<?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="2009-12-03 20:44:11"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C01HBa0126F09-9tFgM/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C01HBa0126F09-9tFgM/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" type="ESTcDNA"/>
    </reference_files>
    <splice_site_parameters parameter_type="Bayesian" species="arabidopsis"/>
    <parameters>
      <parameter name="bssmfile" value="arabidopsis"/>
      <parameter name="scorematrixfile" value="BLOSUM62"/>
      <parameter name="searchmode" value="forward=True,reverse=True)"/>
      <parameter name="translationtable" value="1"/>
      <parameter name="frompos" value="0"/>
      <parameter name="topos" value="0"/>
      <parameter name="width" value="0"/>
      <parameter name="verbose" value="False"/>
      <parameter name="skipalignmentout" value="False"/>
      <parameter name="showintronmaxlen" value="120"/>
      <parameter name="minorflen" value="64"/>
      <parameter name="showseqnums" value="False"/>
      <parameter name="gs2out" value="False"/>
      <parameter name="maskpolyatails" value="False"/>
      <parameter name="noautoindex" value="False"/>
      <parameter name="minmatchlen" value="20"/>
      <parameter name="seedlength" value="16"/>
      <parameter name="exdrop" value="2"/>
      <parameter name="online" value="False"/>
      <parameter name="inverse" value="False"/>
      <parameter name="exact" value="False"/>
      <parameter name="chainwf" value="0.500000"/>
      <parameter name="gcmaxgapwidth" value="1000000"/>
      <parameter name="gcmincoverage" value="50"/>
      <parameter name="introncutout" value="False"/>
      <parameter name="autointroncutout" value="0"/>
      <parameter name="icinitialdelta" value="50"/>
      <parameter name="iciterations" value="2"/>
      <parameter name="icdeltaincrease" value="50"/>
      <parameter name="icminremintronlen" value="10"/>
      <parameter name="nou12intronmodel" value="False"/>
      <parameter name="u12donorprob" value="0.990000"/>
      <parameter name="u12donorprob1mism" value="0.900000"/>
      <parameter name="probies" value="0.500000"/>
      <parameter name="probdelgen" value="0.030000"/>
      <parameter name="identityweight" value="2.000000"/>
      <parameter name="mismatchweight" value="-2.000000"/>
      <parameter name="undetcharweight" value="0.000000"/>
      <parameter name="deletionweight" value="-4.000000"/>
      <parameter name="dpminexonlen" value="5"/>
      <parameter name="dpminintronlen" value="50"/>
      <parameter name="shortexonpenal" value="100"/>
      <parameter name="shortintronpenal" value="100"/>
      <parameter name="wzerotransition" value="80"/>
      <parameter name="wdecreasedoutput" value="80"/>
      <parameter name="leadcutoffsmode" value="RELAXED"/>
      <parameter name="termcutoffsmode" value="STRICT"/>
      <parameter name="cutoffsminexonlen" value="5"/>
      <parameter name="scoreminexonlen" value="50"/>
      <parameter name="minaveragessp" value="0.500000"/>
      <parameter name="minalignmentscore" value="0.900000"/>
      <parameter name="maxalignmentscore" value="1.000000"/>
