<?xml version="1.0" encoding="ISO-8859-1"?>
<GTH_output xmlns="http://www.genomethreader.org/GTH_output/" GTH_XML_version="1.1">
  <header xmlns="http://www.genomethreader.org/GTH_output/header/">
    <source program="GenomeThreader" version="0.9.54" build_date="2006-07-28 11:55:15" run_date="2009-12-01 06:27:48"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C00SLm0102A24-isUzn/GenomeThreader_SGN_U_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C00SLm0102A24-isUzn/gth_cdna_fileCXGN::TomatoGenome::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-C00SLm0102A24-isUzn/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" ref_id="SGN-U589884" ref_strand="+" ref_description="SGN-U589884 Tomato 200607#2 [1 ESTs aligned] ">
      <seq>cgagggtctttgttctaatacacttcaactcttggaatttgggtactgggatcacttctctgaacttcacgacgaacctgcaggacggaccgtcagatccacgacggaccgtcacaagcttcgtaatcccacacttagtcagacttccctatcttccttcagcagctgcactacgcttccacctacggaccgtcacaagcacgacggaccgtcataagctccgtaggtggtttcttctgcatttcttcgctcaaaatctccgcattcagctttggacagatttcctgcaaaacaaagagtaacttatataaaaattagcacaaaaaggcttttggacacactaagcttaaggaaaaagtattaataataccgtgaaaccacggtatatcaacaccctcaacttaaattagttgtttgtcctcaagcgacgcactatgactcactacacaatctttgtacaatagtatccatgttttatcctttgcaatcatttggctatcaatcccgattaatctcatcaaatctatgcatgctatcactattaggtttgaattttgtgggatcagaatatgacacagacttaccatgcactaacacctatcctcttcaatttctcaccgaggtgctaacaattctagtattgcaactagtgtcctcactataagacaaaatcctcctttttcacacagtgattttagtttgagtataaggattac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0102A24-isUzn/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C00SLm0102A24.1" temp_strand="+" temp_description="C00SLm0102A24.1  CU928925.3 htgs_phase:3 submitted_to_sgn_as:C00SLm0102A24 sequenced_by:sanger upload_account_name:uk">
        <position start="6962" stop="8276"/>
      </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="7262" g_stop="7976" g_length="715"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="716" r_length="716" r_score="0.923"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0102A24.1" gen_strand="+" ref_id="SGN-U589884" ref_strand="+">
        <total_alignment_score>0.923</total_alignment_score>
        <cumulative_length_of_scored_exons>715</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0102A24.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U589884" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7262" e_stop="7976"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGAGGGACTTCGTTCCAAAACACTTCAACTCTTGGAATATGGGTACTGGGATTACTTCTCTGAACTTCATAACGATTCTGCAGGAAGGACCGTCATAGACATGACGGATCGTCACAAACTTCGTAACCCCACACTTGGTCAGACTTCCCCATCTTCCTTCAGCAGCTGCACTACGCTGCCACCTACGGGCCGTCACAAGTACGACAGACCGTCATAAGCTCCGTAGGTGGTCTCTTCTGCATTTCTTCGCTCAAAATCTCCGCATTCAGCTTTGGACAGATTTCCTACAAAATAAAAAGAAACTTATATAAAAATTAGCACAAAAAGGCTTTTGGACACACTAAAGTTATGGAAAAAGTATTAATAATACCGTGAAACCACTGTATATCAACACCCTCAACTTAAATTCGTTGTTTGTCCTCAAGCGACTCACTATGACTCAATACACAATCTTTGTACAATAGTATCCATGTTTCATCCTTTGCAATCATTTGTCTATCAATCCCGATTAATCTCATCAAATCTATGCATGCTATCACTATTAGGCTTGAATTATGTTGGATCAGAACATGACACAGACTCGCCATGCACTAACACCTATCCTCTTCAATTTCTCACCGAGGTGCTAACAATTGCGGCATTGCAACTAGTGTCCTCACTTTAA-ACAAAATCCTCATTTTTCACACAATAATTTCAGTTTGAGTATAAGGATTAC</genome_strand>
        <mrna_strand>CGAGGGTCTTTGTTCTAATACACTTCAACTCTTGGAATTTGGGTACTGGGATCACTTCTCTGAACTTCACGACGAACCTGCAGGACGGACCGTCAGATCCACGACGGACCGTCACAAGCTTCGTAATCCCACACTTAGTCAGACTTCCCTATCTTCCTTCAGCAGCTGCACTACGCTTCCACCTACGGACCGTCACAAGCACGACGGACCGTCATAAGCTCCGTAGGTGGTTTCTTCTGCATTTCTTCGCTCAAAATCTCCGCATTCAGCTTTGGACAGATTTCCTGCAAAACAAAGAGTAACTTATATAAAAATTAGCACAAAAAGGCTTTTGGACACACTAAGCTTAAGGAAAAAGTATTAATAATACCGTGAAACCACGGTATATCAACACCCTCAACTTAAATTAGTTGTTTGTCCTCAAGCGACGCACTATGACTCACTACACAATCTTTGTACAATAGTATCCATGTTTTATCCTTTGCAATCATTTGGCTATCAATCCCGATTAATCTCATCAAATCTATGCATGCTATCACTATTAGGTTTGAATTTTGTGGGATCAGAATATGACACAGACTTACCATGCACTAACACCTATCCTCTTCAATTTCTCACCGAGGTGCTAACAATTCTAGTATTGCAACTAGTGTCCTCACTATAAGACAAAATCCTCCTTTTTCACACAGTGATTTTAGTTTGAGTATAAGGATTAC</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-C00SLm0102A24-isUzn/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" ref_id="SGN-U604778" ref_strand="+" ref_description="SGN-U604778 Tomato 200607#2 [1 ESTs aligned] (*GB) gi|147808123|emb|CAN64169.1| (e_value=3e-35) hypothetical; ">
      <seq>atttcctatggcacttggaaaattatttcaagtgtatgcgggttcgtagtgatgtgaacaagatcaacactgttgttttgtatctttcggagttggccatactatggtggaagcgtaaagagtctgacatcgcaaaggggacatgcacgttgaacacatgggagcagtttcgtgtggagttcaagaaggcgttcttcccgagcaacgttttcaatgaggcaaagcacaagatgagggagttgagacaaaagggcagcatacgcgcgtatgtgcgggagtttaccacccttacatttcagattcccaacctcagggacgatgacacgttgttctacttcatggattggctgcataactgggccagaacggagtttgaacggcggcaggtcaggactattgacgacgccattatgcaggccgaagccttgacagacttcaggcaggagaagtttctcagtgcctaggtggacgactaggtaggaagtcttgatgatagtggggaagacagtggcgaaggcgaggagcatacgccacaacccaaaaggcgtgacacctatggttccagcggcaagaagaccggagatcgtggcaacacggtaagggattccaaggatggttgcttcatattgcaaagggccgcatggttacaaaagatgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0102A24-isUzn/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C00SLm0102A24.1" temp_strand="+" temp_description="C00SLm0102A24.1  CU928925.3 htgs_phase:3 submitted_to_sgn_as:C00SLm0102A24 sequenced_by:sanger upload_account_name:uk">
        <position start="9468" stop="10723"/>
      </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="9768" g_stop="10423" g_length="656"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="657" r_length="657" r_score="0.910"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0102A24.1" gen_strand="+" ref_id="SGN-U604778" ref_strand="+">
