<?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 23:38:01"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C06HBa0062H07-OjMts/GenomeThreader_SGN_U_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C06HBa0062H07-OjMts/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" 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-C06HBa0062H07-OjMts/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U346994" ref_strand="+" ref_description="SGN-U346994        Tomato 200607 #1 [1 ESTs aligned] arabidopsis/peptide: | Symbol: None | expressed protein, putative mitochondrial carrier protein At2g47490 - Arabidopsis thaliana, EMBL:AC002535 | chr3:23179445-23180163 FORWARD | Aliases: F26K9.80(evalue: 3e-18, score=87.8) genbank/nr: gi|15228820|ref|NP_191824.1| expressed protein [Arabidopsis thaliana] gi|11357682|pir||T48054 hypothetical protein F26K9.80 - Arabidopsis thaliana gi|7362745|emb|CAB83115.1| putative protein [Arabidopsis thaliana] gi|15450964|gb|AAK96753.1| putative protein [Arabidopsis thaliana] gi|17978723|gb|AAL47355.1| putative protein [Arabidopsis thaliana](evalue: 2e-16, score=87.8)">
      <seq>tcaacacgaagcttgtgcagtggattaaaatgttactggaagaggaggaggagaagaggagggtatgagaggctaaatgggtcgggttgtatgaggatgaatcgggtcggtttggggaaacgaaggttctggaagataaatctaaagcggagagtgaagttgagtcggaattatttgaaattttggccgaagaaattcgtaatgaatgtgcgggatgcgtatgtgaatatgatgatgaagattgctaattccaagtgtatgagtagtggggttggtggtggattcggtacgaggcagttgaaagagtatgatgagaaggtgctcgtacagatttacaagtccatgattattgcgcagggacagttaattggtgatggtgatgtaaaatttggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C06HBa0062H07-OjMts/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C06HBa0062H07.1" temp_strand="+" temp_description="C06HBa0062H07.1  AC219209.1 htgs_phase:1 submitted_to_sgn_as:C06HBa0062H07 sequenced_by:cbsg upload_account_name:netherlands [organism=Solanum lycopersicum]">
        <position start="52682" stop="53674"/>
      </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="52982" g_stop="53374" g_length="393"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="393" r_length="393" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C06HBa0062H07.1" gen_strand="+" ref_id="SGN-U346994" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>393</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C06HBa0062H07.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U346994" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="52982" e_stop="53374"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAACACGAAGCTTGTGCAGTGGATTAAAATGTTACTGGAAGAGGAGGAGGAGAAGAGGAGGGTATGAGAGGCTAAATGGGTCGGGTTGTATGAGGATGAATCGGGTCGGTTTGGGGAAACGAAGGTTCTGGAAGATAAATCTAAAGCGGAGAGTGAAGTTGAGTCGGAATTATTTGAAATTTTGGCCGAAGAAATTCGTAATGAATGTGCGGGATGCGTATGTGAATATGATGATGAAGATTGCTAATTCCAAGTGTATGAGTAGTGGGGTTGGTGGTGGATTCGGTACGAGGCAGTTGAAAGAGTATGATGAGAAGGTGCTCGTACAGATTTACAAGTCCATGATTATTGCGCAGGGACAGTTAATTGGTGATGGTGATGTAAAATTTGGC</genome_strand>
        <mrna_strand>TCAACACGAAGCTTGTGCAGTGGATTAAAATGTTACTGGAAGAGGAGGAGGAGAAGAGGAGGGTATGAGAGGCTAAATGGGTCGGGTTGTATGAGGATGAATCGGGTCGGTTTGGGGAAACGAAGGTTCTGGAAGATAAATCTAAAGCGGAGAGTGAAGTTGAGTCGGAATTATTTGAAATTTTGGCCGAAGAAATTCGTAATGAATGTGCGGGATGCGTATGTGAATATGATGATGAAGATTGCTAATTCCAAGTGTATGAGTAGTGGGGTTGGTGGTGGATTCGGTACGAGGCAGTTGAAAGAGTATGATGAGAAGGTGCTCGTACAGATTTACAAGTCCATGATTATTGCGCAGGGACAGTTAATTGGTGATGGTGATGTAAAATTTGGC</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-C06HBa0062H07-OjMts/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U341204" ref_strand="+" ref_description="SGN-U341204        Tomato 200607 #1 [1 ESTs aligned] arabidopsis/peptide: | Symbol: None | kinesin motor protein-related | chr2:19500065-19505226 FORWARD | Aliases: T30B22.20(evalue: 6e-34, score=140) genbank/nr: Calponin-like(evalue: 4e-37, score=157)">
      <seq>aggactcagcagtttcctgtgggaacaagttcgttcagaaacattcttcagccagcacaaaggctgaccaaagaactgtaacactgatgaaagaagagaatcgcatcgtcagtgaggaacttcaaagaaggtacatgatgcagaacacatttgttgaccaacagcaacaagacatcaaggacctgaagcaaactcttttgactacaaaagcgggtatgcagttcatgcaaatgaagtttcatgaggaaatgcaaaatattggcatccacatacatggcctagcacacgcagcttctggttatcatagagttcttgaagaaaatcgcaggctttacaatcaagtgcaagaccttaaaggaagcataagggtttattgtcgagtaagaccctttttgcctgggcaatcaagttatatcagtaatgtcgatcat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C06HBa0062H07-OjMts/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C06HBa0062H07.1" temp_strand="+" temp_description="C06HBa0062H07.1  AC219209.1 htgs_phase:1 submitted_to_sgn_as:C06HBa0062H07 sequenced_by:cbsg upload_account_name:netherlands [organism=Solanum lycopersicum]">
        <position start="65011" stop="66443"/>
      </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="65311" g_stop="65372" g_length="62"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="62" r_length="62" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="65373" i_stop="65487" i_length="115">
            <donor d_prob="0.987" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="65488" g_stop="65604" g_length="117"/>
          <reference_exon_boundary r_type="cDNA" r_start="63" r_stop="179" r_length="117" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="65605" i_stop="65695" i_length="91">
            <donor d_prob="0.810" d_score="1.00"/>
            <acceptor a_prob="0.643" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="65696" g_stop="65777" g_length="82"/>
          <reference_exon_boundary r_type="cDNA" r_start="180" r_stop="261" r_length="82" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="65778" i_stop="65883" i_length="106">
            <donor d_prob="0.287" d_score="1.00"/>
            <acceptor a_prob="0.919" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="65884" g_stop="65979" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="262" r_stop="357" r_length="96" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="65980" i_stop="66069" i_length="90">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.973" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="66070" g_stop="66143" g_length="74"/>
          <reference_exon_boundary r_type="cDNA" r_start="358" r_stop="431" r_length="74" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C06HBa0062H07.1" gen_strand="+" ref_id="SGN-U341204" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>431</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C06HBa0062H07.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U341204" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="65311" e_stop="65372"/>
          <exon e_start="65488" e_stop="65604"/>
          <exon e_start="65696" e_stop="65777"/>
          <exon e_start="65884" e_stop="65979"/>
          <exon e_start="66070" e_stop="66143"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGGACTCAGCAGTTTCCTGTGGGAACAAGTTCGTTCAGAAACATTCTTCAGCCAGCACAAAGGTAATGCCTCTCAGTTTTGCAAATCACTAGGTAATCAATCATAAAGGTATTTTTTTAATATAGAATAGAGGATGACTCATACTTGCACATTACTTTTTTTCTCTTTCTCAATTAGGCTGACCAAAGAACTGTAACACTGATGAAAGAAGAGAATCGCATCGTCAGTGAGGAACTTCAAAGAAGGTACATGATGCAGAACACATTTGTTGACCAACAGCAACAAGACATCAAGGTAAGAATCGAAACCAGGCATGATCGGACTCCCAAACATGAAACTTGTGGATTTTCCACCTATATTTACGAACAATGATGCTCCACTGCAGGACCTGAAGCAAACTCTTTTGACTACAAAAGCGGGTATGCAGTTCATGCAAATGAAGTTTCATGAGGAAATGCAAAATATTGGTAGGGTCAATGCACTTGACAAATGTTCCCCTTTTTTCCCTTTCTTTTCTATGGTTGATTTCTTGAGCTGAGTTTGCTTCCATCTTGTAATATCCCTGCATTATAGGCATCCACATACATGGCCTAGCACACGCAGCTTCTGGTTATCATAGAGTTCTTGAAGAAAATCGCAGGCTTTACAATCAAGTGCAAGACCTTAAAGGTATCTTATTATAACATCCCACTTTGTCCATCTTCATTCTCTCATACATGTTTTGAAATGAAAAGGTTGTTTCTTTGTGCTCCAATTCAGGAAGCATAAGGGTTTATTGTCGAGTAAGACCCTTTTTGCCTGGGCAATCAAGTTATATCAGTAATGTCGATCAT</genome_strand>