      <parameter name="mincoverage" value="0.900000"/>
      <parameter name="maxcoverage" value="100.000000"/>
      <parameter name="intermediate" value="False"/>
      <parameter name="sortags" value="False"/>
      <parameter name="sortagswf" value="1.000000"/>
      <parameter name="first" value="0"/>
      <parameter name="exondistri" value="False"/>
      <parameter name="introndistri" value="False"/>
      <parameter name="refseqcovdistri" value="False"/>
    </parameters>
    <overall_reference_type>ESTcDNA</overall_reference_type>
  </header>
  <alignment_module>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C01HBa0126F09-9tFgM/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="C2_At3g17020" ref_strand="+" ref_description="C2_At3g17020">
      <seq>cttgagtacttttcctcttatttcttcttcttcatcattccattttgaagtagtcctgacccaattgctctctctatcactattgatttttcaaaaactgtttaaccaaagcaaaatcttggagttggaggtatggaaggaggtggtagatttgttggggtagcagtcgatttctcagcatgcagcaacaaagctctgaaatgggccattgataacattcttcgtaaaggggatcatcttattctcgttactgttcgccctgaaggacactatgaagaaggcgagatgcagctctgggaggctactggttctcctttaattcctttatctgagatatgtgatggtcacacaatgaagaggtatggggttaaccctgaccctgaaacattgcaaatgataacccttgccgctaggcaaatggagattacagtagtcatgaaaattttctggggagatgcccgagagaagttatgtgaagcaattgacaaaactcccttgagctgtctggtcatagggaacagagggcttggaaagatcaagagggctattatgggcagtgtaagcaactatgtggtgaataatgctacgtgccctgttactgttgtgaagaaagcagaagactaatttcacaatgttcagaactccttactgggaaagctgaaaacttatgataaattaattgtctgttttctaagcttggtgtcggatcaaacttctatcttatcgtgaacattgaatatgttgatgtgtgtattgtgtaccgtcatgttgaacctctgtaattcctgtcactatggattgctgcagtaaataaacttttttcgactccttcaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0126F09-9tFgM/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C01HBa0126F09.1" temp_strand="-" temp_description="C01HBa0126F09.1  AC238908.3 htgs_phase:1 submitted_to_sgn_as:C01HBa0126F09 upload_account_name:manual">
        <position start="7031" stop="3915"/>
      </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="6726" g_stop="6471" g_length="256"/>
          <reference_exon_boundary r_type="cDNA" r_start="61" r_stop="313" r_length="253" r_score="0.945"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="6470" i_stop="5153" i_length="1318">
            <donor d_prob="0.999" d_score="0.96"/>
            <acceptor a_prob="0.992" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="5152" g_stop="5043" g_length="110"/>
          <reference_exon_boundary r_type="cDNA" r_start="314" r_stop="423" r_length="110" r_score="0.955"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="5042" i_stop="4954" i_length="89">
            <donor d_prob="0.982" d_score="0.96"/>
            <acceptor a_prob="0.165" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="4953" g_stop="4835" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="424" r_stop="542" r_length="119" r_score="0.975"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="4834" i_stop="4518" i_length="317">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.965" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="4517" g_stop="4209" g_length="309"/>
