<?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="2009-01-16 02:50:47"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C06SLm0082G10-u6h23/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C06SLm0082G10-u6h23/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-C06SLm0082G10-u6h23/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M8059" ref_strand="+" ref_description="SGN-M8059 C2_At3g56230 [cosii_markers]">
      <seq>cgccatcatctctaagtccacttctcttattttaaatcgatcatcgtctcttcttcattgatcatttgagttcagtaatttcttcttcgaatattgatcagaaaaaaattaatcgaagcgcacaaataaatatggattgttctatatgtagcgcgatgccatttattttaaggccaccaagaaatacaatatgtgcagcttgttacgaaggagctagaacaataattacgttgactaccaacaaggttgatcatgttgaaaatacaaaaggaagtgataataaaacaataactggacttctttctgcttcttcatccaatccatctattaagggatttggaaatgcattgaaatgggtgaaagaaatgaaggagatggaagaggaatcaaaggagaagctgaattatcttagtggttttgttgttgccttaagagatcatattcatactgatattttaattaaacctggcaatgatgctccttctataccagcacatagagctcttctggcagcaagatctgacatattcaaaaacatactggactcagatggatgtaaagctccaccaagtaacaacacgataacgttgtctgaactaaactacgatgaattagagtgtctattagagttcctgtacagtggagatttggctaaagagaaggtggaaaaacatgtatattccttgtcaattgcagcagataagtatgagattcccttcttgcagaaattttgtgagaatcaaatgttgggatcattgaacacatcgaatgctctcgacgttttagagatatctgatacttgttctaatacgtcgttaaaggagacagcgttaaacttcattgttaaaaacatggaggatattgtgtttactgctagatttgatgcatttgcactcaagaatcctcatttaactgtacaaattactagggcttcttttatagacattaaaaatagaaggcttactgttgattaaaaagaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C06SLm0082G10-u6h23/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C06SLm0082G10.1" temp_strand="+" temp_description="C06SLm0082G10.1  AC219225.1 htgs_phase:3 submitted_to_sgn_as:C06SLm0082G10 sequenced_by:cbsg upload_account_name:netherlands [organism=Solanum lycopersicum]">
        <position start="79497" stop="83583"/>
      </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="79797" g_stop="80128" g_length="332"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="332" r_length="332" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="80129" i_stop="82135" i_length="2007">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="82136" g_stop="82312" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="333" r_stop="509" r_length="177" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="82313" i_stop="82816" i_length="504">
            <donor d_prob="0.970" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="82817" g_stop="83280" g_length="464"/>
          <reference_exon_boundary r_type="cDNA" r_start="510" r_stop="972" r_length="463" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="973" polyA_stop="983"/>