        <mrna_strand>AGGACTCAGCAGTTTCCTGTGGGAACAAGTTCGTTCAGAAACATTCTTCAGCCAGCACAAAG...................................................................................................................GCTGACCAAAGAACTGTAACACTGATGAAAGAAGAGAATCGCATCGTCAGTGAGGAACTTCAAAGAAGGTACATGATGCAGAACACATTTGTTGACCAACAGCAACAAGACATCAAG...........................................................................................GACCTGAAGCAAACTCTTTTGACTACAAAAGCGGGTATGCAGTTCATGCAAATGAAGTTTCATGAGGAAATGCAAAATATTG..........................................................................................................GCATCCACATACATGGCCTAGCACACGCAGCTTCTGGTTATCATAGAGTTCTTGAAGAAAATCGCAGGCTTTACAATCAAGTGCAAGACCTTAAAG..........................................................................................GAAGCATAAGGGTTTATTGTCGAGTAAGACCCTTTTTGCCTGGGCAATCAAGTTATATCAGTAATGTCGATCAT</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-C06HBa0062H07-OjMts/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U343789" ref_strand="+" ref_description="SGN-U343789        Tomato 200607 #1 [1 ESTs aligned] arabidopsis/peptide: AT3G16850.1 | Symbol: None | glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein, weak similarity to SP:P05117 Polygalacturonase 2A precursor (EC 3.2.1.15)  (Pectinase) {Lycopersicon esculentum}; contains PF00295: Glycosyl hydrolases family 28 | chr3:5748580-5751303 FORWARD | Aliases: K20I9.8 (evalue: 5e-30, score=128) genbank/nr: polygalacturonase-like(evalue: 1e-48, score=196)">
      <seq>agaggtggttatatcaaagatattcttgttacggatgtggttatggcaaatgtgcaagtgggaattgaggccacaggtcattatgattctcatccagacgagaaatttgatccgtctgcacttccagttgttagtggtatcacctttgaggacattgttggcacaaatgtttctatagcaggcaatttcactggattatcagaatctccctttacttcaatatgtctgtcaaacatcactttttccatatcttacaacccttttacatcatggctatgctctgatgtatccggtttttctcaaaatgtgtctcctgaaccatgtcctgagcttgagagctcattttctagtactacttcaacttgcttcaccctcttacaccacccttacagtcaagttgcagttttgtaagtgaaacaattcgtttcattaaaattatacgagacacatttcaacttccagtgctggtgtacattctccaataagatgcaatgcagaatctacggtttcgtgcttatgcaagtatcaagaattcgacgatacaacattttcgaagtggcctgagatcgctgattgtctcctgtgtacagcatcagtttcttcattcacatataggaaaagttttggtagtgcagcaaattcagatgagttgttctttcctgtcccttggttcatttgagttttttgtcatttgtcttacatttgtaaatcaggcagcaaagaaggggtgttatagttgattgtcattgttgaatatatcttcttttgtcatttgattgaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C06HBa0062H07-OjMts/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C06HBa0062H07.1" temp_strand="-" temp_description="C06HBa0062H07.1  AC219209.1 htgs_phase:1 submitted_to_sgn_as:C06HBa0062H07 sequenced_by:cbsg upload_account_name:netherlands [organism=Solanum lycopersicum]">
        <position start="87759" stop="86378"/>
      </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="87459" g_stop="86677" g_length="783"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="782" r_length="782" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C06HBa0062H07.1" gen_strand="-" ref_id="SGN-U343789" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>783</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C06HBa0062H07.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U343789" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="87459" e_stop="86677"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAGGTGGTTATATCAAAGATATTCTTGTTACGGATGTGGTTATGGCAAATGTGCAAGTGGGAATTGAGGCCACAGGTCATTATGATTCTCATCCAGACGAGAAATTTGATCCGTCTGCACTTCCAGTTGTTAGTGGTATCACCTTTGAGGACATTGTTGGCACAAATGTTTCTATAGCAGGCAATTTCACTGGATTATCAGAATCTCCCTTTACTTCAATATGTCTGTCAAACATCACTTTTTCCATATCTTACAACCCTTTTACATCATGGCTATGCTCTGATGTATCCGGTTTTTCTCAAAATGTGTCTCCTGAACCATGTCCTGAGCTTGAGAGCTCATTTTCTAGTACTACTTCAACTTGCTTCACCCTCTTACACCACCCTTACAGTCAAGTTGCAGTTTTGTAAGTGAAACAATTCGTTTCATTAAAATTATACGAGACACATTTCAACTTCCAGTGCTGGTGTACATTCTCCAATAAGATGCAATGCAGAATCTACGGTTTCGTGCTTATGCAAGTATCAAGAATTCGACGATACAACATTTTCGAAGTGGCCTGAGATCGCTGATTGTCTCCTGTGTACAGCATCAGTTTCTTCATTCACATATAGGAAAAGTTTTGGTAGTGCAGCAAATTCAGATGAGTTGTTCTTTCCTGTCCCTTGGTTCATTTGAGTTTTTTGTCATTTGTCTTACATTTGTAAATCAGGCAGCAAAGAAGGGGTGTTATAGTTGATTGTCATTGTTGAAATATATCTTCTTTTGTCATTTGATTGAAT</genome_strand>
        <mrna_strand>AGAGGTGGTTATATCAAAGATATTCTTGTTACGGATGTGGTTATGGCAAATGTGCAAGTGGGAATTGAGGCCACAGGTCATTATGATTCTCATCCAGACGAGAAATTTGATCCGTCTGCACTTCCAGTTGTTAGTGGTATCACCTTTGAGGACATTGTTGGCACAAATGTTTCTATAGCAGGCAATTTCACTGGATTATCAGAATCTCCCTTTACTTCAATATGTCTGTCAAACATCACTTTTTCCATATCTTACAACCCTTTTACATCATGGCTATGCTCTGATGTATCCGGTTTTTCTCAAAATGTGTCTCCTGAACCATGTCCTGAGCTTGAGAGCTCATTTTCTAGTACTACTTCAACTTGCTTCACCCTCTTACACCACCCTTACAGTCAAGTTGCAGTTTTGTAAGTGAAACAATTCGTTTCATTAAAATTATACGAGACACATTTCAACTTCCAGTGCTGGTGTACATTCTCCAATAAGATGCAATGCAGAATCTACGGTTTCGTGCTTATGCAAGTATCAAGAATTCGACGATACAACATTTTCGAAGTGGCCTGAGATCGCTGATTGTCTCCTGTGTACAGCATCAGTTTCTTCATTCACATATAGGAAAAGTTTTGGTAGTGCAGCAAATTCAGATGAGTTGTTCTTTCCTGTCCCTTGGTTCATTTGAGTTTTTTGTCATTTGTCTTACATTTGTAAATCAGGCAGCAAAGAAGGGGTGTTATAGTTGATTGTCATTGTTG-AATATATCTTCTTTTGTCATTTGATTGAAA</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-C06HBa0062H07-OjMts/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U332545" ref_strand="+" ref_description="SGN-U332545        Tomato 200607 #1 [2 ESTs aligned] arabidopsis/peptide: AT3G16850.1 | Symbol: None | glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein, weak similarity to SP:P05117 Polygalacturonase 2A precursor (EC 3.2.1.15)  (Pectinase) {Lycopersicon esculentum}; contains PF00295: Glycosyl hydrolases family 28 | chr3:5748580-5751303 FORWARD | Aliases: K20I9.8 (evalue: 5e-33, score=137) genbank/nr: gi|15228881|ref|NP_188308.1| polygalacturonase, putative [Arabidopsis thaliana] gi|14334802|gb|AAK59579.1| putative polygalacturonase [Arabidopsis thaliana] gi|21280835|gb|AAM44924.1| putative polygalacturonase [Arabidopsis thaliana](evalue: 3e-31, score=137)">
      <seq>ttcctctccatctctctcttctttctctcttcactctacagtgtaaaatctcataagaagaagaggattgattgtctacatttctgaagacaagagaacagattcatgaagggtctagtaagcagtgctaattttgttgttggtgttaagtcatattattgtacatactgatgctcaatttgacggagaatgcaaattcaacaagcctctggaacccagacctcacagtgcgtcagtgttggactttggggctgtcggtgatggggagactctaaatactctggctttccagaatgccattttctatctcaagtcctttgctgacaaaggtggagcacagctctatgttccagctggaaggtggctgaccggaagcataaagcttaccagtcacctcacactcttccttgaaaaagaagccattattctgggatcaaaggttagcccctggactggttctgaagttccagcttgtttagattttttctgtgttcatggaaatatgaaggctgttgttgtatttacaattgccgaattaattcttgaaaaataaatgattagcatgaggcactcaagggtgtcgactagtggttaatgaggtgagtcgaaaaccatgaggtctcaagttcaaatcctactggaggcaaaaatactaagtaggtgatttctttccatctttccaagcattggtgcacagaattaccaggtgcatgtgttggaggggagtacaagtaccccgtgga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C06HBa0062H07-OjMts/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C06HBa0062H07.1" temp_strand="-" temp_description="C06HBa0062H07.1  AC219209.1 htgs_phase:1 submitted_to_sgn_as:C06HBa0062H07 sequenced_by:cbsg upload_account_name:netherlands [organism=Solanum lycopersicum]">
        <position start="91532" stop="88764"/>
      </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="91232" g_stop="91112" g_length="121"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="121" r_length="121" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="91111" i_stop="89687" i_length="1425">
            <donor d_prob="0.938" d_score="1.00"/>
            <acceptor a_prob="0.478" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="89686" g_stop="89064" g_length="623"/>