          <reference_exon_boundary r_type="cDNA" r_start="543" r_stop="840" r_length="298" r_score="0.896"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0126F09.1" gen_strand="-" ref_id="C2_At3g17020" ref_strand="+">
        <total_alignment_score>0.932</total_alignment_score>
        <cumulative_length_of_scored_exons>794</cumulative_length_of_scored_exons>
        <coverage percentage="0.945" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0126F09.1" gen_strand="-"/>
        <rDNA rDNA_id="C2_At3g17020" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="6726" e_stop="6471"/>
          <exon e_start="5152" e_stop="5043"/>
          <exon e_start="4953" e_stop="4835"/>
          <exon e_start="4517" e_stop="4209"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCAATTGCTCTCTCTATCACTATATTGGTTTTTCAAGAAACTGTTTAACCAAGCAAAAATCTTGGAGTTGTAGGTATGGAAGGAGGTGGTAGATTTGTTGGGGTAGCAGTCGATTTCTCAGCTTGCAGCAACAAAGCTCTGAAATGGGCCATTGATAATATTCTTCGTAAAGGGGATCATCTTATTCTCGTCACTGTTCGTCCTGAAGGACACTATGAAGAAGGAGAGATGCAGCTCTGGGAGGCCACTGGTTCTCGTATGCCATCATCTCTACATTTATATATGTATTATTTGTTATATTGGTCATCTAAACTTGTTCTATGTGGGCTTTGCAAAGTATACCTGTCTAGGTAAATTAGGAGGATTGCGAGCAGTTAGGTGAAATAGGAATTGATCATCTAGGTCATATCTTATGAGCCACTTTTTCTATTCGATATCATCAACCTGAATGAATATACATAAGTAGATAAAAGAGGCGGAGTTAGAATTTCAACTTTATGGGTTCTAGAATGACTACTTTGATTGCTAATAATTGAGTTCTAAATTTAATATTTAACGACTTTCTTAATCTAGATACACTGTTTGAGCAGAAGCTACTGGTTTGGGGAACCTGTATATGAGCTTCTAGTTCCGCCCATGAGTAGATTACAATCTTTGTTGTGTCCTGCTATATTCTTAATCTATTTGAGTGGCGGCTTTTTGTAGCTACTAGTTCTACTTCATAGTGCTTTAAAGGTTCAATTCTCTATGGTGAAGTACCTAGAAATATATCTGTTTGTTTTGCCATTGTTGGTTACATGTCATAGACATACGGACTCTGGTGAATGGAAAGGGTTAAATACACGTCTACGTATGGGGAGTTGTTTATGTTCGTTAAAGAACAGACTTACATACGTAGAGTTTCATCATCAGGATTGAAGATGCAGCTCATGTTTTTTTGAGTTTCATAGAGAACCCAATCCGTGTCATATAGAGACATTACAAGTGTTTATTTTGGGAATTTCTTCTTGGTTGTAAGAGGGGATAGGAAACTAGATTGCATTAGGAGAATGTATAGATGTGAAGTCTTAACAGTTACTTATATTAATATACCTTAAAGGGTGTGTTCAGTATGAAGGAAAATGCATTTCTCTAGGAAAAGTAATGAATTTCTTACTTTCATTTTTTTCTTTTTTGGTGTTCAGTATGCAAAGTATTATCCTAAAATCATTTGTACGTATATGATCTAGACAAACACTATGTGAGGTGGGTAGGGGGATAAGTGCGATGAGGTAAAGTGAATATGAGGAACTTATTTTCCTAGAGAAAATGAGTTCTTAGGAATTTGACCAACCAAACATGTGAAAATTGGAACACACCCAAAGTGTTAAATCATCTAATTCATGCTTGCACCCATCTTTATTTACGAATAACTTTTTTGATGTGTCTAGGTGCAAGAGTTGTAGTAGCTTTGTAAGAATTGTAGTAGTGAAAGCATGTCACCTTGGGCTTGTGTTACTGGTAAAATATGTGATATTTGATTAGTGAGATTCCATCTTCTGATACATCTTTTGAGATTCATTTTTTTGTTGCAGCTTTAATACCTTTATCAGAGATATGTGATGGCCACACAATGAAGAGGTATGGGGTTAACCCTGACCCTGAAACATTGCAAATGATAACCCTTGCAGCTAGGCAGATGGAGGTGATATTTTCTCTTCTTTTATGAGATCCAGTTTTTCTCAGGAAGCATACTAGATCAAGTATTCTTACGAGATTACTCTTTATTAGCAGATCACAGTAGTCATGAAAATTTTCTGGGGAGATGCTCGAGAGAAGTTATGTGAAGCAATTGATAAAACTCCCTTGAGCTGTCTGGTCATAGGGAACAGAGGGCTTGGAAAGATCAAGAGGTCTGATCTTTTTCTAGAATTCCTTTTGCAATTGAATATCCTGTTGTATATCAAATTTCCTATCAGTTACTTCGCTGTTTTTTCTTTTGCAACTATTGCGGAGAACTGAAGCTTTGGTTGCATTTATTCCTTGACAAAGCTACTAGATTCGATGTGTATTTACGTAGCATGAGTGAACTTTGAATCTGTCTGCAGATATTACTCGAGTGAAATTTCATAAATATCTCATAATCATTTAGCAATTTTCATTACTACGTCTGCTCGAAATAAAGGGAATAGTCTAACTTATAGTTCTTCCTCCTTTTGCATCTTTACAGGGTTATTATGGGCAGTGTAAGCAACTATGTGGTGAATAATGCTACGTGCCCTGTTACTGTTGTGAAGAATGCAGAAGACTAATTTTACAATGTGCGGAACTCCTTAACTGGCAAAAAGCTAAAGGCTTTTATGTTAAATTAGTCGCTTCTGTTTTTTACTAAGCTTGGTGTCGGATTAAACTTCTATCTTATCGTGAACATTGAACATGTTGATGTGTGTATTGTGTACCATCATGTTGAACCTCTGTAATTCCTGTCACTATGGATTGCTGCAGTAAATAAACTTTTTTCGAACTCCTTCAATCTGGC</genome_strand>