      <MATCH_line gen_id="C06SLm0082G10.1" gen_strand="+" ref_id="SGN-M8059" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>973</cumulative_length_of_scored_exons>
        <coverage percentage="0.990" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C06SLm0082G10.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-M8059" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="79797" e_stop="80128"/>
          <exon e_start="82136" e_stop="82312"/>
          <exon e_start="82817" e_stop="83280"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGCCATCATCTCTAAGTCCACTTCTCTTATTTTAAATCGATCATCGTCTCTTCTTCATTGATCATTTGAGTTCAGTAATTTCTTCTTCGAATATTGATCAGAAAAAAATTAATCGAAGCGCACAAATAAATATGGATTGTTCTATATGTAGCGCGATGCCATTTATTTTAAGGCCACCAAGAAATACAATATGTGCAGCTTGTTACGAAGGAGCTAGAACAATAATTACGTTGACTACCAACAAGGTTGATCATGTTGAAAATACAAAAGGAAGTGATAATAAAACAATAACTGGACTTCTTTCTGCTTCTTCATCCAATCCATCTATTAAGGTATGTATATATCATCATCTCTTTCTTCAAATTAGCGACAGATAAAATTTCATAGCTAAATGATAAAAATGTCACGTTAATCCCATTTAGCTATGGATTGATGATGGAGTATAGGAAAATTCAATTATCTTATGAGTTTTTTTTATAACATTTTGTTACTTTGAATTGTAGACAAATCTCATATATATATATATATATAACAAAATATGTGAAAGATGTTGCACATATAAAGAAGCTAATATTAATTCCTAAAAAGTATTTTAAGAAAAATGTGGGAATTTAGGACCAAAATGGAAAATATAAATGGTTGCCTCCATTGTTAGATATTTACAAGAAGATTTGGAGAAGGTTAGTTTATTTAGGTTACATTTCGTTTAATTATTTTTTTGTTTACTGATGATTTTGATTATAAATAAGCAAGGAGAACAAAGAGAAATTGGAAATTTAGAGTGCAGCGTGCAAAAACAATTTGCAAGGCAGTAGGTTGAGGCTAAACTTGTGTAGCACAAACCACTTTGTTTTACTAATTACTTTGTTCCAAAATAATGACATGATTAATTAGCAGTTGAAAGAGATGCTGATGTCTAGTTTTGCTCTATTTTTTGAATATTGATATGGATATTGTTTTCTTGATTTTCTTTTGGGGGGTGGGTGGGTTGGGGGAGGCTCAAAATTCACATATGGGGAAATTGCAGATTTATCACTTAAAATTAAAATTAGAATTATTAAAAATATATTCTCTTCGACTTATTTTATGTGACATCATTTCTTTTTTAAATTCTCCAAGAAAAAAATCATCTTACTGATAATTAGAAACAATTTTACTTAAAAATTTTCTTCTCACCCTTGATAAAATGATTTACAACCACACAATTATCAAAAGTTTATTTTAAATCACAAGTTTTAAAAGTTTTTTTTTTAACATAAAAATCGTACTAAGTCCTCTCCATTACTTATTCTCTCCATTTCTCGAGCTACATACTTGGATGAAAGCCATGTGTTATAATTTAAAATTAAAGTTGGAGATTTATTTATAATTTATAATTTATAATTTTTATACTTTTTAAATTATAACACATAGCTTCCATCCGAGGGTGTATTTAGAGAAATGGAGATAATAAGTTATGGAGAGGATATTCATTGTAAAACAAATGGAGTACAAATTGTCTGACTCTCCCATATGTAATCATGATCATTCTTATTGTTAGGATTGACTTTTTAATTCTTATCTTATAAGTCAAAAATCACAACTTAAAATTTTTAATTTATGAATTCAAATTTATTTTATTATGTTTTAGCTTAAGATTAAATATTTAAGAGTATCTTTTTAATTCACGCAAATATTTTAAAAATTGATTAAAAGCTATTTTAACTTTAAAATATTTGAAATAATGGAAAACTTATGGAAGTCCCACTAATTTAGGGGCTAATTATTTTGATATATTCAGTTTGCAATATTACGAATCTTATCAGATTTTTACATGAGATTAAAATTAGGTGTAATTGTTTTAGAGACATTATATTCATATAGATTCATACGTATCCGTATACATTATATCCAAGTGGATTCACATGTATCTAGAAAACACAGCAAATCTCACTTATCTCCCTCCTATCCTGAATACATGCACATACCAATTTATATGTCTAGTGTCATTCACATGTATCTAGTATATATATCTGATATACATGACTATCTCGCTCGTCTCACTCGCCTCTCCCTAATATTGTATATCTAGTAGTAAAAATATATGTATATCTAGATGTATATAGGAAATTCATAATTAATGGTAAGATATGTAATTGTCTAAAAGTATACATAGAAAATTACTATATATAATGTATAAATACATATATGTCTAATAAGCTAGTTGTCCTAGAATAAAAGCAATTAACTTGATGAAAATATAAATGGACGAGCTTTCTACAAAGCTGAAAAGCTATATCTTCATAAGAATTCATTGAAGTGACATAAAAATATTGAATATTTTGTCTAACTGATTCCAGGGATTTGGAAATGCATTGAAATGGGTGAAAGAAATGAAGGAGATGGAAGAGGAATCAAAGGAGAAGCTGAATTATCTTAGTGGTTTTGTTGTTGCCTTAAGAGATCATATTCATACTGATATTTTAATTAAACCTGGCAATGATGCTCCTTCTATACCAGCACATAGAGCTCTTCTGGTAATAAAACACGAGGTTTTGACCAAACTAAGCCATTATATAAAGCAATTCATCAAAATAATGCATTTTTCTAAAATTTTACAAAACTAGTATAAACGTATTTCACAGTAACGTTTTAGGGTATATTTTATTTTTAAAAAATTGACGGTTAGATTGATATACGTTACTCAGAGTAACGTTTCACTCCTAAAGTGTTATTCACAGTAACGTTTTAGGAGTAAAACGTTACTCAAAATAACGTTTCAGGAGTAAAACGTTACTTATAGTAACGTATATCAACCTAACGCTGTTAGTTTTTAAAAAATGAAATAAACCCTAAAACGTTACTGTGAAATACGTTTATACTAGTTTTATAAAATTTTAGAAAAATGTATTATTTTGATAAATAGCTTTAGATAATGATTCAGTTTGATAAAAAATTCAATAAAACACACCAAACTAGCTATTAACTGACTACATTTCCATTATCTCACTTCTGTTAAACATTTTACTTGTATTTAACAGGCAGCAAGATCTGACATATTCAAAAACATACTGGACTCAGATGGATGTAAAGCTCCACCAAGTAACAACACGATAACGTTGTCTGAACTAAACTACGATGAATTAGAGTGTCTATTAGAGTTCCTGTACAGTGGAGATTTGGCTAAAGAGAAGGTGGAAAAACATGTATATTCCTTGTCAATTGCAGCAGATAAGTATGAGATTCCCTTCTTGCAGAAATTTTGTGAGAATCAAATGTTGGGATCATTGAACACATCGAATGCTCTCGACGTTTTAGAGATATCTGATACTTGTTCTAATACGTCGTTAAAGGAGACAGCGTTAAACTTCATTGTTAAAAACATGGAGGATATTGTGTTTACTGCTAGATTTGATGCATTTGCACTCAAGAATCCTCATTTAACTGTACAAATTACTAGGGCTTCTTTTATAGACATTAAAAATAGAAGGCTTACTGTTTGATT</genome_strand>
        <mrna_strand>CGCCATCATCTCTAAGTCCACTTCTCTTATTTTAAATCGATCATCGTCTCTTCTTCATTGATCATTTGAGTTCAGTAATTTCTTCTTCGAATATTGATCAGAAAAAAATTAATCGAAGCGCACAAATAAATATGGATTGTTCTATATGTAGCGCGATGCCATTTATTTTAAGGCCACCAAGAAATACAATATGTGCAGCTTGTTACGAAGGAGCTAGAACAATAATTACGTTGACTACCAACAAGGTTGATCATGTTGAAAATACAAAAGGAAGTGATAATAAAACAATAACTGGACTTCTTTCTGCTTCTTCATCCAATCCATCTATTAAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGATTTGGAAATGCATTGAAATGGGTGAAAGAAATGAAGGAGATGGAAGAGGAATCAAAGGAGAAGCTGAATTATCTTAGTGGTTTTGTTGTTGCCTTAAGAGATCATATTCATACTGATATTTTAATTAAACCTGGCAATGATGCTCCTTCTATACCAGCACATAGAGCTCTTCTG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAGCAAGATCTGACATATTCAAAAACATACTGGACTCAGATGGATGTAAAGCTCCACCAAGTAACAACACGATAACGTTGTCTGAACTAAACTACGATGAATTAGAGTGTCTATTAGAGTTCCTGTACAGTGGAGATTTGGCTAAAGAGAAGGTGGAAAAACATGTATATTCCTTGTCAATTGCAGCAGATAAGTATGAGATTCCCTTCTTGCAGAAATTTTGTGAGAATCAAATGTTGGGATCATTGAACACATCGAATGCTCTCGACGTTTTAGAGATATCTGATACTTGTTCTAATACGTCGTTAAAGGAGACAGCGTTAAACTTCATTGTTAAAAACATGGAGGATATTGTGTTTACTGCTAGATTTGATGCATTTGCACTCAAGAATCCTCATTTAACTGTACAAATTACTAGGGCTTCTTTTATAGACATTAAAAATAGAAGGCTTACTG-TTGATT</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-C06SLm0082G10-u6h23/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M8059-2" ref_strand="+" ref_description="SGN-M8059-2 C2_At3g56230-2 [cosii_markers]">