          <reference_exon_boundary r_type="cDNA" r_start="122" r_stop="743" r_length="622" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C06HBa0062H07.1" gen_strand="-" ref_id="SGN-U332545" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>744</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C06HBa0062H07.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U332545" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="91232" e_stop="91112"/>
          <exon e_start="89686" e_stop="89064"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCCTCTCCATCTCTCTCTTCTTTCTCTCTTCACTCTACAGTGTAAAATCTCATAAGAAGAAGAGGATTGATTGTCTACATTTCTGAAGACAAGAGAACAGATTCATGAAGGGTCTAGTAAGTACGTTTTTTTTTAGGGTTTTTACAAGTTCAATTTTTTCAATTTTAATTACACGAGCAGCATCTGTTATTTCCAAGAAACTGAGTATGAATCTTTATTTGTTGTTGCTAATCGAGTTTTTAGTGTGCTTTTAGTTATGGGTATTCAATTTTATTGCAAAATTTGTGCTAAAAATCGAGTTTTGAAGTTGCTTTCTGTACTGTACTTTCAATGGAGTTCTCTTCATCTTTGTGAAATTTGCTTATTTCTGTGTACTTTAATTGATTGTTATGACTACTTCTTTAGAGATTTACTCGATCTGGAAACTGAAATCTTATGATTTGGTCTACATTGTTTTTTTTCAGGAGAATAAGTAGGACAAATTTCTAGATTTTAGGATCATTTTTTTGCAATCCAAAACTTCGATACATTTTTTGTTCCTAGAATGAACTTGTTATGCAAGTGGGGATGCTTATATTTTTGTGTCTTTTTTGCTCATAAATATTGATAGAGGGATCTAAACTGGGTTGAGAACCCTGAGGTGTCAGGCTCGGAGACAAAAACACCAGTTGAAAGTAACAGGTGTCTCGTGAAATTAGTTAAGGTGTGCGATAACTGGTTATATAAAAAAGAGAAAAAAAGAAGGAAGAGGGATCTGATGTGAAGCTGCAGCTGGTATACAATTGGTTACTTCCAGTGCTTTGAATTACTCAAAGCTTGTGAATTTATGTGCACACACCTGATTTGTACTCTCTTTGTTTTTCTTTTTTCTGTTCTCATTATTATCTTTATCATTTGTACTCCCTTTTTTAAACTTACATTCATGAGACTTGCCATAGTTTTGTGTTTTTGCTTCAGTTAAAAGCTCAGTTACTTATTGCTACTAGGTTTCTTTTTTCTGAAAATGAAAAAAAAAGAAGAGGTTATCTAGTTGAGCTCTTTCTACTGGTTTTGTCTTAATCCTTTTCTGACATTTTCAATTATTGGAGCTCTTCTGTATCTCACTTGGTTTTTTCCGAATCTAGTCGTTATAGAATGTCGACAAAGTACTGTTTCAACTATAACTTTGGCTTAAGTGTGCAAGGACGTGGTTTAACTTTTTTAGATTTTTGTCTTCCGTAAGCATCTGCATACAACAAAAATTATGTCATAGGAAAAAAAACCAAAAAGACCCGGACTCTCTTTTTTCTTATTCTTTAATAGTGGAGAAATGCTAGATTTGAAGAACTTTTGTATAATGTTGGAGGACATGGAACCACTGATGATATTGTATTGGTAGCTTTTTAACCGACAGTGCTATGCATTTCTCTTCATGTGAGTCTCTTGCTTGCATATATACTATTGATTATTGATGGTATTGACTTACAAGATACAAATGGTTAAGCAGTAGAAAGTGCATGGTATTGAAAGACTTACCATTTCCTTTTTTGCATTTATCTTTTCCAGGCAGTGCTAATTTTGTTGTTGGTGTTAAGTCATATTATTGTACATACTGATGCTCAATTTGACGGAGAATGCAAATTCAACAAGCCTCTGGAACCCAGACCTCACAGTGCGTCAGTGTTGGACTTTGGGGCTGTCGGTGATGGGGAGACTCTAAATACTCTGGCTTTCCAGAATGCCATTTTCTATCTCAAGTCCTTTGCTGACAAAGGTGGAGCACAGCTCTATGTTCCAGCTGGAAGGTGGCTGACCGGAAGCATAAAGCTTACCAGTCACCTCACACTCTTCCTTGAAAAAGAAGCCATTATTCTGGGATCAAAGGTTAGCCCCTGGACTGGTTCTGAAGTTCCAGCTTGTTTAGATTTTTTCTGTGTTCATGGAAATATGAAGGCTGTTGTTGTATTTACAATTGCCGAATTAATTCTTGAAAAATAAATGATTAGCATGAGGCACTCAAGGGTGTCGACTAGTGGTTAATGAGGTGAGTCGAAAACCATGAGGTCTCAAGTTCAAATCCTACTGGAGGCAAAAATACTAAGTAGGTGATTTCTTTCCATCTTTCCAAGCATTGGTGCACAGAATTACCAGGTGCATGTGTTGGAGGGAGGTAACAAGTACCCCGTGGA</genome_strand>
        <mrna_strand>TTCCTCTCCATCTCTCTCTTCTTTCTCTCTTCACTCTACAGTGTAAAATCTCATAAGAAGAAGAGGATTGATTGTCTACATTTCTGAAGACAAGAGAACAGATTCATGAAGGGTCTAGTAA.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAGTGCTAATTTTGTTGTTGGTGTTAAGTCATATTATTGTACATACTGATGCTCAATTTGACGGAGAATGCAAATTCAACAAGCCTCTGGAACCCAGACCTCACAGTGCGTCAGTGTTGGACTTTGGGGCTGTCGGTGATGGGGAGACTCTAAATACTCTGGCTTTCCAGAATGCCATTTTCTATCTCAAGTCCTTTGCTGACAAAGGTGGAGCACAGCTCTATGTTCCAGCTGGAAGGTGGCTGACCGGAAGCATAAAGCTTACCAGTCACCTCACACTCTTCCTTGAAAAAGAAGCCATTATTCTGGGATCAAAGGTTAGCCCCTGGACTGGTTCTGAAGTTCCAGCTTGTTTAGATTTTTTCTGTGTTCATGGAAATATGAAGGCTGTTGTTGTATTTACAATTGCCGAATTAATTCTTGAAAAATAAATGATTAGCATGAGGCACTCAAGGGTGTCGACTAGTGGTTAATGAGGTGAGTCGAAAACCATGAGGTCTCAAGTTCAAATCCTACTGGAGGCAAAAATACTAAGTAGGTGATTTCTTTCCATCTTTCCAAGCATTGGTGCACAGAATTACCAGGTGCATGTGTTGGAGGGGAGT-ACAAGTACCCCGTGGA</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-C06HBa0062H07-OjMts/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U335079" ref_strand="+" ref_description="SGN-U335079        Tomato 200607 #1 [1 ESTs aligned]">
      <seq>actgaatagatatcatcgcccaactcaaaatagaaatcaatatatatcaagnattatcataaaatcaactatgatactcaacatgtagcaacaacaagcactatatcattaacaattaccgtcacgttcacacatgaggactcaagcctcaataccatactcatttgggaatcatgttcattagatttagtatattaacatctttcaagattcattatctttatttctcttgtgacggaacatgacattccgctccctcatattcattaatcctcttgtgtgaacacatgacactccgatcccctaaatctacatgacagtttcatgaacgctatcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C06HBa0062H07-OjMts/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C06HBa0062H07.1" temp_strand="-" temp_description="C06HBa0062H07.1  AC219209.1 htgs_phase:1 submitted_to_sgn_as:C06HBa0062H07 sequenced_by:cbsg upload_account_name:netherlands [organism=Solanum lycopersicum]">
        <position start="108972" stop="107896"/>
      </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="108672" g_stop="108336" g_length="337"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="337" r_length="337" r_score="0.908"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C06HBa0062H07.1" gen_strand="-" ref_id="SGN-U335079" ref_strand="+">
        <total_alignment_score>0.908</total_alignment_score>
        <cumulative_length_of_scored_exons>337</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C06HBa0062H07.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U335079" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="108672" e_stop="108336"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTGAGTAGATATCATCGGCCAACTCAAAATAGAAATCAATATATACCAAGTAATATCATAAAATCAACTATGATACTTAACATGTAGCAACAGCAAGTACTATATCATTAACAATTACCGTCAAGTGCATACATGAGGACTCAAGCCTCAATACCATACTCATTTGGGAATTATGTTCATTAGATTGAGTATATTAACATCTTTCAAGATTCATTATCTTTATTTCTCTTGTGTCGGTACGTGACACTCCGCTCCCTCATATTCATTAATCCTCTTGTGTCGGTACGTGACACTCCGATCCCCTAAATCTACGTGTCAGTTTGTGACACTCGATCC</genome_strand>
        <mrna_strand>ACTGAATAGATATCATCGCCCAACTCAAAATAGAAATCAATATATATCAAGNATTATCATAAAATCAACTATGATACTCAACATGTAGCAACAACAAGCACTATATCATTAACAATTACCGTCACGTTCACACATGAGGACTCAAGCCTCAATACCATACTCATTTGGGAATCATGTTCATTAGATTTAGTATATTAACATCTTTCAAGATTCATTATCTTTATTTCTCTTGTGACGGAACATGACATTCCGCTCCCTCATATTCATTAATCCTCTTGTGTGAACACATGACACTCCGATCCCCTAAATCTACATGACAGTTTCATGAACGCTATCC</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-C06HBa0062H07-OjMts/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U324057" ref_strand="+" ref_description="SGN-U324057        Tomato 200607 #1 [4 ESTs aligned]">
      <seq>gcagagatattgtcaatgacacatcattagcttcatgttgtaactttcttcctttattgcttttttactttgcttgctgaaaatctcttctatgtttttaccattcatcccaggtaaggctccttcaatttttttctttgatttctctaatgttttatttttccctaaactttgatagttgttttttccttcttctagctgtaatcgttattctctatttattccctcttcttcgccactcctccggcaacgaaaaccagctgctccggctacaactctggcgaagaatcccacaacggtcaacgctcgccgaagtccgttctacggtgtgcttcaacttcatttgatgaatctcagaataacgaggaagcttaagctgagtcattattgattttaccatccgatatcagggacaaaaatgacatttccatgtcggagaacttctgcgatttaccacagttcgagagtttcttcccaaatgatttgtttcagttcgagaacctagcccgtaaaggacttctttcaggatttcgaagatgtattcgagtctaacccgcttgtggctctttgatttcatcggcagattaatcggcgataagtataaatggtttaatattcgtaattttaaaatttaattttgtgtttagtttaccagttttgtttaaatttgttgattaatgtgagtgattagtgagtaattagtaattagtagtattaatatgtaacagctccgtcacattaacggtaatgctgatggatgagattttgcggtacagtgttgttttggtgttttgtgcttcgttaataacaataaacgactttagcaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C06HBa0062H07-OjMts/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C06HBa0062H07.1" temp_strand="-" temp_description="C06HBa0062H07.1  AC219209.1 htgs_phase:1 submitted_to_sgn_as:C06HBa0062H07 sequenced_by:cbsg upload_account_name:netherlands [organism=Solanum lycopersicum]">
        <position start="110469" stop="109046"/>