        <mrna_strand>CCAATTGCTCTCTCTATCAC--TATTGATTTTTCAA-AAACTGTTTAACCAAAGCAAAATCTTGGAGTTGGAGGTATGGAAGGAGGTGGTAGATTTGTTGGGGTAGCAGTCGATTTCTCAGCATGCAGCAACAAAGCTCTGAAATGGGCCATTGATAACATTCTTCGTAAAGGGGATCATCTTATTCTCGTTACTGTTCGCCCTGAAGGACACTATGAAGAAGGCGAGATGCAGCTCTGGGAGGCTACTGGTTCTC......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTTAATTCCTTTATCTGAGATATGTGATGGTCACACAATGAAGAGGTATGGGGTTAACCCTGACCCTGAAACATTGCAAATGATAACCCTTGCCGCTAGGCAAATGGAG.........................................................................................ATTACAGTAGTCATGAAAATTTTCTGGGGAGATGCCCGAGAGAAGTTATGTGAAGCAATTGACAAAACTCCCTTGAGCTGTCTGGTCATAGGGAACAGAGGGCTTGGAAAGATCAAGAG.............................................................................................................................................................................................................................................................................................................................GGCTATTATGGGCAGTGTAAGCAACTATGTGGTGAATAATGCTACGTGCCCTGTTACTGTTGTGAAGAAAGCAGAAGACTAATTTCACAATGTTCAGAACTCCTT-ACTGG--GAAAGCTGAAAAC--TTATGATAAATTAATTG--TCTG--TTTT-CTAAGCTTGGTGTCGGATCAAACTTCTATCTTATCGTGAACATTGAATATGTTGATGTGTGTATTGTGTACCGTCATGTTGAACCTCTGTAATTCCTGTCACTATGGATTGCTGCAGTAAATAAACTTTTTTCG-ACTCCTTCAAAAAAAA</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-C01HBa0126F09-9tFgM/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="T0525" ref_strand="+" ref_description="T0525">
      <seq>gctctctctatcactatattggtttttcaagaaactgtttaaccaagcaaaaatcttggagttgtaggtatggaaggaggtggtagatttgttggggtagcagtcgatttctcagcttgcagcaacaaagctctgaaatgggccattgataatattcttcgtaaaggggatcatcttattctcgtcactgttcgtcctgaaggacactatgaagaaggagagatgcagctctgggaggccactggttctcctttaatacctttatcagagatatgtgatggccacacaatgaagaggtatggggttaaccctgaccctgaaacattgcaaatgataacccttgcagctaggcagatggagatcacagtagtcatgaaaattttctggggagatgctcgagagaagttatgtgaagcaattgataaaactcccttga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0126F09-9tFgM/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C01HBa0126F09.1" temp_strand="-" temp_description="C01HBa0126F09.1  AC238908.3 htgs_phase:1 submitted_to_sgn_as:C01HBa0126F09 upload_account_name:manual">
        <position start="7020" stop="4578"/>
      </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="6720" g_stop="6471" g_length="250"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="250" r_length="250" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="6470" i_stop="5153" i_length="1318">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="5152" g_stop="5043" g_length="110"/>
          <reference_exon_boundary r_type="cDNA" r_start="251" r_stop="360" r_length="110" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="5042" i_stop="4954" i_length="89">
            <donor d_prob="0.982" d_score="1.00"/>
            <acceptor a_prob="0.165" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="4953" g_stop="4878" g_length="76"/>
          <reference_exon_boundary r_type="cDNA" r_start="361" r_stop="436" r_length="76" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0126F09.1" gen_strand="-" ref_id="T0525" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>436</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0126F09.1" gen_strand="-"/>