      <seq>tttgagtttaatttcttcttcgactattgatcagaaaaaataatagaacaaataaagatggattgttctatatgtagcgcgatgccatttattctaaggccaccaagaaatactatatgcgcagcttgttatgagggagctagaactataattacgttgactaccaacaagcttgatcatattgaaaatacaaaaggaagtgataataaaacagtaactgcagttctttctgcttcttcatccaatccttctattaagggatttggaaatgcgttgaaatgggtgaaagaaatgaaggagagggaggaggaattaacggagaagctgaattatcttagtggttttgttgttgccttgagagatcatattcatactgatattttaattaaacctggcaatgatgctccttgtataccagcacatagagctcttctggcagctagatctgatatattcaaaaacatactggactcagatggatgtaaagctccaccaagtgacaacacaataacattgtcagaactaaactacgatgaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C06SLm0082G10-u6h23/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C06SLm0082G10.1" temp_strand="+" temp_description="C06SLm0082G10.1  AC219225.1 htgs_phase:3 submitted_to_sgn_as:C06SLm0082G10 sequenced_by:cbsg upload_account_name:netherlands [organism=Solanum lycopersicum]">
        <position start="79572" stop="83218"/>
      </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="79872" g_stop="80128" g_length="257"/>
          <reference_exon_boundary r_type="cDNA" r_start="9" r_stop="258" r_length="250" r_score="0.914"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="80129" i_stop="82135" i_length="2007">
            <donor d_prob="0.999" d_score="0.92"/>
            <acceptor a_prob="1.000" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="82136" g_stop="82312" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="259" r_stop="435" r_length="177" r_score="0.960"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="82313" i_stop="82816" i_length="504">
            <donor d_prob="0.970" d_score="0.98"/>
            <acceptor a_prob="0.998" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="82817" g_stop="82918" g_length="102"/>
          <reference_exon_boundary r_type="cDNA" r_start="436" r_stop="537" r_length="102" r_score="0.941"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C06SLm0082G10.1" gen_strand="+" ref_id="SGN-M8059-2" ref_strand="+">
        <total_alignment_score>0.935</total_alignment_score>
        <cumulative_length_of_scored_exons>536</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C06SLm0082G10.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-M8059-2" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="79872" e_stop="80128"/>
          <exon e_start="82136" e_stop="82312"/>