      </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="110169" g_stop="109340" g_length="830"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="840" r_length="840" r_score="0.934"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C06HBa0062H07.1" gen_strand="-" ref_id="SGN-U324057" ref_strand="+">
        <total_alignment_score>0.934</total_alignment_score>
        <cumulative_length_of_scored_exons>830</cumulative_length_of_scored_exons>
        <coverage percentage="0.988" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C06HBa0062H07.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U324057" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="110169" e_stop="109340"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCAGAGATATTCTCAGTGACACATCATTAGCTTCATCTTTCAACTTTCTTCCTTTATTGC-TTTTTACTTTGGTTGCTGAAAATCTCTTCTATGTTTTTCCCATTCATCCCAGGTAAGGCTCCTTCAAATTTTTTCTTTGATTTCTCTAATGTTTTA-TTTTCCCTAAACTTTGATGGTTG-TTTTTCCTTCTTCTAGCTGTAATCGTTATTCTCTATTTGTTCCCTCTTCTTCGCCACTCCTCCGGCGACGAAAACCAGCTGCTCCGGCTACAACTCTGGCGAAGAATCCCAAAACGGTCAACGCTCGCCGAAGTCCGTTCTACGGTGTGCTTCAACTTCATTTGATGAATCTCAGAATAACGAGGAAGCTTAAGCTAAGTCATTATCGATTTTACCCTCCGATATCAGGGACAATAATGACATTTCCATGTCGAAGAACTTCTGCGATTTACCACCGTTCAAGAGTTTCTTCCCAAATAATTTGTTTCAGTTCGAGAACCCGGCCCGTAAAGGACTTCTTTCAGGATTTCGGAGATGTATTCGGGTCTAACCCGCTTTTGGCTCTTTGATTTCATCGGCAGATTAATCGGCGATAAGTATAAATGGTTTAATATTCGTAATTTTAAAATTTAATTTTGTGTTTAGTTTACCAGTTTTGTTTAAATTTGTTGATTAATGTGAGTGATTAGT--G-----AGTAATTAGTAGTATTAATATGTAACAGCTCCGTCACATTAACGGTGATGCTGATGGATGAGATTTTGCGGTACAGTGTTGTTTTGGTGTTTTGTGCTTCGTTAATAACAATAAACGACTTTAGCAATTATTAATTATTC</genome_strand>
        <mrna_strand>GCAGAGATATTGTCAATGACACATCATTAGCTTCATGTTGTAACTTTCTTCCTTTATTGCTTTTTTACTTTGCTTGCTGAAAATCTCTTCTATGTTTTTACCATTCATCCCAGGTAAGGCTCCTTCAATTTTTTTCTTTGATTTCTCTAATGTTTTATTTTTCCCTAAACTTTGATAGTTGTTTTTTCCTTCTTCTAGCTGTAATCGTTATTCTCTATTTATTCCCTCTTCTTCGCCACTCCTCCGGCAACGAAAACCAGCTGCTCCGGCTACAACTCTGGCGAAGAATCCCACAACGGTCAACGCTCGCCGAAGTCCGTTCTACGGTGTGCTTCAACTTCATTTGATGAATCTCAGAATAACGAGGAAGCTTAAGCTGAGTCATTATTGATTTTACCATCCGATATCAGGGACAAAAATGACATTTCCATGTCGGAGAACTTCTGCGATTTACCACAGTTCGAGAGTTTCTTCCCAAATGATTTGTTTCAGTTCGAGAACCTAGCCCGTAAAGGACTTCTTTCAGGATTTCGAAGATGTATTCGAGTCTAACCCGCTTGTGGCTCTTTGATTTCATCGGCAGATTAATCGGCGATAAGTATAAATGGTTTAATATTCGTAATTTTAAAATTTAATTTTGTGTTTAGTTTACCAGTTTTGTTTAAATTTGTTGATTAATGTGAGTGATTAGTGAGTAATTAGTAATTAGTAGTATTAATATGTAACAGCTCCGTCACATTAACGGTAATGCTGATGGATGAGATTTTGCGGTACAGTGTTGTTTTGGTGTTTTGTGCTTCGTTAATAACAATAAACGACTTTAGCAAAAAAAAAAAAAAA</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-C06HBa0062H07-OjMts/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U344877" ref_strand="+" ref_description="SGN-U344877        Tomato 200607 #1 [1 ESTs aligned] arabidopsis/peptide: AT4G23160.1 | Symbol: None | protein kinase family protein, contains Pfam domain PF00069: Protein kinase domain | chr4:12129496-12134198 FORWARD | Aliases: F21P8.50, F21P8_50 (evalue: 2e-36, score=149) genbank/nr: retrotransposon(evalue: 5e-50, score=201)">
      <seq>gtttggttgctaaaggctacaatcaggagtatgggcttgattactccgagacattcagtcctgttattcggcaggaaaccattcgcctggtactgtcactcgccgtgcgcaacaattggctcatcaatcagttggatgtttccaatgcttttcttcatggcatgcttgatgaaacaatctacatgacgcaaccaccgggctatgttgatcctcgcttccctcaacatgtttgcaaactccagaagtctctgtatgggctcaagcaagccccccgtgcttggtacgcacgtctgaaaacgtt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C06HBa0062H07-OjMts/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C06HBa0062H07.1" temp_strand="-" temp_description="C06HBa0062H07.1  AC219209.1 htgs_phase:1 submitted_to_sgn_as:C06HBa0062H07 sequenced_by:cbsg upload_account_name:netherlands [organism=Solanum lycopersicum]">
        <position start="113454" stop="112553"/>
      </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="113154" g_stop="112853" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="301" r_length="301" r_score="0.957"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C06HBa0062H07.1" gen_strand="-" ref_id="SGN-U344877" ref_strand="+">
        <total_alignment_score>0.957</total_alignment_score>
        <cumulative_length_of_scored_exons>302</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C06HBa0062H07.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U344877" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="113154" e_stop="112853"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTTGGTTGTTAAAGGCTTCAATCAGGAGTATGGGCTTGATTACTCCGAGACATTCAGTCCTGTTATTCGGCAGGAAACCATTTGCCTGGTATTGTCACTCGTCGTGCGCAACAATTGGCTCATCAATCAGTTGGATGTTTCCAATGCTTTTCTTCATGGCATGCTTGATGAAACTATCTACATGACGCAACCACCGGGCTATGTTGATCCCCGCTTCCCTCAACATGTTTGCAAACTCCAGAAGTCTCTGTATGGGCTCAAGCAAGCCCCCCCGTGTTTGTTACACACGTCTGAAAATATT</genome_strand>
        <mrna_strand>GTTTGGTTGCTAAAGGCTACAATCAGGAGTATGGGCTTGATTACTCCGAGACATTCAGTCCTGTTATTCGGCAGGAAACCATTCGCCTGGTACTGTCACTCGCCGTGCGCAACAATTGGCTCATCAATCAGTTGGATGTTTCCAATGCTTTTCTTCATGGCATGCTTGATGAAACAATCTACATGACGCAACCACCGGGCTATGTTGATCCTCGCTTCCCTCAACATGTTTGCAAACTCCAGAAGTCTCTGTATGGGCTCAAGCAAG-CCCCCCGTGCTTGGTACGCACGTCTGAAAACGTT</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-C06HBa0062H07-OjMts/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U346798" ref_strand="+" ref_description="SGN-U346798        Tomato 200607 #1 [1 ESTs aligned] arabidopsis/peptide: AT4G23160.1 | Symbol: None | protein kinase family protein, contains Pfam domain PF00069: Protein kinase domain | chr4:12129496-12134198 FORWARD | Aliases: F21P8.50, F21P8_50 (evalue: 1e-36, score=149) genbank/nr: gi|37530894|ref|NP_919749.1| putative gag-pol polyprotein [Oryza sativa (japonica cultivar-group)] gi|18642681|gb|AAK02020.2| Putative gag-pol polyprotein [Oryza sativa] gi|31430072|gb|AAP52036.1| putative gag-pol polyprotein [Oryza sativa (japonica cultivar-group)](evalue: 3e-43, score=178)">
      <seq>tcatccacaatacacacgcaaccaccacccacacgcacaagcaacccgaaccaccccatacccacaacatctccaacccgatccgttttgggtccttaccggccacccccgaatcaccaccgcccgtgccaccccccaatactcatcccatgttaacccgtggcaaagccggtatctttaaacccaaaacctttcaggctaccatactaccaaatacaccccttcccgatagtgaaccaacaacctactctgttgcctcaaaaaatgcttattggcgtcatgctatggatgacgagtttaaggctttgactgatcaggaaacttgggttcttgtacctaagccccatgggcggcacccagtgggctgtaaatgggtgtacaaaattaaacacaatgcggatggcagtatttccaggtacaaggctcgtttggttgctaaaggctacaatcaggagtatggtcttgattactccgagacattcagtc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C06HBa0062H07-OjMts/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C06HBa0062H07.1" temp_strand="-" temp_description="C06HBa0062H07.1  AC219209.1 htgs_phase:1 submitted_to_sgn_as:C06HBa0062H07 sequenced_by:cbsg upload_account_name:netherlands [organism=Solanum lycopersicum]">
        <position start="113880" stop="112795"/>
      </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="113580" g_stop="113095" g_length="486"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="486" r_length="486" r_score="0.949"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C06HBa0062H07.1" gen_strand="-" ref_id="SGN-U346798" ref_strand="+">
        <total_alignment_score>0.949</total_alignment_score>
        <cumulative_length_of_scored_exons>486</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C06HBa0062H07.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U346798" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="113580" e_stop="113095"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCACCCACAATACACCCACAACCACCACCCACACTCACAGCCAACCCGAACCACCCCACACTCATAACATCTCCAGCCCGATCCGTTTTGAGTCCTTCCCGGCCACCCCTGAATCACCACCACCCGTGACACCCCCCACTACTCATCCCATGTTAACCCGTGGCAAAGCCGGTATCTTTAAACCCAAAACCTTTCAGGCTACCATACTACCAAATACACCCCTTCCCGTTAGTGAACCAACAACCTACTCTGTTGCCTCAAAAAATGCTTATTGGCGTCATGCTATGGATGACGATTTTAAGGCTTTGACTGATCAGAAAACTTGGGTTCTTGTACCTAAGCCCCATGGGCGGCACCTAGTGGGCTGTAAATGGGTGTACAAAATTAAACACAATGCAGATGGCAGTATTTCTAGGTACAAGGCTCGTTTGGTTGTTAAAGGCTTCAATCAGGAGTATGGGCTTGATTACTCCGAGACATTCAGTC</genome_strand>
        <mrna_strand>TCATCCACAATACACACGCAACCACCACCCACACGCACAAGCAACCCGAACCACCCCATACCCACAACATCTCCAACCCGATCCGTTTTGGGTCCTTACCGGCCACCCCCGAATCACCACCGCCCGTGCCACCCCCCAATACTCATCCCATGTTAACCCGTGGCAAAGCCGGTATCTTTAAACCCAAAACCTTTCAGGCTACCATACTACCAAATACACCCCTTCCCGATAGTGAACCAACAACCTACTCTGTTGCCTCAAAAAATGCTTATTGGCGTCATGCTATGGATGACGAGTTTAAGGCTTTGACTGATCAGGAAACTTGGGTTCTTGTACCTAAGCCCCATGGGCGGCACCCAGTGGGCTGTAAATGGGTGTACAAAATTAAACACAATGCGGATGGCAGTATTTCCAGGTACAAGGCTCGTTTGGTTGCTAAAGGCTACAATCAGGAGTATGGTCTTGATTACTCCGAGACATTCAGTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>8</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="52982" PGL_stop="53374"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="52982" e_stop="53374"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <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="52982" e_stop="53374" e_length="393"/>
          </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="52982" stop="53374"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U346994" 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>TCAACACGAAGCTTGTGCAGTGGATTAAAATGTTACTGGAAGAGGAGGAGGAGAAGAGGAGGGTATGAGAGGCTAAATGGGTCGGGTTGTATGAGGATGAATCGGGTCGGTTTGGGGAAACGAAGGTTCTGGAAGATAAATCTAAAGCGGAGAGTGAAGTTGAGTCGGAATTATTTGAAATTTTGGCCGAAGAAATTCGTAATGAATGTGCGGGATGCGTATGTGAATATGATGATGAAGATTGCTAATTCCAAGTGTATGAGTAGTGGGGTTGGTGGTGGATTCGGTACGAGGCAGTTGAAAGAGTATGATGAGAAGGTGCTCGTACAGATTTACAAGTCCATGATTATTGCGCAGGGACAGTTAATTGGTGATGGTGATGTAAAATTTGGC</gDNA_template>
            <first_frame> S  T  R  S  L  C  S  G  L  K  C  Y  W  K  R  R  R  R  R  G  G  Y  E  R  L  N  G  S  G  C  M  R  M  N  R  V  G  L  G  K  R  R  F  W  K  I  N  L  K  R  R  V  K  L  S  R  N  Y  L  K  F  W  P  K  K  F  V  M  N  V  R  D  A  Y  V  N  M  M  M  K  I  A  N  S  K  C  M  S  S  G  V  G  G  G  F  G  T  R  Q  L  K  E  Y  D  E  K  V  L  V  Q  I  Y  K  S  M  I  I  A  Q  G  Q  L  I  G  D  G  D  V  K  F  G </first_frame>
            <second_frame>  Q  H  E  A  C  A  V  D  *  N  V  T  G  R  G  G  G  E  E  E  G  M  R  G  *  M  G  R  V  V  *  G  *  I  G  S  V  W  G  N  E  G  S  G  R  *  I  *  S  G  E  *  S  *  V  G  I  I  *  N  F  G  R  R  N  S  *  *  M  C  G  M  R  M  *  I  *  *  *  R  L  L  I  P  S  V  *  V  V  G  L  V  V  D  S  V  R  G  S  *  K  S  M  M  R  R  C  S  Y  R  F  T  S  P  *  L  L  R  R  D  S  *  L  V  M  V  M  *  N  L   </second_frame>
            <third_frame>   N  T  K  L  V  Q  W  I  K  M  L  L  E  E  E  E  E  K  R  R  V  *  E  A  K  W  V  G  L  Y  E  D  E  S  G  R  F  G  E  T  K  V  L  E  D  K  S  K  A  E  S  E  V  E  S  E  L  F  E  I  L  A  E  E  I  R  N  E  C  A  G  C  V  C  E  Y  D  D  E  D  C  *  F  Q  V  Y  E  *  W  G  W  W  W  I  R  Y  E  A  V  E  R  V  *  *  E  G  A  R  T  D  L  Q  V  H  D  Y  C  A  G  T  V  N  W  *  W  *  C  K  I  W  </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="C06HBa0062H07.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="52982" stop="53374"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>393</number_coding_nucleotides>
                  <number_encoded_amino_acids>131</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>STRSLCSGLKCYWKRRRRRGGYERLNGSGCMRMNRVGLGKRRFWKINLKRRVKLSRNYLKFWPKKFVMNVRDAYVNMMMKIANSKCMSSGVGGGFGTRQLKEYDEKVLVQIYKSMIIAQGQLIGDGDVKFG</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="2" PGL_strand="+" PGL_start="65311" PGL_stop="66143"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="65311" e_stop="65372"/>
            <exon e_start="65488" e_stop="65604"/>
            <exon e_start="65696" e_stop="65777"/>
            <exon e_start="65884" e_stop="65979"/>
            <exon e_start="66070" e_stop="66143"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.987" acc_prob="0.996" e_score="1.000"/>
          <exon-intron don_prob="0.810" acc_prob="0.643" e_score="1.000"/>
          <exon-intron don_prob="0.287" acc_prob="0.919" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.973" 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="65311" e_stop="65372" e_length="62"/>
          </exon>
          <intron i_serial="1" don_prob="0.987" acc_prob="0.996">
            <gDNA_intron_boundary i_start="65373" i_stop="65487" i_length="115"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="65488" e_stop="65604" e_length="117"/>
          </exon>
          <intron i_serial="2" don_prob="0.810" acc_prob="0.643">
            <gDNA_intron_boundary i_start="65605" i_stop="65695" i_length="91"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="65696" e_stop="65777" e_length="82"/>
          </exon>
          <intron i_serial="3" don_prob="0.287" acc_prob="0.919">
            <gDNA_intron_boundary i_start="65778" i_stop="65883" i_length="106"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="65884" e_stop="65979" e_length="96"/>
          </exon>
          <intron i_serial="4" don_prob="0.999" acc_prob="0.973">
            <gDNA_intron_boundary i_start="65980" i_stop="66069" i_length="90"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="66070" e_stop="66143" e_length="74"/>
          </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="65311" stop="65372"/>
              <exon start="65488" stop="65604"/>
              <exon start="65696" stop="65777"/>
              <exon start="65884" stop="65979"/>
              <exon start="66070" stop="66143"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U341204" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="2" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>AGGACTCAGCAGTTTCCTGTGGGAACAAGTTCGTTCAGAAACATTCTTCAGCCAGCACAAAG : GCTGACCAAAGAACTGTAACACTGATGAAAGAAGAGAATCGCATCGTCAGTGAGGAACTTCAAAGAAGGTACATGATGCAGAACACATTTGTTGACCAACAGCAACAAGACATCAAG : GACCTGAAGCAAACTCTTTTGACTACAAAAGCGGGTATGCAGTTCATGCAAATGAAGTTTCATGAGGAAATGCAAAATATTG : GCATCCACATACATGGCCTAGCACACGCAGCTTCTGGTTATCATAGAGTTCTTGAAGAAAATCGCAGGCTTTACAATCAAGTGCAAGACCTTAAAG : GAAGCATAAGGGTTTATTGTCGAGTAAGACCCTTTTTGCCTGGGCAATCAAGTTATATCAGTAATGTCGATCAT</gDNA_template>
            <first_frame> R  T  Q  Q  F  P  V  G  T  S  S  F  R  N  I  L  Q  P  A  Q  R :   L  T  K  E  L  *  H  *  *  K  K  R  I  A  S  S  V  R  N  F  K  E  G  T  *  C  R  T  H  L  L  T  N  S  N  K  T  S  R :   T  *  S  K  L  F  *  L  Q  K  R  V  C  S  S  C  K  *  S  F  M  R  K  C  K  I  L  :  A  S  T  Y  M  A  *  H  T  Q  L  L  V  I  I  E  F  L  K  K  I  A  G  F  T  I  K  C  K  T  L  K  :  E  A  *  G  F  I  V  E  *  D  P  F  C  L  G  N  Q  V  I  S  V  M  S  I   </first_frame>
            <second_frame>  G  L  S  S  F  L  W  E  Q  V  R  S  E  T  F  F  S  Q  H  K   : G  *  P  K  N  C  N  T  D  E  R  R  E  S  H  R  Q  *  G  T  S  K  K  V  H  D  A  E  H  I  C  *  P  T  A  T  R  H  Q   : G  P  E  A  N  S  F  D  Y  K  S  G  Y  A  V  H  A  N  E  V  S  *  G  N  A  K  Y  W :   H  P  H  T  W  P  S  T  R  S  F  W  L  S  *  S  S  *  R  K  S  Q  A  L  Q  S  S  A  R  P  *  R :   K  H  K  G  L  L  S  S  K  T  L  F  A  W  A  I  K  L  Y  Q  *  C  R  S  </second_frame>