        <rDNA rDNA_id="T0525" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="6720" e_stop="6471"/>
          <exon e_start="5152" e_stop="5043"/>
          <exon e_start="4953" e_stop="4878"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTCTCTCTATCACTATATTGGTTTTTCAAGAAACTGTTTAACCAAGCAAAAATCTTGGAGTTGTAGGTATGGAAGGAGGTGGTAGATTTGTTGGGGTAGCAGTCGATTTCTCAGCTTGCAGCAACAAAGCTCTGAAATGGGCCATTGATAATATTCTTCGTAAAGGGGATCATCTTATTCTCGTCACTGTTCGTCCTGAAGGACACTATGAAGAAGGAGAGATGCAGCTCTGGGAGGCCACTGGTTCTCGTATGCCATCATCTCTACATTTATATATGTATTATTTGTTATATTGGTCATCTAAACTTGTTCTATGTGGGCTTTGCAAAGTATACCTGTCTAGGTAAATTAGGAGGATTGCGAGCAGTTAGGTGAAATAGGAATTGATCATCTAGGTCATATCTTATGAGCCACTTTTTCTATTCGATATCATCAACCTGAATGAATATACATAAGTAGATAAAAGAGGCGGAGTTAGAATTTCAACTTTATGGGTTCTAGAATGACTACTTTGATTGCTAATAATTGAGTTCTAAATTTAATATTTAACGACTTTCTTAATCTAGATACACTGTTTGAGCAGAAGCTACTGGTTTGGGGAACCTGTATATGAGCTTCTAGTTCCGCCCATGAGTAGATTACAATCTTTGTTGTGTCCTGCTATATTCTTAATCTATTTGAGTGGCGGCTTTTTGTAGCTACTAGTTCTACTTCATAGTGCTTTAAAGGTTCAATTCTCTATGGTGAAGTACCTAGAAATATATCTGTTTGTTTTGCCATTGTTGGTTACATGTCATAGACATACGGACTCTGGTGAATGGAAAGGGTTAAATACACGTCTACGTATGGGGAGTTGTTTATGTTCGTTAAAGAACAGACTTACATACGTAGAGTTTCATCATCAGGATTGAAGATGCAGCTCATGTTTTTTTGAGTTTCATAGAGAACCCAATCCGTGTCATATAGAGACATTACAAGTGTTTATTTTGGGAATTTCTTCTTGGTTGTAAGAGGGGATAGGAAACTAGATTGCATTAGGAGAATGTATAGATGTGAAGTCTTAACAGTTACTTATATTAATATACCTTAAAGGGTGTGTTCAGTATGAAGGAAAATGCATTTCTCTAGGAAAAGTAATGAATTTCTTACTTTCATTTTTTTCTTTTTTGGTGTTCAGTATGCAAAGTATTATCCTAAAATCATTTGTACGTATATGATCTAGACAAACACTATGTGAGGTGGGTAGGGGGATAAGTGCGATGAGGTAAAGTGAATATGAGGAACTTATTTTCCTAGAGAAAATGAGTTCTTAGGAATTTGACCAACCAAACATGTGAAAATTGGAACACACCCAAAGTGTTAAATCATCTAATTCATGCTTGCACCCATCTTTATTTACGAATAACTTTTTTGATGTGTCTAGGTGCAAGAGTTGTAGTAGCTTTGTAAGAATTGTAGTAGTGAAAGCATGTCACCTTGGGCTTGTGTTACTGGTAAAATATGTGATATTTGATTAGTGAGATTCCATCTTCTGATACATCTTTTGAGATTCATTTTTTTGTTGCAGCTTTAATACCTTTATCAGAGATATGTGATGGCCACACAATGAAGAGGTATGGGGTTAACCCTGACCCTGAAACATTGCAAATGATAACCCTTGCAGCTAGGCAGATGGAGGTGATATTTTCTCTTCTTTTATGAGATCCAGTTTTTCTCAGGAAGCATACTAGATCAAGTATTCTTACGAGATTACTCTTTATTAGCAGATCACAGTAGTCATGAAAATTTTCTGGGGAGATGCTCGAGAGAAGTTATGTGAAGCAATTGATAAAACTCCCTTGA</genome_strand>
        <mrna_strand>GCTCTCTCTATCACTATATTGGTTTTTCAAGAAACTGTTTAACCAAGCAAAAATCTTGGAGTTGTAGGTATGGAAGGAGGTGGTAGATTTGTTGGGGTAGCAGTCGATTTCTCAGCTTGCAGCAACAAAGCTCTGAAATGGGCCATTGATAATATTCTTCGTAAAGGGGATCATCTTATTCTCGTCACTGTTCGTCCTGAAGGACACTATGAAGAAGGAGAGATGCAGCTCTGGGAGGCCACTGGTTCTC......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTTAATACCTTTATCAGAGATATGTGATGGCCACACAATGAAGAGGTATGGGGTTAACCCTGACCCTGAAACATTGCAAATGATAACCCTTGCAGCTAGGCAGATGGAG.........................................................................................ATCACAGTAGTCATGAAAATTTTCTGGGGAGATGCTCGAGAGAAGTTATGTGAAGCAATTGATAAAACTCCCTTGA</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-C01HBa0126F09-9tFgM/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_markers" ref_id="C2_At5g49400" ref_strand="+" ref_description="C2_At5g49400">