          <exon e_start="82817" e_stop="82918"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAATTTCTTCTTCGAATATTGATCAGAAAAAAATTAATCGAAGCGCACAAATAAATATGGATTGTTCTATATGTAGCGCGATGCCATTTATTTTAAGGCCACCAAGAAATACAATATGTGCAGCTTGTTACGAAGGAGCTAGAACAATAATTACGTTGACTACCAACAAGGTTGATCATGTTGAAAATACAAAAGGAAGTGATAATAAAACAATAACTGGACTTCTTTCTGCTTCTTCATCCAATCCATCTATTAAGGTATGTATATATCATCATCTCTTTCTTCAAATTAGCGACAGATAAAATTTCATAGCTAAATGATAAAAATGTCACGTTAATCCCATTTAGCTATGGATTGATGATGGAGTATAGGAAAATTCAATTATCTTATGAGTTTTTTTTATAACATTTTGTTACTTTGAATTGTAGACAAATCTCATATATATATATATATATAACAAAATATGTGAAAGATGTTGCACATATAAAGAAGCTAATATTAATTCCTAAAAAGTATTTTAAGAAAAATGTGGGAATTTAGGACCAAAATGGAAAATATAAATGGTTGCCTCCATTGTTAGATATTTACAAGAAGATTTGGAGAAGGTTAGTTTATTTAGGTTACATTTCGTTTAATTATTTTTTTGTTTACTGATGATTTTGATTATAAATAAGCAAGGAGAACAAAGAGAAATTGGAAATTTAGAGTGCAGCGTGCAAAAACAATTTGCAAGGCAGTAGGTTGAGGCTAAACTTGTGTAGCACAAACCACTTTGTTTTACTAATTACTTTGTTCCAAAATAATGACATGATTAATTAGCAGTTGAAAGAGATGCTGATGTCTAGTTTTGCTCTATTTTTTGAATATTGATATGGATATTGTTTTCTTGATTTTCTTTTGGGGGGTGGGTGGGTTGGGGGAGGCTCAAAATTCACATATGGGGAAATTGCAGATTTATCACTTAAAATTAAAATTAGAATTATTAAAAATATATTCTCTTCGACTTATTTTATGTGACATCATTTCTTTTTTAAATTCTCCAAGAAAAAAATCATCTTACTGATAATTAGAAACAATTTTACTTAAAAATTTTCTTCTCACCCTTGATAAAATGATTTACAACCACACAATTATCAAAAGTTTATTTTAAATCACAAGTTTTAAAAGTTTTTTTTTTAACATAAAAATCGTACTAAGTCCTCTCCATTACTTATTCTCTCCATTTCTCGAGCTACATACTTGGATGAAAGCCATGTGTTATAATTTAAAATTAAAGTTGGAGATTTATTTATAATTTATAATTTATAATTTTTATACTTTTTAAATTATAACACATAGCTTCCATCCGAGGGTGTATTTAGAGAAATGGAGATAATAAGTTATGGAGAGGATATTCATTGTAAAACAAATGGAGTACAAATTGTCTGACTCTCCCATATGTAATCATGATCATTCTTATTGTTAGGATTGACTTTTTAATTCTTATCTTATAAGTCAAAAATCACAACTTAAAATTTTTAATTTATGAATTCAAATTTATTTTATTATGTTTTAGCTTAAGATTAAATATTTAAGAGTATCTTTTTAATTCACGCAAATATTTTAAAAATTGATTAAAAGCTATTTTAACTTTAAAATATTTGAAATAATGGAAAACTTATGGAAGTCCCACTAATTTAGGGGCTAATTATTTTGATATATTCAGTTTGCAATATTACGAATCTTATCAGATTTTTACATGAGATTAAAATTAGGTGTAATTGTTTTAGAGACATTATATTCATATAGATTCATACGTATCCGTATACATTATATCCAAGTGGATTCACATGTATCTAGAAAACACAGCAAATCTCACTTATCTCCCTCCTATCCTGAATACATGCACATACCAATTTATATGTCTAGTGTCATTCACATGTATCTAGTATATATATCTGATATACATGACTATCTCGCTCGTCTCACTCGCCTCTCCCTAATATTGTATATCTAGTAGTAAAAATATATGTATATCTAGATGTATATAGGAAATTCATAATTAATGGTAAGATATGTAATTGTCTAAAAGTATACATAGAAAATTACTATATATAATGTATAAATACATATATGTCTAATAAGCTAGTTGTCCTAGAATAAAAGCAATTAACTTGATGAAAATATAAATGGACGAGCTTTCTACAAAGCTGAAAAGCTATATCTTCATAAGAATTCATTGAAGTGACATAAAAATATTGAATATTTTGTCTAACTGATTCCAGGGATTTGGAAATGCATTGAAATGGGTGAAAGAAATGAAGGAGATGGAAGAGGAATCAAAGGAGAAGCTGAATTATCTTAGTGGTTTTGTTGTTGCCTTAAGAGATCATATTCATACTGATATTTTAATTAAACCTGGCAATGATGCTCCTTCTATACCAGCACATAGAGCTCTTCTGGTAATAAAACACGAGGTTTTGACCAAACTAAGCCATTATATAAAGCAATTCATCAAAATAATGCATTTTTCTAAAATTTTACAAAACTAGTATAAACGTATTTCACAGTAACGTTTTAGGGTATATTTTATTTTTAAAAAATTGACGGTTAGATTGATATACGTTACTCAGAGTAACGTTTCACTCCTAAAGTGTTATTCACAGTAACGTTTTAGGAGTAAAACGTTACTCAAAATAACGTTTCAGGAGTAAAACGTTACTTATAGTAACGTATATCAACCTAACGCTGTTAGTTTTTAAAAAATGAAATAAACCCTAAAACGTTACTGTGAAATACGTTTATACTAGTTTTATAAAATTTTAGAAAAATGTATTATTTTGATAAATAGCTTTAGATAATGATTCAGTTTGATAAAAAATTCAATAAAACACACCAAACTAGCTATTAACTGACTACATTTCCATTATCTCACTTCTGTTAAACATTTTACTTGTATTTAACAGGCAGCAAGATCTGACATATTCAAAAACATACTGGACTCAGATGGATGTAAAGCTCCACCAAGTAACAACACGATAACGTTGTCTGAACTAAACTACGATGAA</genome_strand>
        <mrna_strand>TAATTTCTTCTTCGACTATTGATCAG-AAAAAA-TAAT---A--GAACAAATAAAGATGGATTGTTCTATATGTAGCGCGATGCCATTTATTCTAAGGCCACCAAGAAATACTATATGCGCAGCTTGTTATGAGGGAGCTAGAACTATAATTACGTTGACTACCAACAAGCTTGATCATATTGAAAATACAAAAGGAAGTGATAATAAAACAGTAACTGCAGTTCTTTCTGCTTCTTCATCCAATCCTTCTATTAAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGATTTGGAAATGCGTTGAAATGGGTGAAAGAAATGAAGGAGAGGGAGGAGGAATTAACGGAGAAGCTGAATTATCTTAGTGGTTTTGTTGTTGCCTTGAGAGATCATATTCATACTGATATTTTAATTAAACCTGGCAATGATGCTCCTTGTATACCAGCACATAGAGCTCTTCTG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAGCTAGATCTGATATATTCAAAAACATACTGGACTCAGATGGATGTAAAGCTCCACCAAGTGACAACACAATAACATTGTCAGAACTAAACTACGATGAA</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="79797" PGL_stop="83280"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="79797" e_stop="80128"/>
            <exon e_start="82136" e_stop="82312"/>
            <exon e_start="82817" e_stop="83280"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.970" acc_prob="0.998" e_score="1.000"/>
          <exon-only e_score="0.998"/>
        </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="79797" e_stop="80128" e_length="332"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="1.000">
            <gDNA_intron_boundary i_start="80129" i_stop="82135" i_length="2007"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="82136" e_stop="82312" e_length="177"/>
          </exon>
          <intron i_serial="2" don_prob="0.970" acc_prob="0.998">
            <gDNA_intron_boundary i_start="82313" i_stop="82816" i_length="504"/>
          </intron>
          <exon e_serial="3" e_score="0.998">
            <gDNA_exon_boundary e_start="82817" e_stop="83280" e_length="464"/>
          </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="79797" stop="80128"/>
              <exon start="82136" stop="82312"/>
              <exon start="82817" stop="83280"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M8059" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="79872" stop="80128"/>
              <exon start="82136" stop="82312"/>