            <third_frame>   D  S  A  V  S  C  G  N  K  F  V  Q  K  H  S  S  A  S  T  K  :  A  D  Q  R  T  V  T  L  M  K  E  E  N  R  I  V  S  E  E  L  Q  R  R  Y  M  M  Q  N  T  F  V  D  Q  Q  Q  Q  D  I  K  :  D  L  K  Q  T  L  L  T  T  K  A  G  M  Q  F  M  Q  M  K  F  H  E  E  M  Q  N  I   : G  I  H  I  H  G  L  A  H  A  A  S  G  Y  H  R  V  L  E  E  N  R  R  L  Y  N  Q  V  Q  D  L  K   : G  S  I  R  V  Y  C  R  V  R  P  F  L  P  G  Q  S  S  Y  I  S  N  V  D  H </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="C06HBa0062H07.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="65313" stop="65372"/>
                    <exon start="65488" stop="65604"/>
                    <exon start="65696" stop="65777"/>
                    <exon start="65884" stop="65979"/>
                    <exon start="66070" stop="66143"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>429</number_coding_nucleotides>
                  <number_encoded_amino_acids>143</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>DSAVSCGNKFVQKHSSASTKADQRTVTLMKEENRIVSEELQRRYMMQNTFVDQQQQDIKDLKQTLLTTKAGMQFMQMKFHEEMQNIGIHIHGLAHAASGYHRVLEENRRLYNQVQDLKGSIRVYCRVRPFLPGQSSYISNVDH</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="3" PGL_strand="-" PGL_start="87459" PGL_stop="86677"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="87459" e_stop="86677"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.997"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.997">
            <gDNA_exon_boundary e_start="87459" e_stop="86677" e_length="783"/>
          </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="87459" stop="86677"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U343789" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="3" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>AGAGGTGGTTATATCAAAGATATTCTTGTTACGGATGTGGTTATGGCAAATGTGCAAGTGGGAATTGAGGCCACAGGTCATTATGATTCTCATCCAGACGAGAAATTTGATCCGTCTGCACTTCCAGTTGTTAGTGGTATCACCTTTGAGGACATTGTTGGCACAAATGTTTCTATAGCAGGCAATTTCACTGGATTATCAGAATCTCCCTTTACTTCAATATGTCTGTCAAACATCACTTTTTCCATATCTTACAACCCTTTTACATCATGGCTATGCTCTGATGTATCCGGTTTTTCTCAAAATGTGTCTCCTGAACCATGTCCTGAGCTTGAGAGCTCATTTTCTAGTACTACTTCAACTTGCTTCACCCTCTTACACCACCCTTACAGTCAAGTTGCAGTTTTGTAAGTGAAACAATTCGTTTCATTAAAATTATACGAGACACATTTCAACTTCCAGTGCTGGTGTACATTCTCCAATAAGATGCAATGCAGAATCTACGGTTTCGTGCTTATGCAAGTATCAAGAATTCGACGATACAACATTTTCGAAGTGGCCTGAGATCGCTGATTGTCTCCTGTGTACAGCATCAGTTTCTTCATTCACATATAGGAAAAGTTTTGGTAGTGCAGCAAATTCAGATGAGTTGTTCTTTCCTGTCCCTTGGTTCATTTGAGTTTTTTGTCATTTGTCTTACATTTGTAAATCAGGCAGCAAAGAAGGGGTGTTATAGTTGATTGTCATTGTTGAAATATATCTTCTTTTGTCATTTGATTGAAT</gDNA_template>
            <first_frame> R  G  G  Y  I  K  D  I  L  V  T  D  V  V  M  A  N  V  Q  V  G  I  E  A  T  G  H  Y  D  S  H  P  D  E  K  F  D  P  S  A  L  P  V  V  S  G  I  T  F  E  D  I  V  G  T  N  V  S  I  A  G  N  F  T  G  L  S  E  S  P  F  T  S  I  C  L  S  N  I  T  F  S  I  S  Y  N  P  F  T  S  W  L  C  S  D  V  S  G  F  S  Q  N  V  S  P  E  P  C  P  E  L  E  S  S  F  S  S  T  T  S  T  C  F  T  L  L  H  H  P  Y  S  Q  V  A  V  L  *  V  K  Q  F  V  S  L  K  L  Y  E  T  H  F  N  F  Q  C  W  C  T  F  S  N  K  M  Q  C  R  I  Y  G  F  V  L  M  Q  V  S  R  I  R  R  Y  N  I  F  E  V  A  *  D  R  *  L  S  P  V  Y  S  I  S  F  F  I  H  I  *  E  K  F  W  *  C  S  K  F  R  *  V  V  L  S  C  P  L  V  H  L  S  F  L  S  F  V  L  H  L  *  I  R  Q  Q  R  R  G  V  I  V  D  C  H  C  *  N  I  S  S  F  V  I  *  L  N </first_frame>
            <second_frame>  E  V  V  I  S  K  I  F  L  L  R  M  W  L  W  Q  M  C  K  W  E  L  R  P  Q  V  I  M  I  L  I  Q  T  R  N  L  I  R  L  H  F  Q  L  L  V  V  S  P  L  R  T  L  L  A  Q  M  F  L  *  Q  A  I  S  L  D  Y  Q  N  L  P  L  L  Q  Y  V  C  Q  T  S  L  F  P  Y  L  T  T  L  L  H  H  G  Y  A  L  M  Y  P  V  F  L  K  M  C  L  L  N  H  V  L  S  L  R  A  H  F  L  V  L  L  Q  L  A  S  P  S  Y  T  T  L  T  V  K  L  Q  F  C  K  *  N  N  S  F  H  *  N  Y  T  R  H  I  S  T  S  S  A  G  V  H  S  P  I  R  C  N  A  E  S  T  V  S  C  L  C  K  Y  Q  E  F  D  D  T  T  F  S  K  W  P  E  I  A  D  C  L  L  C  T  A  S  V  S  S  F  T  Y  R  K  S  F  G  S  A  A  N  S  D  E  L  F  F  P  V  P  W  F  I  *  V  F  C  H  L  S  Y  I  C  K  S  G  S  K  E  G  V  L  *  L  I  V  I  V  E  I  Y  L  L  L  S  F  D  *   </second_frame>
            <third_frame>   R  W  L  Y  Q  R  Y  S  C  Y  G  C  G  Y  G  K  C  A  S  G  N  *  G  H  R  S  L  *  F  S  S  R  R  E  I  *  S  V  C  T  S  S  C  *  W  Y  H  L  *  G  H  C  W  H  K  C  F  Y  S  R  Q  F  H  W  I  I  R  I  S  L  Y  F  N  M  S  V  K  H  H  F  F  H  I  L  Q  P  F  Y  I  M  A  M  L  *  C  I  R  F  F  S  K  C  V  S  *  T  M  S  *  A  *  E  L  I  F  *  Y  Y  F  N  L  L  H  P  L  T  P  P  L  Q  S  S  C  S  F  V  S  E  T  I  R  F  I  K  I  I  R  D  T  F  Q  L  P  V  L  V  Y  I  L  Q  *  D  A  M  Q  N  L  R  F  R  A  Y  A  S  I  K  N  S  T  I  Q  H  F  R  S  G  L  R  S  L  I  V  S  C  V  Q  H  Q  F  L  H  S  H  I  G  K  V  L  V  V  Q  Q  I  Q  M  S  C  S  F  L  S  L  G  S  F  E  F  F  V  I  C  L  T  F  V  N  Q  A  A  K  K  G  C  Y  S  *  L  S  L  L  K  Y  I  F  F  C  H  L  I  E  </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="C06HBa0062H07.1" strand="-"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="87459" stop="87049"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>408</number_coding_nucleotides>
                  <number_encoded_amino_acids>136</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RGGYIKDILVTDVVMANVQVGIEATGHYDSHPDEKFDPSALPVVSGITFEDIVGTNVSIAGNFTGLSESPFTSICLSNITFSISYNPFTSWLCSDVSGFSQNVSPEPCPELESSFSSTTSTCFTLLHHPYSQVAVL*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C06HBa0062H07.1" strand="-"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="86974" stop="86720"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>252</number_coding_nucleotides>
                  <number_encoded_amino_acids>84</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>DAMQNLRFRAYASIKNSTIQHFRSGLRSLIVSCVQHQFLHSHIGKVLVVQQIQMSCSFLSLGSFEFFVICLTFVNQAAKKGCYS*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="4" PGL_strand="-" PGL_start="91232" PGL_stop="89064"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="91232" e_stop="91112"/>
            <exon e_start="89686" e_stop="89064"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.938" acc_prob="0.478" e_score="1.000"/>
          <exon-only e_score="0.995"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="91232" e_stop="91112" e_length="121"/>
          </exon>
          <intron i_serial="1" don_prob="0.938" acc_prob="0.478">
            <gDNA_intron_boundary i_start="91111" i_stop="89687" i_length="1425"/>
          </intron>
          <exon e_serial="2" e_score="0.995">
            <gDNA_exon_boundary e_start="89686" e_stop="89064" e_length="623"/>
          </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="91232" stop="91112"/>
              <exon start="89686" stop="89064"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U332545" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="4" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TTCCTCTCCATCTCTCTCTTCTTTCTCTCTTCACTCTACAGTGTAAAATCTCATAAGAAGAAGAGGATTGATTGTCTACATTTCTGAAGACAAGAGAACAGATTCATGAAGGGTCTAGTAA : GCAGTGCTAATTTTGTTGTTGGTGTTAAGTCATATTATTGTACATACTGATGCTCAATTTGACGGAGAATGCAAATTCAACAAGCCTCTGGAACCCAGACCTCACAGTGCGTCAGTGTTGGACTTTGGGGCTGTCGGTGATGGGGAGACTCTAAATACTCTGGCTTTCCAGAATGCCATTTTCTATCTCAAGTCCTTTGCTGACAAAGGTGGAGCACAGCTCTATGTTCCAGCTGGAAGGTGGCTGACCGGAAGCATAAAGCTTACCAGTCACCTCACACTCTTCCTTGAAAAAGAAGCCATTATTCTGGGATCAAAGGTTAGCCCCTGGACTGGTTCTGAAGTTCCAGCTTGTTTAGATTTTTTCTGTGTTCATGGAAATATGAAGGCTGTTGTTGTATTTACAATTGCCGAATTAATTCTTGAAAAATAAATGATTAGCATGAGGCACTCAAGGGTGTCGACTAGTGGTTAATGAGGTGAGTCGAAAACCATGAGGTCTCAAGTTCAAATCCTACTGGAGGCAAAAATACTAAGTAGGTGATTTCTTTCCATCTTTCCAAGCATTGGTGCACAGAATTACCAGGTGCATGTGTTGGAGGGAGGTAACAAGTACCCCGTGGA</gDNA_template>