      <seq>cttcgcttcatcttcatcagatttgtttggttactggtatagattaacgtaaactcaaaaagggacttctctttgttgagagccaagattatggcatcctctaagaatgaagaaagtggtgctcaggatgcagcagaaaggattaaggctgcagccttgtcagctgcaaaaggtttgagtcgtgctcaggctgagcgtgctgctactgctgctgctagaaatgtcaatgcatatggccaaaaggaagaaggacccagccgatggcaggaaagaaaagaagcaaagaggcagatgtatttaatgagtactgagaaacaggtgcgactgggtgaaaggaaagacaagccttcaggttccactcctgttgcagcttcacaatgtcagaaatgtttccaggcagggcactggacttatgagtgcaagaatgagagggtgtacatatcacgaccatctcgcacgcagcagctgaaaaatcccaagttgaggatgaaagtttcagtatcttctgatctagaaaacccagatattgagaaggagatgaagagtgaaaaacctgtgaagaagagtaagaggaagcataagtcagatacagagtcagggactgatagtgaggcttcagtgtttgaatctggcagtgaggcgtcatcagtcacagggtcagattattcttctggggagagtgactcaagcgacagttcttcaactgattcagaggaagagaggatgaggaagaggaagaacaagaagaagaagcagcagaagaagagaagacaccggaaatacagctcaacatctgagtcctctgattcatactcagattccgggtctgattctgaagggaggactagccgtaagaagagcagcaagagacatagcaaaaagcggtgaagcattgaacaagatgagaactccatatgtggtatctggtccttaaaacttgaaaatattcatatttatgttctattgtgataaaagatcttttgagcgatgcacttaagataactaggattttcctgtctcgaatgaattatggttttgtagattgtcataagcttatgttgtggctgtagaattcaatgtggcaagagttgtctcttgtattaaatttttccatgtgctagcttactcattaaaaaaaaaaaaaaaaaaaaaaaactcgagactagttctctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0126F09-9tFgM/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C01HBa0126F09.1" temp_strand="+" temp_description="C01HBa0126F09.1  AC238908.3 htgs_phase:1 submitted_to_sgn_as:C01HBa0126F09 upload_account_name:manual">
        <position start="118878" stop="120574"/>
      </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="119179" g_stop="120273" g_length="1095"/>
          <reference_exon_boundary r_type="cDNA" r_start="30" r_stop="1135" r_length="1106" r_score="0.943"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="1136" polyA_stop="1156"/>
      <MATCH_line gen_id="C01HBa0126F09.1" gen_strand="+" ref_id="C2_At5g49400" ref_strand="+">
        <total_alignment_score>0.943</total_alignment_score>
        <cumulative_length_of_scored_exons>1095</cumulative_length_of_scored_exons>
        <coverage percentage="0.934" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0126F09.1" gen_strand="+"/>
        <rDNA rDNA_id="C2_At5g49400" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="119179" e_stop="120273"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTGCTGGTATAGATTAACATAAACTCAAAGAGGGGACTTCTCTTTGTTGAGAGCCAAGATTATGGCATCCTCTAAGAATGAAGAAAGTGGTGCTCAGGATGCAGCAGAAAGGATTAAGGCTCAGGCCTTGTCAGCTGCAAAAGGTTTGAGTCGGGCTCAGGCTGAGCGTGCTGCTACTGCTGCTGCGAGAAATGTCAATGCATATGGACAAAAGGAGGAAGGACCCAGTCGATGGCAGGAAAGAAAAGAAGCAAAGAGGCAGATGTATTTAATGAGTACTGAGAAACAGGTGCGACTGGGTGAAAGGAAAGACAAGCCTTCAGGTTCCACTCTTGGTGCAGCTTCACAATGTCAGAAATGTTTCCAGGCAGGGCATTGGACTTATGAGTGCAAGAATGAGAGGGTGTACATATCACGACCATCTCGCACGCAGCAGCTGAAAAATCCAAAGTTGAGGATGAAAGTTTCAGCATCTTATGATCTAGAAAACCCAGATATTGAGAAGGAGATGAAGAGTGAAAAACCTGTGAAGAAGAGTAAGAGGAAGCATAAGTCAGATACAGAGTCAGGGACTGATAGTGAGGCTTCTGTGTTTGAATCTGGCAGTGAGGCGTCATCAGTCACAGGGTCAGATTATTCTTCTGGGGAAAGTGACTCAAGCGATAGTTCTTCAACTGATTCAGAGGAAGAGAGGAGGAGGAAGAGGAAGAACAAGAAGAAGAAGAAGCAGAAGAAGAGGAGACACCGGAAATACAGCTCAACATCTGAGTCCTCTGATTCATACTCAGATTCCGAGTCTGATTCTGAAGGGAGGACTAGCCGTAAGAAGAGCAGCAAGAGGCATAACAAAAAGCGGTGAAGCATTGGACAAGATGAGAACTCCATATGTGGTACCTGGTTCTTAAAACTTGAAAATATTCATATTTATG---T-TTGTGATAAAAGATCTTTTGAGCGATGCACTTAAGATAACTGGGATTTTCCTGTCTC-----AA--A-GGTTTTGTAGATTGTCATAAGCTTATGTTGTGGCTGTAGAATTCAATGTGGCGAGAGTTGTCTCTTGTATTGAATTTTTTCATGTGCTAGCTTGCTCATTTACA</genome_strand>