        <total_alignment_score>0.910</total_alignment_score>
        <cumulative_length_of_scored_exons>656</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0102A24.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U604778" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="9768" e_stop="10423"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTTCCTTTGGCACTTGGAAAATTATTTCAAGTGTATGCGGGTCCGTAGTGATGTGAACAAGATCAACACTGCTGTGTTGTATCTTTCAGAGTTGGCCATGCTGTGGTGGAAGCGTAAAGAGTCTGACATCGCAAAGGGGACATGCACGTTGAACACATGGGAGCAGTTCCGTGTGGAGTTCAAGAAGGCATTCCTCCCTAGCAACGTTGTCTATGAGGCAAAGCGCAAGATGCGGGAGTTGAGACAAAAGGGCAGCATACGCGCGTATGTGCGGGAGTTTACCACCCTTACATTTCAGATTACCAACCTCATGGATGACGACACATTTTTCTACTTCATGGATGGGCTGCAAAATTGGGCTAGAACGGAGTTGGAACGGCGGCAAGTCAGGACTATAGACGACGCCATCACGCAAGCTAAATCCTTGACAGATTTCAGGCGAGAGAAGTCTATTAGTGCCAAGGAGGACGACGAGGTAGGCAGTCATGATGATAGTGGGGATGACAGTGCCGAAGGCGAGGAGAAAACGCCACAACCCAAAAGGCGTGACACCTACGGGTCCAGCGGCAAGAAGCCCGGAGATCGTGGAAACACGGCAAGGGATTCCAAGGATGGGTGCTTCATA-TGCAAAGGGCCACATGGTTACGAAAGATGC</genome_strand>
        <mrna_strand>ATTTCCTATGGCACTTGGAAAATTATTTCAAGTGTATGCGGGTTCGTAGTGATGTGAACAAGATCAACACTGTTGTTTTGTATCTTTCGGAGTTGGCCATACTATGGTGGAAGCGTAAAGAGTCTGACATCGCAAAGGGGACATGCACGTTGAACACATGGGAGCAGTTTCGTGTGGAGTTCAAGAAGGCGTTCTTCCCGAGCAACGTTTTCAATGAGGCAAAGCACAAGATGAGGGAGTTGAGACAAAAGGGCAGCATACGCGCGTATGTGCGGGAGTTTACCACCCTTACATTTCAGATTCCCAACCTCAGGGACGATGACACGTTGTTCTACTTCATGGATTGGCTGCATAACTGGGCCAGAACGGAGTTTGAACGGCGGCAGGTCAGGACTATTGACGACGCCATTATGCAGGCCGAAGCCTTGACAGACTTCAGGCAGGAGAAGTTTCTCAGTGCCTAGGTGGACGACTAGGTAGGAAGTCTTGATGATAGTGGGGAAGACAGTGGCGAAGGCGAGGAGCATACGCCACAACCCAAAAGGCGTGACACCTATGGTTCCAGCGGCAAGAAGACCGGAGATCGTGGCAACACGGTAAGGGATTCCAAGGATGGTTGCTTCATATTGCAAAGGGCCGCATGGTTACAAAAGATGC</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="7262" PGL_stop="7976"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="7262" e_stop="7976"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.923"/>
        </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="0.923">
            <gDNA_exon_boundary e_start="7262" e_stop="7976" e_length="715"/>
          </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="7262" stop="7976"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U589884" 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>CGAGGGACTTCGTTCCAAAACACTTCAACTCTTGGAATATGGGTACTGGGATTACTTCTCTGAACTTCATAACGATTCTGCAGGAAGGACCGTCATAGACATGACGGATCGTCACAAACTTCGTAACCCCACACTTGGTCAGACTTCCCCATCTTCCTTCAGCAGCTGCACTACGCTGCCACCTACGGGCCGTCACAAGTACGACAGACCGTCATAAGCTCCGTAGGTGGTCTCTTCTGCATTTCTTCGCTCAAAATCTCCGCATTCAGCTTTGGACAGATTTCCTACAAAATAAAAAGAAACTTATATAAAAATTAGCACAAAAAGGCTTTTGGACACACTAAAGTTATGGAAAAAGTATTAATAATACCGTGAAACCACTGTATATCAACACCCTCAACTTAAATTCGTTGTTTGTCCTCAAGCGACTCACTATGACTCAATACACAATCTTTGTACAATAGTATCCATGTTTCATCCTTTGCAATCATTTGTCTATCAATCCCGATTAATCTCATCAAATCTATGCATGCTATCACTATTAGGCTTGAATTATGTTGGATCAGAACATGACACAGACTCGCCATGCACTAACACCTATCCTCTTCAATTTCTCACCGAGGTGCTAACAATTGCGGCATTGCAACTAGTGTCCTCACTTTAAACAAAATCCTCATTTTTCACACAATAATTTCAGTTTGAGTATAAGGATTAC</gDNA_template>