            <first_frame> F  L  S  I  S  L  F  F  L  S  S  L  Y  S  V  K  S  H  K  K  K  R  I  D  C  L  H  F  *  R  Q  E  N  R  F  M  K  G  L  V   : S  S  A  N  F  V  V  G  V  K  S  Y  Y  C  T  Y  *  C  S  I  *  R  R  M  Q  I  Q  Q  A  S  G  T  Q  T  S  Q  C  V  S  V  G  L  W  G  C  R  *  W  G  D  S  K  Y  S  G  F  P  E  C  H  F  L  S  Q  V  L  C  *  Q  R  W  S  T  A  L  C  S  S  W  K  V  A  D  R  K  H  K  A  Y  Q  S  P  H  T  L  P  *  K  R  S  H  Y  S  G  I  K  G  *  P  L  D  W  F  *  S  S  S  L  F  R  F  F  L  C  S  W  K  Y  E  G  C  C  C  I  Y  N  C  R  I  N  S  *  K  I  N  D  *  H  E  A  L  K  G  V  D  *  W  L  M  R  *  V  E  N  H  E  V  S  S  S  N  P  T  G  G  K  N  T  K  *  V  I  S  F  H  L  S  K  H  W  C  T  E  L  P  G  A  C  V  G  G  R  *  Q  V  P  R  G </first_frame>
            <second_frame>  S  S  P  S  L  S  S  F  S  L  H  S  T  V  *  N  L  I  R  R  R  G  L  I  V  Y  I  S  E  D  K  R  T  D  S  *  R  V  *  *  :  A  V  L  I  L  L  L  V  L  S  H  I  I  V  H  T  D  A  Q  F  D  G  E  C  K  F  N  K  P  L  E  P  R  P  H  S  A  S  V  L  D  F  G  A  V  G  D  G  E  T  L  N  T  L  A  F  Q  N  A  I  F  Y  L  K  S  F  A  D  K  G  G  A  Q  L  Y  V  P  A  G  R  W  L  T  G  S  I  K  L  T  S  H  L  T  L  F  L  E  K  E  A  I  I  L  G  S  K  V  S  P  W  T  G  S  E  V  P  A  C  L  D  F  F  C  V  H  G  N  M  K  A  V  V  V  F  T  I  A  E  L  I  L  E  K  *  M  I  S  M  R  H  S  R  V  S  T  S  G  *  *  G  E  S  K  T  M  R  S  Q  V  Q  I  L  L  E  A  K  I  L  S  R  *  F  L  S  I  F  P  S  I  G  A  Q  N  Y  Q  V  H  V  L  E  G  G  N  K  Y  P  V   </second_frame>
            <third_frame>   P  L  H  L  S  L  L  S  L  F  T  L  Q  C  K  I  S  *  E  E  E  D  *  L  S  T  F  L  K  T  R  E  Q  I  H  E  G  S  S  K :   Q  C  *  F  C  C  W  C  *  V  I  L  L  Y  I  L  M  L  N  L  T  E  N  A  N  S  T  S  L  W  N  P  D  L  T  V  R  Q  C  W  T  L  G  L  S  V  M  G  R  L  *  I  L  W  L  S  R  M  P  F  S  I  S  S  P  L  L  T  K  V  E  H  S  S  M  F  Q  L  E  G  G  *  P  E  A  *  S  L  P  V  T  S  H  S  S  L  K  K  K  P  L  F  W  D  Q  R  L  A  P  G  L  V  L  K  F  Q  L  V  *  I  F  S  V  F  M  E  I  *  R  L  L  L  Y  L  Q  L  P  N  *  F  L  K  N  K  *  L  A  *  G  T  Q  G  C  R  L  V  V  N  E  V  S  R  K  P  *  G  L  K  F  K  S  Y  W  R  Q  K  Y  *  V  G  D  F  F  P  S  F  Q  A  L  V  H  R  I  T  R  C  M  C  W  R  E  V  T  S  T  P  W  </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="C06HBa0062H07.1" strand="-"/>
                <serials PGL_serial="4" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="89686" stop="89255"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>429</number_coding_nucleotides>
                  <number_encoded_amino_acids>143</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>AVLILLLVLSHIIVHTDAQFDGECKFNKPLEPRPHSASVLDFGAVGDGETLNTLAFQNAIFYLKSFADKGGAQLYVPAGRWLTGSIKLTSHLTLFLEKEAIILGSKVSPWTGSEVPACLDFFCVHGNMKAVVVFTIAELILEK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="5" PGL_strand="-" PGL_start="108672" PGL_stop="108336"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="108672" e_stop="108336"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.908"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.908">
            <gDNA_exon_boundary e_start="108672" e_stop="108336" e_length="337"/>
          </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="108672" stop="108336"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U335079" 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="5" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>ACTGAGTAGATATCATCGGCCAACTCAAAATAGAAATCAATATATACCAAGTAATATCATAAAATCAACTATGATACTTAACATGTAGCAACAGCAAGTACTATATCATTAACAATTACCGTCAAGTGCATACATGAGGACTCAAGCCTCAATACCATACTCATTTGGGAATTATGTTCATTAGATTGAGTATATTAACATCTTTCAAGATTCATTATCTTTATTTCTCTTGTGTCGGTACGTGACACTCCGCTCCCTCATATTCATTAATCCTCTTGTGTCGGTACGTGACACTCCGATCCCCTAAATCTACGTGTCAGTTTGTGACACTCGATCC</gDNA_template>
            <first_frame> T  E  *  I  S  S  A  N  S  K  *  K  S  I  Y  T  K  *  Y  H  K  I  N  Y  D  T  *  H  V  A  T  A  S  T  I  S  L  T  I  T  V  K  C  I  H  E  D  S  S  L  N  T  I  L  I  W  E  L  C  S  L  D  *  V  Y  *  H  L  S  R  F  I  I  F  I  S  L  V  S  V  R  D  T  P  L  P  H  I  H  *  S  S  C  V  G  T  *  H  S  D  P  L  N  L  R  V  S  L  *  H  S  I  </first_frame>
            <second_frame>  L  S  R  Y  H  R  P  T  Q  N  R  N  Q  Y  I  P  S  N  I  I  K  S  T  M  I  L  N  M  *  Q  Q  Q  V  L  Y  H  *  Q  L  P  S  S  A  Y  M  R  T  Q  A  S  I  P  Y  S  F  G  N  Y  V  H  *  I  E  Y  I  N  I  F  Q  D  S  L  S  L  F  L  L  C  R  Y  V  T  L  R  S  L  I  F  I  N  P  L  V  S  V  R  D  T  P  I  P  *  I  Y  V  S  V  C  D  T  R  S </second_frame>
            <third_frame>   *  V  D  I  I  G  Q  L  K  I  E  I  N  I  Y  Q  V  I  S  *  N  Q  L  *  Y  L  T  C  S  N  S  K  Y  Y  I  I  N  N  Y  R  Q  V  H  T  *  G  L  K  P  Q  Y  H  T  H  L  G  I  M  F  I  R  L  S  I  L  T  S  F  K  I  H  Y  L  Y  F  S  C  V  G  T  *  H  S  A  P  S  Y  S  L  I  L  L  C  R  Y  V  T  L  R  S  P  K  S  T  C  Q  F  V  T  L  D   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C06HBa0062H07.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="6" PGL_strand="-" PGL_start="110169" PGL_stop="109340"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="110169" e_stop="109340"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.934"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.934">
            <gDNA_exon_boundary e_start="110169" e_stop="109340" e_length="830"/>
          </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="110169" stop="109340"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U324057" 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="6" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GCAGAGATATTCTCAGTGACACATCATTAGCTTCATCTTTCAACTTTCTTCCTTTATTGCTTTTTACTTTGGTTGCTGAAAATCTCTTCTATGTTTTTCCCATTCATCCCAGGTAAGGCTCCTTCAAATTTTTTCTTTGATTTCTCTAATGTTTTATTTTCCCTAAACTTTGATGGTTGTTTTTCCTTCTTCTAGCTGTAATCGTTATTCTCTATTTGTTCCCTCTTCTTCGCCACTCCTCCGGCGACGAAAACCAGCTGCTCCGGCTACAACTCTGGCGAAGAATCCCAAAACGGTCAACGCTCGCCGAAGTCCGTTCTACGGTGTGCTTCAACTTCATTTGATGAATCTCAGAATAACGAGGAAGCTTAAGCTAAGTCATTATCGATTTTACCCTCCGATATCAGGGACAATAATGACATTTCCATGTCGAAGAACTTCTGCGATTTACCACCGTTCAAGAGTTTCTTCCCAAATAATTTGTTTCAGTTCGAGAACCCGGCCCGTAAAGGACTTCTTTCAGGATTTCGGAGATGTATTCGGGTCTAACCCGCTTTTGGCTCTTTGATTTCATCGGCAGATTAATCGGCGATAAGTATAAATGGTTTAATATTCGTAATTTTAAAATTTAATTTTGTGTTTAGTTTACCAGTTTTGTTTAAATTTGTTGATTAATGTGAGTGATTAGTGAGTAATTAGTAGTATTAATATGTAACAGCTCCGTCACATTAACGGTGATGCTGATGGATGAGATTTTGCGGTACAGTGTTGTTTTGGTGTTTTGTGCTTCGTTAATAACAATAAACGACTTTAGCAATTATTAATTATTC</gDNA_template>
            <first_frame> A  E  I  F  S  V  T  H  H  *  L  H  L  S  T  F  F  L  Y  C  F  L  L  W  L  L  K  I  S  S  M  F  F  P  F  I  P  G  K  A  P  S  N  F  F  F  D  F  S  N  V  L  F  S  L  N  F  D  G  C  F  S  F  F  *  L  *  S  L  F  S  I  C  S  L  F  F  A  T  P  P  A  T  K  T  S  C  S  G  Y  N  S  G  E  E  S  Q  N  G  Q  R  S  P  K  S  V  L  R  C  A  S  T  S  F  D  E  S  Q  N  N  E  E  A  *  A  K  S  L  S  I  L  P  S  D  I  R  D  N  N  D  I  S  M  S  K  N  F  C  D  L  P  P  F  K  S  F  F  P  N  N  L  F  Q  F  E  N  P  A  R  K  G  L  L  S  G  F  R  R  C  I  R  V  *  P  A  F  G  S  L  I  S  S  A  D  *  S  A  I  S  I  N  G  L  I  F  V  I  L  K  F  N  F  V  F  S  L  P  V  L  F  K  F  V  D  *  C  E  *  L  V  S  N  *  *  Y  *  Y  V  T  A  P  S  H  *  R  *  C  *  W  M  R  F  C  G  T  V  L  F  W  C  F  V  L  R  *  *  Q  *  T  T  L  A  I  I  N  Y   </first_frame>
