<?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="2009-01-15 17:22:03"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C04HBa0065J16-DBtr7/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C04HBa0065J16-DBtr7/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" 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-C04HBa0065J16-DBtr7/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" ref_id="SGN-E578039" ref_strand="+" ref_description="SGN-E578039 [LE08DB10]">
      <seq>cgagggtctttgttctaatacacttcaactcttggaatttgggtactgggatcacttctctgaacttcacgacgaacctgcaggacggaccgtcagatccacgacggaccgtcacaagcttcgtaatcccacacttagtcagacttccctatcttccttcagcagctgcactacgcttccacctacggaccgtcacaagcacgacggaccgtcataagctccgtaggtggtttcttctgcatttcttcgctcaaaatctccgcattcagctttggacagatttcctgcaaaacaaagagtaacttatataaaaattagcacaaaaaggcttttggacacactaagcttaaggaaaaagtattaataataccgtgaaaccacggtatatcaacaccctcaacttaaattagttgtttgtcctcaagcgacgcactatgactcactacacaatctttgtacaatagtatccatgttttatcctttgcaatcatttggctatcaatcccgattaatctcatcaaatctatgcatgctatcactattaggtttgaattttgtgggatcagaatatgacacagacttaccatgcactaacacctatcctcttcaatttctcaccgaggtgctaacaattctagtattgcaactagtgtcctcactataagacaaaatcctcctttttcacacagtgattttagtttgagtataaggattac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0065J16-DBtr7/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C04HBa0065J16.1" temp_strand="+" temp_description="C04HBa0065J16.1  CU914530.2 htgs_phase:3 submitted_to_sgn_as:C04HBa0065J16 sequenced_by:sanger upload_account_name:uk">
        <position start="53651" stop="54965"/>
      </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="53951" g_stop="54665" g_length="715"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="716" r_length="716" r_score="0.912"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0065J16.1" gen_strand="+" ref_id="SGN-E578039" ref_strand="+">
        <total_alignment_score>0.912</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="C04HBa0065J16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E578039" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="53951" e_stop="54665"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGAGGGTCTTCGTTTCAAAACACTTCAACTCTTGGAATCTGGGTACTGGGATCACTTCTCTAAACTTCATGACGAACCTGCAGGACGGACCGTCGTAGCCACGAC-GACCGTCACAAGCTACGTAACCCCACACTTGGTCAGACATCCCCATTTTGCCTCAGCAACTTCTCTACGCTGCCACCTACGGACCGTCACAAGCACGACGGACCGTCATCAGCTCCGTAGGTGGTCTCTTCTGCATTTCTTCACTCAAAATCTCTACATTCAACTTTGGACAGATTTCCTGCAAAACAAAGAGAAACTCATATAAAAAATATAACAAAAAGACTTTCAGACACACTAAACATATGTTTAAAGTATTAATTATACCTTGAAACCACGGTATATCAACACCCTCAACTTAAATTCGTTGTTTGTCCTCAAGCGACGCACTATGACTCACTACACAATCTTTGTACAATGGTATTCATGTTTTATTCTTTGCAATCATTTGGCTATCAATCCCGATTAATCTCATCAAATCTATGCATGCTATCACTATTAGGCTTGAATTTTGTGGGATTAGAACATGACACAGACTCACCATGCACTAACACCTATCCTCTTCAATTTCTCACCAAGGTGCTAACAATTCCTGTATTGCATCTAGTGTCCTCACTTTAAAACAAAATCCTCATTTTTCACACAATGATTTCAGTTTGAGTATAAGGATTAC</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-C04HBa0065J16-DBtr7/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" ref_id="SGN-E577717" ref_strand="+" ref_description="SGN-E577717 [LE15CC06]">