            <first_frame> R  G  T  S  F  Q  N  T  S  T  L  G  I  W  V  L  G  L  L  L  *  T  S  *  R  F  C  R  K  D  R  H  R  H  D  G  S  S  Q  T  S  *  P  H  T  W  S  D  F  P  I  F  L  Q  Q  L  H  Y  A  A  T  Y  G  P  S  Q  V  R  Q  T  V  I  S  S  V  G  G  L  F  C  I  S  S  L  K  I  S  A  F  S  F  G  Q  I  S  Y  K  I  K  R  N  L  Y  K  N  *  H  K  K  A  F  G  H  T  K  V  M  E  K  V  L  I  I  P  *  N  H  C  I  S  T  P  S  T  *  I  R  C  L  S  S  S  D  S  L  *  L  N  T  Q  S  L  Y  N  S  I  H  V  S  S  F  A  I  I  C  L  S  I  P  I  N  L  I  K  S  M  H  A  I  T  I  R  L  E  L  C  W  I  R  T  *  H  R  L  A  M  H  *  H  L  S  S  S  I  S  H  R  G  A  N  N  C  G  I  A  T  S  V  L  T  L  N  K  I  L  I  F  H  T  I  I  S  V  *  V  *  G  L  </first_frame>
            <second_frame>  E  G  L  R  S  K  T  L  Q  L  L  E  Y  G  Y  W  D  Y  F  S  E  L  H  N  D  S  A  G  R  T  V  I  D  M  T  D  R  H  K  L  R  N  P  T  L  G  Q  T  S  P  S  S  F  S  S  C  T  T  L  P  P  T  G  R  H  K  Y  D  R  P  S  *  A  P  *  V  V  S  S  A  F  L  R  S  K  S  P  H  S  A  L  D  R  F  P  T  K  *  K  E  T  Y  I  K  I  S  T  K  R  L  L  D  T  L  K  L  W  K  K  Y  *  *  Y  R  E  T  T  V  Y  Q  H  P  Q  L  K  F  V  V  C  P  Q  A  T  H  Y  D  S  I  H  N  L  C  T  I  V  S  M  F  H  P  L  Q  S  F  V  Y  Q  S  R  L  I  S  S  N  L  C  M  L  S  L  L  G  L  N  Y  V  G  S  E  H  D  T  D  S  P  C  T  N  T  Y  P  L  Q  F  L  T  E  V  L  T  I  A  A  L  Q  L  V  S  S  L  *  T  K  S  S  F  F  T  Q  *  F  Q  F  E  Y  K  D  Y </second_frame>
            <third_frame>   R  D  F  V  P  K  H  F  N  S  W  N  M  G  T  G  I  T  S  L  N  F  I  T  I  L  Q  E  G  P  S  *  T  *  R  I  V  T  N  F  V  T  P  H  L  V  R  L  P  H  L  P  S  A  A  A  L  R  C  H  L  R  A  V  T  S  T  T  D  R  H  K  L  R  R  W  S  L  L  H  F  F  A  Q  N  L  R  I  Q  L  W  T  D  F  L  Q  N  K  K  K  L  I  *  K  L  A  Q  K  G  F  W  T  H  *  S  Y  G  K  S  I  N  N  T  V  K  P  L  Y  I  N  T  L  N  L  N  S  L  F  V  L  K  R  L  T  M  T  Q  Y  T  I  F  V  Q  *  Y  P  C  F  I  L  C  N  H  L  S  I  N  P  D  *  S  H  Q  I  Y  A  C  Y  H  Y  *  A  *  I  M  L  D  Q  N  M  T  Q  T  R  H  A  L  T  P  I  L  F  N  F  S  P  R  C  *  Q  L  R  H  C  N  *  C  P  H  F  K  Q  N  P  H  F  S  H  N  N  F  S  L  S  I  R  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="C00SLm0102A24.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="7629" stop="7925"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>294</number_coding_nucleotides>