              <exon start="82817" stop="82918"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M8059-2" 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>CGCCATCATCTCTAAGTCCACTTCTCTTATTTTAAATCGATCATCGTCTCTTCTTCATTGATCATTTGAGTTCAGTAATTTCTTCTTCGAATATTGATCAGAAAAAAATTAATCGAAGCGCACAAATAAATATGGATTGTTCTATATGTAGCGCGATGCCATTTATTTTAAGGCCACCAAGAAATACAATATGTGCAGCTTGTTACGAAGGAGCTAGAACAATAATTACGTTGACTACCAACAAGGTTGATCATGTTGAAAATACAAAAGGAAGTGATAATAAAACAATAACTGGACTTCTTTCTGCTTCTTCATCCAATCCATCTATTAAG : GGATTTGGAAATGCATTGAAATGGGTGAAAGAAATGAAGGAGATGGAAGAGGAATCAAAGGAGAAGCTGAATTATCTTAGTGGTTTTGTTGTTGCCTTAAGAGATCATATTCATACTGATATTTTAATTAAACCTGGCAATGATGCTCCTTCTATACCAGCACATAGAGCTCTTCTG : GCAGCAAGATCTGACATATTCAAAAACATACTGGACTCAGATGGATGTAAAGCTCCACCAAGTAACAACACGATAACGTTGTCTGAACTAAACTACGATGAATTAGAGTGTCTATTAGAGTTCCTGTACAGTGGAGATTTGGCTAAAGAGAAGGTGGAAAAACATGTATATTCCTTGTCAATTGCAGCAGATAAGTATGAGATTCCCTTCTTGCAGAAATTTTGTGAGAATCAAATGTTGGGATCATTGAACACATCGAATGCTCTCGACGTTTTAGAGATATCTGATACTTGTTCTAATACGTCGTTAAAGGAGACAGCGTTAAACTTCATTGTTAAAAACATGGAGGATATTGTGTTTACTGCTAGATTTGATGCATTTGCACTCAAGAATCCTCATTTAACTGTACAAATTACTAGGGCTTCTTTTATAGACATTAAAAATAGAAGGCTTACTGTTTGATT</gDNA_template>
            <first_frame> R  H  H  L  *  V  H  F  S  Y  F  K  S  I  I  V  S  S  S  L  I  I  *  V  Q  *  F  L  L  R  I  L  I  R  K  K  L  I  E  A  H  K  *  I  W  I  V  L  Y  V  A  R  C  H  L  F  *  G  H  Q  E  I  Q  Y  V  Q  L  V  T  K  E  L  E  Q  *  L  R  *  L  P  T  R  L  I  M  L  K  I  Q  K  E  V  I  I  K  Q  *  L  D  F  F  L  L  L  H  P  I  H  L  L  R :   D  L  E  M  H  *  N  G  *  K  K  *  R  R  W  K  R  N  Q  R  R  S  *  I  I  L  V  V  L  L  L  P  *  E  I  I  F  I  L  I  F  *  L  N  L  A  M  M  L  L  L  Y  Q  H  I  E  L  F  W :   Q  Q  D  L  T  Y  S  K  T  Y  W  T  Q  M  D  V  K  L  H  Q  V  T  T  R  *  R  C  L  N  *  T  T  M  N  *  S  V  Y  *  S  S  C  T  V  E  I  W  L  K  R  R  W  K  N  M  Y  I  P  C  Q  L  Q  Q  I  S  M  R  F  P  S  C  R  N  F  V  R  I  K  C  W  D  H  *  T  H  R  M  L  S  T  F  *  R  Y  L  I  L  V  L  I  R  R  *  R  R  Q  R  *  T  S  L  L  K  T  W  R  I  L  C  L  L  L  D  L  M  H  L  H  S  R  I  L  I  *  L  Y  K  L  L  G  L  L  L  *  T  L  K  I  E  G  L  L  F  D  </first_frame>
            <second_frame>  A  I  I  S  K  S  T  S  L  I  L  N  R  S  S  S  L  L  H  *  S  F  E  F  S  N  F  F  F  E  Y  *  S  E  K  N  *  S  K  R  T  N  K  Y  G  L  F  Y  M  *  R  D  A  I  Y  F  K  A  T  K  K  Y  N  M  C  S  L  L  R  R  S  *  N  N  N  Y  V  D  Y  Q  Q  G  *  S  C  *  K  Y  K  R  K  *  *  *  N  N  N  W  T  S  F  C  F  F  I  Q  S  I  Y  *   : G  I  W  K  C  I  E  M  G  E  R  N  E  G  D  G  R  G  I  K  G  E  A  E  L  S  *  W  F  C  C  C  L  K  R  S  Y  S  Y  *  Y  F  N  *  T  W  Q  *  C  S  F  Y  T  S  T  *  S  S  