        <mrna_strand>GTTACTGGTATAGATTAACGTAAACTCAAA-AAGGGACTTCTCTTTGTTGAGAGCCAAGATTATGGCATCCTCTAAGAATGAAGAAAGTGGTGCTCAGGATGCAGCAGAAAGGATTAAGGCTGCAGCCTTGTCAGCTGCAAAAGGTTTGAGTCGTGCTCAGGCTGAGCGTGCTGCTACTGCTGCTGCTAGAAATGTCAATGCATATGGCCAAAAGGAAGAAGGACCCAGCCGATGGCAGGAAAGAAAAGAAGCAAAGAGGCAGATGTATTTAATGAGTACTGAGAAACAGGTGCGACTGGGTGAAAGGAAAGACAAGCCTTCAGGTTCCACTCCTGTTGCAGCTTCACAATGTCAGAAATGTTTCCAGGCAGGGCACTGGACTTATGAGTGCAAGAATGAGAGGGTGTACATATCACGACCATCTCGCACGCAGCAGCTGAAAAATCCCAAGTTGAGGATGAAAGTTTCAGTATCTTCTGATCTAGAAAACCCAGATATTGAGAAGGAGATGAAGAGTGAAAAACCTGTGAAGAAGAGTAAGAGGAAGCATAAGTCAGATACAGAGTCAGGGACTGATAGTGAGGCTTCAGTGTTTGAATCTGGCAGTGAGGCGTCATCAGTCACAGGGTCAGATTATTCTTCTGGGGAGAGTGACTCAAGCGACAGTTCTTCAACTGATTCAGAGGAAGAGAGGATGAGGAAGAGGAAGAACAAGAAGAAGAAGCAGCAGAAGAAGAGAAGACACCGGAAATACAGCTCAACATCTGAGTCCTCTGATTCATACTCAGATTCCGGGTCTGATTCTGAAGGGAGGACTAGCCGTAAGAAGAGCAGCAAGAGACATAGCAAAAAGCGGTGAAGCATTGAACAAGATGAGAACTCCATATGTGGTATCTGGTCCTTAAAACTTGAAAATATTCATATTTATGTTCTATTGTGATAAAAGATCTTTTGAGCGATGCACTTAAGATAACTAGGATTTTCCTGTCTCGAATGAATTATGGTTTTGTAGATTGTCATAAGCTTATGTTGTGGCTGTAGAATTCAATGTGGCAAGAGTTGTCTCTTGTATTAAATTTTTCCATGTGCTAGCTTACTCATTAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>3</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="6726" PGL_stop="4209"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="6726" e_stop="6471"/>
            <exon e_start="5152" e_stop="5043"/>
            <exon e_start="4953" e_stop="4835"/>
            <exon e_start="4517" e_stop="4209"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.999" acc_prob="0.992" e_score="1.000"/>
          <exon-intron don_prob="0.982" acc_prob="0.165" e_score="1.000"/>
          <exon-intron don_prob="0.994" acc_prob="0.965" e_score="0.975"/>
          <exon-only e_score="0.896"/>
        </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="6726" e_stop="6471" e_length="256"/>
          </exon>
          <intron i_serial="1" don_prob="0.999" acc_prob="0.992">
            <gDNA_intron_boundary i_start="6470" i_stop="5153" i_length="1318"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="5152" e_stop="5043" e_length="110"/>
          </exon>
          <intron i_serial="2" don_prob="0.982" acc_prob="0.165">
            <gDNA_intron_boundary i_start="5042" i_stop="4954" i_length="89"/>
          </intron>
          <exon e_serial="3" e_score="0.975">
            <gDNA_exon_boundary e_start="4953" e_stop="4835" e_length="119"/>
          </exon>
          <intron i_serial="3" don_prob="0.994" acc_prob="0.965">
            <gDNA_intron_boundary i_start="4834" i_stop="4518" i_length="317"/>
          </intron>
          <exon e_serial="4" e_score="0.896">
            <gDNA_exon_boundary e_start="4517" e_stop="4209" e_length="309"/>
          </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="6726" stop="6471"/>
              <exon start="5152" stop="5043"/>
              <exon start="4953" stop="4835"/>
              <exon start="4517" stop="4209"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="C2_At3g17020" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6720" stop="6471"/>
