E  K  S  I  E  T  T  Q  T  T  T  I  V  H  E  T  K  V  V  T  N  S  V  E  Y  G  A  F  E  M  H  T  T  G  I  G  S  K  L  M  A  K  M  G  Y  Q  E  G  R  G  L  G  K  D  G  Q  G  I  S  E  P  I  E  A  R  Q  R  P  K  A  L  G  L  G  A  E  I  P  E  T  S  I  R  S  S  G  K  K  D  S  L  P  K  S  S  G  R  G  A  E  V  V  G  G  S  G  K  S  I  R  K  E  S  S  V  G  F  A  G  F  E  R  H  T  K  G  F  G  S  K  I  M  A  K  M  G  F  V  E  G  M  G  L  G  R  S  S  Q  G  I  T  N  P  L  V  A  V  R  R  P  K  S  Q  G  L  G  A  K  S  *  K  K  K  N  H  </first_frame>
            <second_frame>  K  M  M  G  H  L  I  V  I  Q  M  L  M  K  R  L  L  Q  I  I  M  K  E  L  V  G  C  A  K  *  L  M  L  D  S  W  L  D  K  F  L  V  A  A  L  M  I  A  *  T  K  P  *  R  S  W  V  G  F  I  F  R  K  P  L  G  C  M  E  *  R  S  L  K  K  R  E  S  S  E  E  V  R  N  L  L  L  P  S  K  P  R  D  L  I  W  M  A  L  F  L  *  R  T  R  E  Q  F  Q  G  K  R  N  M  L  L  N  F  L  S  H  G  R  L  S  L  K  R  V  K  I  S  G  G  F  Q  :  V  L  R  R  N  I  A  R  R  *  W  L  *  S  V  E  R  E  C  Y  T  E  V  L  I  F  R  R  *  I  * :   N  Y  T  R  W  F  W  M  E  L  I  C  Y  L  S  N  L  C  I  R  V  I  V  L  R :   F  R  D  *  L  Q  Y  T  A  C  E  V  V  V  K  V  L  A  R  R   : G  L  *  Q  L  P  R  H  S  I  R  L  C  H  P  P  V  I  K  F  V  W  R  S :   *  *  E  P  V  T  R  I  L  I  S  Q  S  R  V  Y  K  V  I  E  R  M  *  M  Q  P  K  T  L  Q  R  V  V  V  D  N  L  A  Q  A  I  C  L  K  C  R  *  I  H  V  G  K  K  T  A  A  R  N  E  G  I  R  K  Q  S  P  M  L  F  L  S  P  L  F  Q  V  V  S  C  V  Q  R  Q  K  L  R  R  N  Q  S  K  Q  P  R  Q  P  P  L  S  M  K  Q  R  L  *  P  T  Q  S  N  T  V  H  S  R  C  T  L  Q  V  L  A  Q  N  S  W  Q  K  W  V  I  K  K  A  E  A  *  G  K  M  D  R  V  F  L  S  P  S  K  L  A  N  D  Q  K  L  L  D  W  E  L  K  S  Q  K  Q  V  L  D  H  Q  E  R  R  I  L  Y  P  N  H  L  V  V  V  L  K  L  S  V  E  V  G  N  P  S  G  R  S  H  L  L  D  L  Q  D  L  R  D  T  Q  R  G  L  D  Q  R  L  W  Q  R  W  V  L  L  K  V  W  D  L  V  E  V  H  K  A  *  P  I  L  *  L  L  L  D  V  L  N  R  K  D  *  V  P  K  V  R  R  K  K  I  T </second_frame>
            <third_frame>   K  *  W  V  I  *  *  *  F  R  C  *  *  R  G  C  C  R  L  L  *  R  N  W  W  A  V  Q  S  N  *  C  *  T  V  G  W  T  S  S  *  *  L  L  *  *  *  L  R  R  N  R  R  E  V  G  W  D  S  S  S  G  S  L  *  G  V  W  N  E  E  A  *  K  R  E  K  V  P  R  R  S  E  I  S  F  C  Q  A  S  P  G  I  *  F  G  W  P  C  F  C  K  G  P  E  N  S  F  R  E  K  E  T  C  C  *  I  S  S  V  M  A  V  *  V  S  K  E  *  K  F  R  E  V  S  R :   C  *  E  E  T  S  Q  G  D  D  G  C  E  A  S  R  E  N  A  T  P  R  C  *  S  