      <seq>ctctatgactctagtacctagcaaataggagcaaaatatctcaaaagcaaagactactgcgaggagttcatgctcagtcactgtgtagttcttctgggcttcatttagggctttactagcatagtaaattgggtgaaggattttgtttcttctctgtcccaatactacaccaagagccaccccactagcatcgcacattacctcaaatggacttttccaatccggagaaataatgataggtgcagacactaacttctcttttagctcactgaatgctttaagacaggactcatcaaaacaaaatttacattctttcttcagtaatttgcacaatgggtgtgcaatctttgaaaagtctttgatgaatctccgataaaaacctgcatgcccaagaaagcttctcacacctttcatagagatcggtgggggaagtctctctattacctcaactttagctcgatcaacctctattcccttttctgaaatgcgatgacccaacacaatacctttttttaccatgaaatgacacttttcccagtttagtaccagattgcagtcttcacatctcttaagaacctcagattaattggtcaagcatcgctcaattgaatcaccaaccacagaaaaatcatccataaaaacctctatagtatcctccaccatgtcagaaaatattgacatcatatatctctgaaaggttgcgggtgcattgcacaacctaaatggcattcttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0065J16-DBtr7/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C04HBa0065J16.1" temp_strand="+" temp_description="C04HBa0065J16.1  CU914530.2 htgs_phase:3 submitted_to_sgn_as:C04HBa0065J16 sequenced_by:sanger upload_account_name:uk">
        <position start="60749" stop="62081"/>
      </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="61049" g_stop="61781" g_length="733"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="734" r_length="734" r_score="0.921"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0065J16.1" gen_strand="+" ref_id="SGN-E577717" ref_strand="+">
        <total_alignment_score>0.921</total_alignment_score>
        <cumulative_length_of_scored_exons>733</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0065J16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E577717" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="61049" e_stop="61781"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACTATAACTCTAGTACCTAGCAAATAGGAGCGAAATTTCTCAAAAGCAAAGACTACTGTAAGGAGTTCTTGCTCAGTCACTGTGTAGTTCTTCTGAGCTACATTTAGGGCTTTACTAGAATAGTAAATTGGGTGAAGGATTTTGTTTCTTC-CTGTCCCAACACTACACTAAGAGCCACCCCACTAGCATTGCACATTACCTCAAATGGACTGTTCTAATCCAGAGAAATAATGATAGGCGCAGACACTAACTTTTCTATTAGCTCACCGAATGCTTTAAGACAGGATTCATCAAAACAAAATTTACGTTCTTTCTCCAGCAATTTGCACAATGGGTGTGCAATCATTGAAAAGTCTTTGATGAATCTCCGGTAAAAACCTACATGCGCAAGAAATATTCTCACACCTTTCACAGAGATCGGCGGGGGAAGTCTCTCTATTACCTCAACTTTAGCTCGATCAACCTCTATGCCCTTTTCTGAAATGTGATGACCCAACACAATACCCTCTTTCACCATGGAATGACAATTTTCCCAGTTTAGTACCAAATTGAAGTCTTCACATCTCTTAAGAACCCCAGATAAATTGGTCAATCACTGCTCGAATGAATCACCAACAACAAAAAAATCATCCATAAAAACTTTTGTAGTATCCTCCACCATGTCAGAAAATATTGACATCATACATCTCTGAAAGGTTGCGGGTGCATTGCACAACCCAAATGACATTCTTC</genome_strand>