                  <number_encoded_amino_acids>98</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>YRETTVYQHPQLKFVVCPQATHYDSIHNLCTIVSMFHPLQSFVYQSRLISSNLCMLSLLGLNYVGSEHDTDSPCTNTYPLQFLTEVLTIAALQLVSSL*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0102A24.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="7263" stop="7478"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>213</number_coding_nucleotides>
                  <number_encoded_amino_acids>71</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EGLRSKTLQLLEYGYWDYFSELHNDSAGRTVIDMTDRHKLRNPTLGQTSPSSFSSCTTLPPTGRHKYDRPS*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0102A24.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="3"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="7366" stop="7572"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>204</number_coding_nucleotides>
                  <number_encoded_amino_acids>68</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RIVTNFVTPHLVRLPHLPSAAALRCHLRAVTSTTDRHKLRRWSLLHFFAQNLRIQLWTDFLQNKKKLI*</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="9768" PGL_stop="10423"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="9768" e_stop="10423"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.910"/>
        </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="0.910">
            <gDNA_exon_boundary e_start="9768" e_stop="10423" e_length="656"/>
          </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="9768" stop="10423"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U604778" 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>ATTTCCTTTGGCACTTGGAAAATTATTTCAAGTGTATGCGGGTCCGTAGTGATGTGAACAAGATCAACACTGCTGTGTTGTATCTTTCAGAGTTGGCCATGCTGTGGTGGAAGCGTAAAGAGTCTGACATCGCAAAGGGGACATGCACGTTGAACACATGGGAGCAGTTCCGTGTGGAGTTCAAGAAGGCATTCCTCCCTAGCAACGTTGTCTATGAGGCAAAGCGCAAGATGCGGGAGTTGAGACAAAAGGGCAGCATACGCGCGTATGTGCGGGAGTTTACCACCCTTACATTTCAGATTACCAACCTCATGGATGACGACACATTTTTCTACTTCATGGATGGGCTGCAAAATTGGGCTAGAACGGAGTTGGAACGGCGGCAAGTCAGGACTATAGACGACGCCATCACGCAAGCTAAATCCTTGACAGATTTCAGGCGAGAGAAGTCTATTAGTGCCAAGGAGGACGACGAGGTAGGCAGTCATGATGATAGTGGGGATGACAGTGCCGAAGGCGAGGAGAAAACGCCACAACCCAAAAGGCGTGACACCTACGGGTCCAGCGGCAAGAAGCCCGGAGATCGTGGAAACACGGCAAGGGATTCCAAGGATGGGTGCTTCATATGCAAAGGGCCACATGGTTACGAAAGATGC</gDNA_template>
            <first_frame> I  S  F  G  T  W  K  I  I  S  S  V  C  G  S  V  V  M  *  T  R  S  T  L  L  C  C  I  F  Q  S  W  P  C  C  G  G  S  V  K  S  L  T  S  Q  R  G  H  A  R  *  T  H  G  S  S  S  V  W  S  S  R  R  H  S  S  L  A  T  L  S  M  R  Q  S  A  R  C  G  S  *  D  K  R  A  A  Y  A  R  M  C  G  S  L  P  P  L  H  F  R  L  P  T  S  W  M  T  T  H  F  S  T  S  W  M  G  C  K  I  G  L  E  R  S  W  N  G  G  K  S  G  L  *  T  T  P  S  R  K  L  N  P  *  Q  I  S  G  E  R  S  L  L  V  P  R  R  T  T  R  *  A  V  M  M  I  V  G  M  T  V  P  K  A  R  R  K  R  H  N  P  K  G  V  T  P  T  G  P  A  A  R  S  P  E  I  V  E  T  R  Q  G  I  P  R  M  G  A  S  Y  A  K  G  H  M  V  T  K  D   </first_frame>