S  E  D  K  F   : K  I  T  P  D  G  F  G  W  S  *  Y  V  I  F  P  T  Y  A  F  A  *  L  F  S   : G  S  E  I  S  C  N  I  P  P  A  K  W  L  S  R  F  W  Q  E  E  :  V  C  D  S  Y  Q  D  T  A  Y  G  Y  A  I  P  Q  *  *  N  S  F  G  E   : V  D  R  S  R  *  R  G  F  *  F  H  S  H  G  Y  T  K  L  *  K  G  C  K  C  S  Q  K  L  F  K  G  *  W  W  T  I  W  P  K  Q  F  V  *  N  A  D  K  S  T  W  A  K  R  Q  Q  Q  E  T  K  G  S  E  N  S  L  L  C  S  S  C  L  L  C  F  K  W  Y  H  A  F  R  D  R  S  *  G  E  I  N  R  N  N  P  D  N  H  H  C  P  *  N  K  G  C  D  Q  L  S  R  I  R  C  I  R  D  A  H  Y  R  Y  W  L  K  T  H  G  K  N  G  L  S  R  R  Q  R  L  R  E  R  W  T  G  Y  F  *  A  H  R  S  S  P  T  T  K  S  S  W  I  G  S  *  N  P  R  N  K  Y  *  I  I  R  K  E  G  F  S  T  Q  I  I  W  S  W  C  *  S  C  R  W  K  W  E  I  H  Q  E  G  V  I  C  W  I  C  R  I  *  E  T  H  K  G  V  W  I  K  D  Y  G  K  D  G  F  C  *  R  Y  G  T  W  *  K  F  T  R  H  N  Q  S  F  S  C  C  *  T  S  *  I  A  R  I  R  C  Q  K  L  E  E  K  K  S   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C07SLm0097J03.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="85629" stop="85221"/>
                    <exon start="84969" stop="84878"/>
                    <exon start="83736" stop="83662"/>
                    <exon start="83170" stop="83109"/>
                    <exon start="82781" stop="82712"/>
                    <exon start="82577" stop="81810"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>1473</number_coding_nucleotides>
                  <number_encoded_amino_acids>491</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>ENDGSSDSDSDVDEEVAADYYEGTGGLCKVIDVRQLVGQVPSSCSDDSLDETVEKLGGIHLQEASRVYGMKKPKKERKFRGGQKSPSAKQAQGSDLDGLVFVKDPRTVSGKKKHAAKFPQSWPFESQKSKNFGRFPGAKKKHRKEMMAVKRRERMLHRGVDLQKINLKLHQMVLDGADMLSFQPMHSRDCSQVQRLAAIYRLRSGCQGSGKKRFVTVTKTQHTAMPSPSDKIRLEKLIGAGDEDSDFTVTGIQSYRKDVNAAKNSSKGSGGQSGPSNLFKMPINPRGQKDSSKKRRDQKTVSYALPVSFVSSGIMRSETEVEEKSIETTQTTTIVHETKVVTNSVEYGAFEMHTTGIGSKLMAKMGYQEGRGLGKDGQGISEPIEARQRPKALGLGAEIPETSIRSSGKKDSLPKSSGRGAEVVGGSGKSIRKESSVGFAGFERHTKGFGSKIMAKMGFVEGMGLGRSSQGITNPLVAVRRPKSQGLGAKS*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 12 chains have been computed
$ 
$ memory statistics:
$ 2280 bytes spliced alignments in total
$ 1 spliced alignments have been stored
$ 2280 bytes was the average size of a spliced alignment
$ 5688 bytes predicted gene locations in total
$ 1 predicted gene locations have been stored
$ 5688 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 12 backtrace matrices have been allocated
$ 
$ date finished: 2009-07-24 21:54:21
-->