            <second_frame>  Q  R  Y  S  Q  *  H  I  I  S  F  I  F  Q  L  S  S  F  I  A  F  Y  F  G  C  *  K  S  L  L  C  F  S  H  S  S  Q  V  R  L  L  Q  I  F  S  L  I  S  L  M  F  Y  F  P  *  T  L  M  V  V  F  P  S  S  S  C  N  R  Y  S  L  F  V  P  S  S  S  P  L  L  R  R  R  K  P  A  A  P  A  T  T  L  A  K  N  P  K  T  V  N  A  R  R  S  P  F  Y  G  V  L  Q  L  H  L  M  N  L  R  I  T  R  K  L  K  L  S  H  Y  R  F  Y  P  P  I  S  G  T  I  M  T  F  P  C  R  R  T  S  A  I  Y  H  R  S  R  V  S  S  Q  I  I  C  F  S  S  R  T  R  P  V  K  D  F  F  Q  D  F  G  D  V  F  G  S  N  P  L  L  A  L  *  F  H  R  Q  I  N  R  R  *  V  *  M  V  *  Y  S  *  F  *  N  L  I  L  C  L  V  Y  Q  F  C  L  N  L  L  I  N  V  S  D  *  *  V  I  S  S  I  N  M  *  Q  L  R  H  I  N  G  D  A  D  G  *  D  F  A  V  Q  C  C  F  G  V  L  C  F  V  N  N  N  K  R  L  *  Q  L  L  I  I  </second_frame>
            <third_frame>   R  D  I  L  S  D  T  S  L  A  S  S  F  N  F  L  P  L  L  L  F  T  L  V  A  E  N  L  F  Y  V  F  P  I  H  P  R  *  G  S  F  K  F  F  L  *  F  L  *  C  F  I  F  P  K  L  *  W  L  F  F  L  L  L  A  V  I  V  I  L  Y  L  F  P  L  L  R  H  S  S  G  D  E  N  Q  L  L  R  L  Q  L  W  R  R  I  P  K  R  S  T  L  A  E  V  R  S  T  V  C  F  N  F  I  *  *  I  S  E  *  R  G  S  L  S  *  V  I  I  D  F  T  L  R  Y  Q  G  Q  *  *  H  F  H  V  E  E  L  L  R  F  T  T  V  Q  E  F  L  P  K  *  F  V  S  V  R  E  P  G  P  *  R  T  S  F  R  I  S  E  M  Y  S  G  L  T  R  F  W  L  F  D  F  I  G  R  L  I  G  D  K  Y  K  W  F  N  I  R  N  F  K  I  *  F  C  V  *  F  T  S  F  V  *  I  C  *  L  M  *  V  I  S  E  *  L  V  V  L  I  C  N  S  S  V  T  L  T  V  M  L  M  D  E  I  L  R  Y  S  V  V  L  V  F  C  A  S  L  I  T  I  N  D  F  S  N  Y  *  L  F </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C06HBa0062H07.1" strand="-"/>
                <serials PGL_serial="6" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="110003" stop="109602"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>399</number_coding_nucleotides>
                  <number_encoded_amino_acids>133</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TLMVVFPSSSCNRYSLFVPSSSPLLRRRKPAAPATTLAKNPKTVNARRSPFYGVLQLHLMNLRITRKLKLSHYRFYPPISGTIMTFPCRRTSAIYHRSRVSSQIICFSSRTRPVKDFFQDFGDVFGSNPLLAL*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="7" PGL_strand="-" PGL_start="113580" PGL_stop="112853"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="113580" e_stop="112853"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.949"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.949">
            <gDNA_exon_boundary e_start="113580" e_stop="112853" e_length="728"/>
          </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="113580" stop="113095"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U346798" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="113154" stop="112853"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U344877" 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="7" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TCACCCACAATACACCCACAACCACCACCCACACTCACAGCCAACCCGAACCACCCCACACTCATAACATCTCCAGCCCGATCCGTTTTGAGTCCTTCCCGGCCACCCCTGAATCACCACCACCCGTGACACCCCCCACTACTCATCCCATGTTAACCCGTGGCAAAGCCGGTATCTTTAAACCCAAAACCTTTCAGGCTACCATACTACCAAATACACCCCTTCCCGTTAGTGAACCAACAACCTACTCTGTTGCCTCAAAAAATGCTTATTGGCGTCATGCTATGGATGACGATTTTAAGGCTTTGACTGATCAGAAAACTTGGGTTCTTGTACCTAAGCCCCATGGGCGGCACCTAGTGGGCTGTAAATGGGTGTACAAAATTAAACACAATGCAGATGGCAGTATTTCTAGGTACAAGGCTCGTTTGGTTGTTAAAGGCTTCAATCAGGAGTATGGGCTTGATTACTCCGAGACATTCAGTCCTGTTATTCGGCAGGAAACCATTTGCCTGGTATTGTCACTCGTCGTGCGCAACAATTGGCTCATCAATCAGTTGGATGTTTCCAATGCTTTTCTTCATGGCATGCTTGATGAAACTATCTACATGACGCAACCACCGGGCTATGTTGATCCCCGCTTCCCTCAACATGTTTGCAAACTCCAGAAGTCTCTGTATGGGCTCAAGCAAGCCCCCCCGTGTTTGTTACACACGTCTGAAAATATT</gDNA_template>
            <first_frame> S  P  T  I  H  P  Q  P  P  P  T  L  T  A  N  P  N  H  P  T  L  I  T  S  P  A  R  S  V  L  S  P  S  R  P  P  L  N  H  H  H  P  *  H  P  P  L  L  I  P  C  *  P  V  A  K  P  V  S  L  N  P  K  P  F  R  L  P  Y  Y  Q  I  H  P  F  P  L  V  N  Q  Q  P  T  L  L  P  Q  K  M  L  I  G  V  M  L  W  M  T  I  L  R  L  *  L  I  R  K  L  G  F  L  Y  L  S  P  M  G  G  T  *  W  A  V  N  G  C  T  K  L  N  T  M  Q  M  A  V  F  L  G  T  R  L  V  W  L  L  K  A  S  I  R  S  M  G  L  I  T  P  R  H  S  V  L  L  F  G  R  K  P  F  A  W  Y  C  H  S  S  C  A  T  I  G  S  S  I  S  W  M  F  P  M  L  F  F  M  A  C  L  M  K  L  S  T  *  R  N  H  R  A  M  L  I  P  A  S  L  N  M  F  A  N  S  R  S  L  C  M  G  S  S  K  P  P  R  V  C  Y  T  R  L  K  I   </first_frame>
            <second_frame>  H  P  Q  Y  T  H  N  H  H  P  H  S  Q  P  T  R  T  T  P  H  S  *  H  L  Q  P  D  P  F  *  V  L  P  G  H  P  *  I  T  T  T  R  D  T  P  H  Y  S  S  H  V  N  P  W  Q  S  R  Y  L  *  T  Q  N  L  S  G  Y  H  T  T  K  Y  T  P  S  R  *  *  T  N  N  L  L  C  C  L  K  K  C  L  L  A  S  C  Y  G  *  R  F  *  G  F  D  *  S  E  N  L  G  S  C  T  *  A  P  W  A  A  P  S  G  L  *  M  G  V  Q  N  *  T  Q  C  R  W  Q  Y  F  *  V  Q  G  S  F  G  C  *  R  L  Q  S  G  V  W  A  *  L  L  R  D  I  Q  S  C  Y  S  A  G  N  H  L  P  G  I  V  T  R  R  A  Q  Q  L  A  H  Q  S  V  G  C  F  Q  C  F  S  S  W  H  A  *  *  N  Y  L  H  D  A  T  T  G  L  C  *  S  P  L  P  S  T  C  L  Q  T  P  E  V  S  V  W  A  Q  A  S  P  P  V  F  V  T  H  V  *  K  Y  </second_frame>
            <third_frame>   T  H  N  T  P  T  T  T  T  H  T  H  S  Q  P  E  P  P  H  T  H  N  I  S  S  P  I  R  F  E  S  F  P  A  T  P  E  S  P  P  P  V  T  P  P  T  T  H  P  M  L  T  R  G  K  A  G  I  F  K  P  K  T  F  Q  A  T  I  L  P  N  T  P  L  P  V  S  E  P  T  T  Y  S  V  A  S  K  N  A  Y  W  R  H  A  M  D  D  D  F  K  A  L  T  D  Q  K  T  W  V  L  V  P  K  P  H  G  R  H  L  V  G  C  K  W  V  Y  K  I  K  H  N  A  D  G  S  I  S  R  Y  K  A  R  L  V  V  K  G  F  N  Q  E  Y  G  L  D  Y  S  E  T  F  S  P  V  I  R  Q  E  T  I  C  L  V  L  S  L  V  V  R  N  N  W  L  I  N  Q  L  D  V  S  N  A  F  L  H  G  M  L  D  E  T  I  Y  M  T  Q  P  P  G  Y  V  D  P  R  F  P  Q  H  V  C  K  L  Q  K  S  L  Y  G  L  K  Q  A  P  P  C  L  L  H  T  S  E  N  I </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="C06HBa0062H07.1" strand="-"/>
                <serials PGL_serial="7" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="113578" stop="112853"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>726</number_coding_nucleotides>
                  <number_encoded_amino_acids>242</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>THNTPTTTTHTHSQPEPPHTHNISSPIRFESFPATPESPPPVTPPTTHPMLTRGKAGIFKPKTFQATILPNTPLPVSEPTTYSVASKNAYWRHAMDDDFKALTDQKTWVLVPKPHGRHLVGCKWVYKIKHNADGSISRYKARLVVKGFNQEYGLDYSETFSPVIRQETICLVLSLVVRNNWLINQLDVSNAFLHGMLDETIYMTQPPGYVDPRFPQHVCKLQKSLYGLKQAPPCLLHTSENI</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 42 chains have been computed
$ 
$ memory statistics:
$ 17824 bytes spliced alignments in total
$ 8 spliced alignments have been stored
$ 2228 bytes was the average size of a spliced alignment
$ 12744 bytes predicted gene locations in total
$ 7 predicted gene locations have been stored
$ 1820 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 53 backtrace matrices have been allocated
$ 
$ date finished: 2009-01-16 23:38:49
-->