S   : G  S  K  I  *  H  I  Q  K  H  T  G  L  R  W  M  *  S  S  T  K  *  Q  H  D  N  V  V  *  T  K  L  R  *  I  R  V  S  I  R  V  P  V  Q  W  R  F  G  *  R  E  G  G  K  T  C  I  F  L  V  N  C  S  R  *  V  *  D  S  L  L  A  E  I  L  *  E  S  N  V  G  I  I  E  H  I  E  C  S  R  R  F  R  D  I  *  Y  L  F  *  Y  V  V  K  G  D  S  V  K  L  H  C  *  K  H  G  G  Y  C  V  Y  C  *  I  *  C  I  C  T  Q  E  S  S  F  N  C  T  N  Y  *  G  F  F  Y  R  H  *  K  *  K  A  Y  C  L  I </second_frame>
            <third_frame>   P  S  S  L  S  P  L  L  L  F  *  I  D  H  R  L  F  F  I  D  H  L  S  S  V  I  S  S  S  N  I  D  Q  K  K  I  N  R  S  A  Q  I  N  M  D  C  S  I  C  S  A  M  P  F  I  L  R  P  P  R  N  T  I  C  A  A  C  Y  E  G  A  R  T  I  I  T  L  T  T  N  K  V  D  H  V  E  N  T  K  G  S  D  N  K  T  I  T  G  L  L  S  A  S  S  S  N  P  S  I  K  :  G  F  G  N  A  L  K  W  V  K  E  M  K  E  M  E  E  E  S  K  E  K  L  N  Y  L  S  G  F  V  V  A  L  R  D  H  I  H  T  D  I  L  I  K  P  G  N  D  A  P  S  I  P  A  H  R  A  L  L  :  A  A  R  S  D  I  F  K  N  I  L  D  S  D  G  C  K  A  P  P  S  N  N  T  I  T  L  S  E  L  N  Y  D  E  L  E  C  L  L  E  F  L  Y  S  G  D  L  A  K  E  K  V  E  K  H  V  Y  S  L  S  I  A  A  D  K  Y  E  I  P  F  L  Q  K  F  C  E  N  Q  M  L  G  S  L  N  T  S  N  A  L  D  V  L  E  I  S  D  T  C  S  N  T  S  L  K  E  T  A  L  N  F  I  V  K  N  M  E  D  I  V  F  T  A  R  F  D  A  F  A  L  K  N  P  H  L  T  V  Q  I  T  R  A  S  F  I  D  I  K  N  R  R  L  T  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="C06SLm0082G10.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="79832" stop="80128"/>
                    <exon start="82136" stop="82312"/>
                    <exon start="82817" stop="83278"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>933</number_coding_nucleotides>
                  <number_encoded_amino_acids>311</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>IDHRLFFIDHLSSVISSSNIDQKKINRSAQINMDCSICSAMPFILRPPRNTICAACYEGARTIITLTTNKVDHVENTKGSDNKTITGLLSASSSNPSIKGFGNALKWVKEMKEMEEESKEKLNYLSGFVVALRDHIHTDILIKPGNDAPSIPAHRALLAARSDIFKNILDSDGCKAPPSNNTITLSELNYDELECLLEFLYSGDLAKEKVEKHVYSLSIAADKYEIPFLQKFCENQMLGSLNTSNALDVLEISDTCSNTSLKETALNFIVKNMEDIVFTARFDAFALKNPHLTVQITRASFIDIKNRRLTV*</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:
$ 3536 bytes spliced alignments in total
$ 2 spliced alignments have been stored
$ 1768 bytes was the average size of a spliced alignment
$ 5592 bytes predicted gene locations in total
$ 1 predicted gene locations have been stored
$ 5592 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: 2009-01-16 02:50:51
-->