        <mrna_strand>CTCTATGACTCTAGTACCTAGCAAATAGGAGCAAAATATCTCAAAAGCAAAGACTACTGCGAGGAGTTCATGCTCAGTCACTGTGTAGTTCTTCTGGGCTTCATTTAGGGCTTTACTAGCATAGTAAATTGGGTGAAGGATTTTGTTTCTTCTCTGTCCCAATACTACACCAAGAGCCACCCCACTAGCATCGCACATTACCTCAAATGGACTTTTCCAATCCGGAGAAATAATGATAGGTGCAGACACTAACTTCTCTTTTAGCTCACTGAATGCTTTAAGACAGGACTCATCAAAACAAAATTTACATTCTTTCTTCAGTAATTTGCACAATGGGTGTGCAATCTTTGAAAAGTCTTTGATGAATCTCCGATAAAAACCTGCATGCCCAAGAAAGCTTCTCACACCTTTCATAGAGATCGGTGGGGGAAGTCTCTCTATTACCTCAACTTTAGCTCGATCAACCTCTATTCCCTTTTCTGAAATGCGATGACCCAACACAATACCTTTTTTTACCATGAAATGACACTTTTCCCAGTTTAGTACCAGATTGCAGTCTTCACATCTCTTAAGAACCTCAGATTAATTGGTCAAGCATCGCTCAATTGAATCACCAACCACAGAAAAATCATCCATAAAAACCTCTATAGTATCCTCCACCATGTCAGAAAATATTGACATCATATATCTCTGAAAGGTTGCGGGTGCATTGCACAACCTAAATGGCATTCTTC</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="53951" PGL_stop="54665"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="53951" e_stop="54665"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.912"/>
        </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="0.912">
            <gDNA_exon_boundary e_start="53951" e_stop="54665" 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="53951" stop="54665"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E578039" 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>CGAGGGTCTTCGTTTCAAAACACTTCAACTCTTGGAATCTGGGTACTGGGATCACTTCTCTAAACTTCATGACGAACCTGCAGGACGGACCGTCGTAGCCACGACGACCGTCACAAGCTACGTAACCCCACACTTGGTCAGACATCCCCATTTTGCCTCAGCAACTTCTCTACGCTGCCACCTACGGACCGTCACAAGCACGACGGACCGTCATCAGCTCCGTAGGTGGTCTCTTCTGCATTTCTTCACTCAAAATCTCTACATTCAACTTTGGACAGATTTCCTGCAAAACAAAGAGAAACTCATATAAAAAATATAACAAAAAGACTTTCAGACACACTAAACATATGTTTAAAGTATTAATTATACCTTGAAACCACGGTATATCAACACCCTCAACTTAAATTCGTTGTTTGTCCTCAAGCGACGCACTATGACTCACTACACAATCTTTGTACAATGGTATTCATGTTTTATTCTTTGCAATCATTTGGCTATCAATCCCGATTAATCTCATCAAATCTATGCATGCTATCACTATTAGGCTTGAATTTTGTGGGATTAGAACATGACACAGACTCACCATGCACTAACACCTATCCTCTTCAATTTCTCACCAAGGTGCTAACAATTCCTGTATTGCATCTAGTGTCCTCACTTTAAAACAAAATCCTCATTTTTCACACAATGATTTCAGTTTGAGTATAAGGATTAC</gDNA_template>
            <first_frame> R  G  S  S  F  Q  N  T  S  T  L  G  I  W  V  L  G  S  L  L  *  T  S  *  R  T  C  R  T  D  R  R  S  H  D  D  R  H  K  L  R  N  P  T  L  G  Q  T  S  P  F  C  L  S  N  F  S  T  L  P  P  T  D  R  H  K  H  D  G  P  S  S  A  P  *  V  V  S  S  A  F  L  H  S  K  S  L  H  S  T  L  D  R  F  P  A  K  Q  R  E  T  H  I  K  N  I  T  K  R  L  S  D  T  L  N  I  C  L  K  Y  *  L  Y  L  E  T  T  V  Y  Q  H  P  Q  L  K  F  V  V  C  P  Q  A  T  H  Y  D  S  L  H  N  L  C  T  M  V  F  M  F  Y  S  L  Q  S  F  G  Y  Q  S  R  L  I  S  S  N  L  C  M  L  S  L  L  G  L  N  F  V  G  L  E  H  D  T  D  S  P  C  T  N  T  Y  P  L  Q  F  L  T  K  V  L  T  I  P  V  L  H  L  V  S  S  L  *  N  K  I  L  I  F  H  T  M  I  S  V  *  V  *  G  L  </first_frame>
            <second_frame>  E  G  L  R  F  K  T  L  Q  L  L  E  S  G  Y  W  D  H  F  S  K  L  H  D  E  P  A  G  R  T  V  V  A  T  T  T  V  T  S  Y  V  T  P  H  L  V  R  H  P  H  F  A  S  A  T  S  L  R  C  H  L  R  T  V  T  S  T  T  D  R  H  Q  L  R  R  W  S  L  L  H  F  F  T  Q  N  L  Y  I  Q  L  W  T  D  F  L  Q  N  K  E  K  L  I  *  K  I  *  Q  K  D  F  Q  T  H  *  T  Y  V  *  S  I  N  Y  T  L  K  P  R  Y  I  N  T  L  N  L  N  S  L  F  V  L  K  R  R  T  M  T  H  Y  T  I  F  V  Q  W  Y  S  C  F  I  L  C  N  H  L  A  I  N  P  D  *  S  H  Q  I  Y  A  C  Y  H  Y  *  A  *  I  L  W  D  *  N  M  T  Q  T  H  H  A  L  T  P  I  L  F  N  F  S  P  R  C  *  Q  F  L  Y  C  I  *  C  P  H  F  K  T  K  S  S  F  F  T  Q  *  F  Q  F  E  Y  K  D  Y </second_frame>