            <second_frame>  F  P  L  A  L  G  K  L  F  Q  V  Y  A  G  P  *  *  C  E  Q  D  Q  H  C  C  V  V  S  F  R  V  G  H  A  V  V  E  A  *  R  V  *  H  R  K  G  D  M  H  V  E  H  M  G  A  V  P  C  G  V  Q  E  G  I  P  P  *  Q  R  C  L  *  G  K  A  Q  D  A  G  V  E  T  K  G  Q  H  T  R  V  C  A  G  V  Y  H  P  Y  I  S  D  Y  Q  P  H  G  *  R  H  I  F  L  L  H  G  W  A  A  K  L  G  *  N  G  V  G  T  A  A  S  Q  D  Y  R  R  R  H  H  A  S  *  I  L  D  R  F  Q  A  R  E  V  Y  *  C  Q  G  G  R  R  G  R  Q  S  *  *  *  W  G  *  Q  C  R  R  R  G  E  N  A  T  T  Q  K  A  *  H  L  R  V  Q  R  Q  E  A  R  R  S  W  K  H  G  K  G  F  Q  G  W  V  L  H  M  Q  R  A  T  W  L  R  K  M  </second_frame>
            <third_frame>   F  L  W  H  L  E  N  Y  F  K  C  M  R  V  R  S  D  V  N  K  I  N  T  A  V  L  Y  L  S  E  L  A  M  L  W  W  K  R  K  E  S  D  I  A  K  G  T  C  T  L  N  T  W  E  Q  F  R  V  E  F  K  K  A  F  L  P  S  N  V  V  Y  E  A  K  R  K  M  R  E  L  R  Q  K  G  S  I  R  A  Y  V  R  E  F  T  T  L  T  F  Q  I  T  N  L  M  D  D  D  T  F  F  Y  F  M  D  G  L  Q  N  W  A  R  T  E  L  E  R  R  Q  V  R  T  I  D  D  A  I  T  Q  A  K  S  L  T  D  F  R  R  E  K  S  I  S  A  K  E  D  D  E  V  G  S  H  D  D  S  G  D  D  S  A  E  G  E  E  K  T  P  Q  P  K  R  R  D  T  Y  G  S  S  G  K  K  P  G  D  R  G  N  T  A  R  D  S  K  D  G  C  F  I  C  K  G  P  H  G  Y  E  R  C </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="C00SLm0102A24.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="9770" stop="10423"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>654</number_coding_nucleotides>
                  <number_encoded_amino_acids>218</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FLWHLENYFKCMRVRSDVNKINTAVLYLSELAMLWWKRKESDIAKGTCTLNTWEQFRVEFKKAFLPSNVVYEAKRKMRELRQKGSIRAYVREFTTLTFQITNLMDDDTFFYFMDGLQNWARTELERRQVRTIDDAITQAKSLTDFRREKSISAKEDDEVGSHDDSGDDSAEGEEKTPQPKRRDTYGSSGKKPGDRGNTARDSKDGCFICKGPHGYERC</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 37 chains have been computed
$ 
$ memory statistics:
$ 4592 bytes spliced alignments in total
$ 2 spliced alignments have been stored
$ 2296 bytes was the average size of a spliced alignment
$ 6704 bytes predicted gene locations in total
$ 2 predicted gene locations have been stored
$ 3352 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 47 backtrace matrices have been allocated
$ 
$ date finished: 2009-12-01 06:28:10
-->