            <third_frame>   R  V  F  V  S  K  H  F  N  S  W  N  L  G  T  G  I  T  S  L  N  F  M  T  N  L  Q  D  G  P  S  *  P  R  R  P  S  Q  A  T  *  P  H  T  W  S  D  I  P  I  L  P  Q  Q  L  L  Y  A  A  T  Y  G  P  S  Q  A  R  R  T  V  I  S  S  V  G  G  L  F  C  I  S  S  L  K  I  S  T  F  N  F  G  Q  I  S  C  K  T  K  R  N  S  Y  K  K  Y  N  K  K  T  F  R  H  T  K  H  M  F  K  V  L  I  I  P  *  N  H  G  I  S  T  P  S  T  *  I  R  C  L  S  S  S  D  A  L  *  L  T  T  Q  S  L  Y  N  G  I  H  V  L  F  F  A  I  I  W  L  S  I  P  I  N  L  I  K  S  M  H  A  I  T  I  R  L  E  F  C  G  I  R  T  *  H  R  L  T  M  H  *  H  L  S  S  S  I  S  H  Q  G  A  N  N  S  C  I  A  S  S  V  L  T  L  K  Q  N  P  H  F  S  H  N  D  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="C04HBa0065J16.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="53952" stop="54260"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>306</number_coding_nucleotides>
                  <number_encoded_amino_acids>102</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EGLRFKTLQLLESGYWDHFSKLHDEPAGRTVVATTTVTSYVTPHLVRHPHFASATSLRCHLRTVTSTTDRHQLRRWSLLHFFTQNLYIQLWTDFLQNKEKLI*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0065J16.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="54314" stop="54613"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>297</number_coding_nucleotides>
                  <number_encoded_amino_acids>99</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LYLETTVYQHPQLKFVVCPQATHYDSLHNLCTMVFMFYSLQSFGYQSRLISSNLCMLSLLGLNFVGLEHDTDSPCTNTYPLQFLTKVLTIPVLHLVSSL*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0065J16.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="3"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="54076" stop="54324"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>246</number_coding_nucleotides>
                  <number_encoded_amino_acids>82</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>PHTWSDIPILPQQLLYAATYGPSQARRTVISSVGGLFCISSLKISTFNFGQISCKTKRNSYKKYNKKTFRHTKHMFKVLIIP*</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="61049" PGL_stop="61781"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="61049" e_stop="61781"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.921"/>
        </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="0.921">
            <gDNA_exon_boundary e_start="61049" e_stop="61781" e_length="733"/>
          </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="61049" stop="61781"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E577717" 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>CACTATAACTCTAGTACCTAGCAAATAGGAGCGAAATTTCTCAAAAGCAAAGACTACTGTAAGGAGTTCTTGCTCAGTCACTGTGTAGTTCTTCTGAGCTACATTTAGGGCTTTACTAGAATAGTAAATTGGGTGAAGGATTTTGTTTCTTCCTGTCCCAACACTACACTAAGAGCCACCCCACTAGCATTGCACATTACCTCAAATGGACTGTTCTAATCCAGAGAAATAATGATAGGCGCAGACACTAACTTTTCTATTAGCTCACCGAATGCTTTAAGACAGGATTCATCAAAACAAAATTTACGTTCTTTCTCCAGCAATTTGCACAATGGGTGTGCAATCATTGAAAAGTCTTTGATGAATCTCCGGTAAAAACCTACATGCGCAAGAAATATTCTCACACCTTTCACAGAGATCGGCGGGGGAAGTCTCTCTATTACCTCAACTTTAGCTCGATCAACCTCTATGCCCTTTTCTGAAATGTGATGACCCAACACAATACCCTCTTTCACCATGGAATGACAATTTTCCCAGTTTAGTACCAAATTGAAGTCTTCACATCTCTTAAGAACCCCAGATAAATTGGTCAATCACTGCTCGAATGAATCACCAACAACAAAAAAATCATCCATAAAAACTTTTGTAGTATCCTCCACCATGTCAGAAAATATTGACATCATACATCTCTGAAAGGTTGCGGGTGCATTGCACAACCCAAATGACATTCTTC</gDNA_template>
            <first_frame> H  Y  N  S  S  T  *  Q  I  G  A  K  F  L  K  S  K  D  Y  C  K  E  F  L  L  S  H  C  V  V  L  L  S  Y  I  *  G  F  T  R  I  V  N  W  V  K  D  F  V  S  S  C  P  N  T  T  L  R  A  T  P  L  A  L  H  I  T  S  N  G  L  F  *  S  R  E  I  M  I  G  A  D  T  N  F  S  I  S  S  P  N  A  L  R  Q  D  S  S  K  Q  N  L  R  S  F  S  S  N  L  H  N  G  C  A  I  I  E  K  S  L  M  N  L  R  *  K  P  T  C  A  R  N  I  L  T  P  F  T  E  I  G  G  G  S  L  S  I  T  S  T  L  A  R  S  T  S  M  P  F  S  E  M  *  *  P  N  T  I  P  S  F  T  M  E  *  Q  F  S  Q  F  S  T  K  L  K  S  S  H  L  L  R  T  P  D  K  L  V  N  H  C  S  N  E  S  P  T  T  K  K  S  S  I  K  T  F  V  V  S  S  T  M  S  E  N  I  D  I  I  H  L  *  K  V  A  G  A  L  H  N  P  N  D  I  L  </first_frame>
            <second_frame>  T  I  T  L  V  P  S  K  *  E  R  N  F  S  K  A  K  T  T  V  R  S  S  C  S  V  T  V  *  F  F  *  A  T  F  R  A  L  L  E  *  *  I  G  *  R  I  L  F  L  P  V  P  T  L  H  *  E  P  P  H  *  H  C  T  L  P  Q  M  D  C  S  N  P  E  K  *  *  *  A  Q  T  L  T  F  L  L  A  H  R  M  L  *  D  R  I  H  Q  N  K  I  Y  V  L  S  P  A  I  C  T  M  G  V  Q  S  L  K  S  L  *  *  I  S  G  K  N  L  H  A  Q  E  I  F  S  H  L  S  Q  R  S  A  G  E  V  S  L  L  P  Q  L  *  L  D  Q  P  L  C  P  F  L  K  C  D  D  P  T  Q  Y  P  L  S  P  W  N  D  N  F  P  S  L  V  P  N  *  S  L  H  I  S  *  E  P  Q  I  N  W  S  I  T  A  R  M  N  H  Q  Q  Q  K  N  H  P  *  K  L  L  *  Y  P  P  P  C  Q  K  I  L  T  S  Y  I  S  E  R  L  R  V  H  C  T  T  Q  M  T  F  F </second_frame>
            <third_frame>   L  *  L  *  Y  L  A  N  R  S  E  I  S  Q  K  Q  R  L  L  *  G  V  L  A  Q  S  L  C  S  S  S  E  L  H  L  G  L  Y  *  N  S  K  L  G  E  G  F  C  F  F  L  S  Q  H  Y  T  K  S  H  P  T  S  I  A  H  Y  L  K  W  T  V  L  I  Q  R  N  N  D  R  R  R  H  *  L  F  Y  *  L  T  E  C  F  K  T  G  F  I  K  T  K  F  T  F  F  L  Q  Q  F  A  Q  W  V  C  N  H  *  K  V  F  D  E  S  P  V  K  T  Y  M  R  K  K  Y  S  H  T  F  H  R  D  R  R  G  K  S  L  Y  Y  L  N  F  S  S  I  N  L  Y  A  L  F  *  N  V  M  T  Q  H  N  T  L  F  H  H  G  M  T  I  F  P  V  *  Y  Q  I  E  V  F  T  S  L  K  N  P  R  *  I  G  Q  S  L  L  E  *  I  T  N  N  K  K  I  I  H  K  N  F  C  S  I  L  H  H  V  R  K  Y  *  H  H  T  S  L  K  G  C  G  C  I  A  Q  P  K  *  H  S   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C04HBa0065J16.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 69 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
$ 82 backtrace matrices have been allocated
$ 
$ date finished: 2009-01-15 17:24:08
-->