              <exon start="5152" stop="5043"/>
              <exon start="4953" stop="4878"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="T0525" 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>CCAATTGCTCTCTCTATCACTATATTGGTTTTTCAAGAAACTGTTTAACCAAGCAAAAATCTTGGAGTTGTAGGTATGGAAGGAGGTGGTAGATTTGTTGGGGTAGCAGTCGATTTCTCAGCTTGCAGCAACAAAGCTCTGAAATGGGCCATTGATAATATTCTTCGTAAAGGGGATCATCTTATTCTCGTCACTGTTCGTCCTGAAGGACACTATGAAGAAGGAGAGATGCAGCTCTGGGAGGCCACTGGTTCTC : CTTTAATACCTTTATCAGAGATATGTGATGGCCACACAATGAAGAGGTATGGGGTTAACCCTGACCCTGAAACATTGCAAATGATAACCCTTGCAGCTAGGCAGATGGAG : ATCACAGTAGTCATGAAAATTTTCTGGGGAGATGCTCGAGAGAAGTTATGTGAAGCAATTGATAAAACTCCCTTGAGCTGTCTGGTCATAGGGAACAGAGGGCTTGGAAAGATCAAGAG : GGTTATTATGGGCAGTGTAAGCAACTATGTGGTGAATAATGCTACGTGCCCTGTTACTGTTGTGAAGAATGCAGAAGACTAATTTTACAATGTGCGGAACTCCTTAACTGGCAAAAAGCTAAAGGCTTTTATGTTAAATTAGTCGCTTCTGTTTTTTACTAAGCTTGGTGTCGGATTAAACTTCTATCTTATCGTGAACATTGAACATGTTGATGTGTGTATTGTGTACCATCATGTTGAACCTCTGTAATTCCTGTCACTATGGATTGCTGCAGTAAATAAACTTTTTTCGAACTCCTTCAATCTGGC</gDNA_template>
            <first_frame> P  I  A  L  S  I  T  I  L  V  F  Q  E  T  V  *  P  S  K  N  L  G  V  V  G  M  E  G  G  G  R  F  V  G  V  A  V  D  F  S  A  C  S  N  K  A  L  K  W  A  I  D  N  I  L  R  K  G  D  H  L  I  L  V  T  V  R  P  E  G  H  Y  E  E  G  E  M  Q  L  W  E  A  T  G  S   : P  L  I  P  L  S  E  I  C  D  G  H  T  M  K  R  Y  G  V  N  P  D  P  E  T  L  Q  M  I  T  L  A  A  R  Q  M  E  :  I  T  V  V  M  K  I  F  W  G  D  A  R  E  K  L  C  E  A  I  D  K  T  P  L  S  C  L  V  I  G  N  R  G  L  G  K  I  K  R :   V  I  M  G  S  V  S  N  Y  V  V  N  N  A  T  C  P  V  T  V  V  K  N  A  E  D  *  F  Y  N  V  R  N  S  L  T  G  K  K  L  K  A  F  M  L  N  *  S  L  L  F  F  T  K  L  G  V  G  L  N  F  Y  L  I  V  N  I  E  H  V  D  V  C  I  V  Y  H  H  V  E  P  L  *  F  L  S  L  W  I  A  A  V  N  K  L  F  S  N  S  F  N  L   </first_frame>
            <second_frame>  Q  L  L  S  L  S  L  Y  W  F  F  K  K  L  F  N  Q  A  K  I  L  E  L  *  V  W  K  E  V  V  D  L  L  G  *  Q  S  I  S  Q  L  A  A  T  K  L  *  N  G  P  L  I  I  F  F  V  K  G  I  I  L  F  S  S  L  F  V  L  K  D  T  M  K  K  E  R  C  S  S  G  R  P  L  V  L  :  L  *  Y  L  Y  Q  R  Y  V  M  A  T  Q  *  R  G  M  G  L  T  L  T  L  K  H  C  K  *  *  P  L  Q  L  G  R  W  R :   S  Q  *  S  *  K  F  S  G  E  M  L  E  R  S  Y  V  K  Q  L  I  K  L  P  *  A  V  W  S  *  G  T  E  G  L  E  R  S  R   : G  L  L  W  A  V  *  A  T  M  W  *  I  M  L  R  A  L  L  L  L  *  R  M  Q  K  T  N  F  T  M  C  G  T  P  *  L  A  K  S  *  R  L  L  C  *  I  S  R  F  C  F  L  L  S  L  V  S  D  *  T  S  I  L  S  *  T  L  N  M  L  M  C  V  L  C  T  I  M  L  N  L  C  N  S  C  H  Y  G  L  L  Q  *  I  N  F  F  R  T  P  S  I  W  </second_frame>
            <third_frame>   N  C  S  L  Y  H  Y  I  G  F  S  R  N  C  L  T  K  Q  K  S  W  S  C  R  Y  G  R  R  W  *  I  C  W  G  S  S  R  F  L  S  L  Q  Q  Q  S  S  E  M  G  H  *  *  Y  S  S  *  R  G  S  S  Y  S  R  H  C  S  S  *  R  T  L  *  R  R  R  D  A  A  L  G  G  H  W  F  S :   F  N  T  F  I  R  D  M  *  W  P  H  N  E  E  V  W  G  *  P  *  P  *  N  I  A  N  D  N  P  C  S  *  A  D  G   : D  H  S  S  H  E  N  F  L  G  R  C  S  R  E  V  M  *  S  N  *  *  N  S  L  E  L  S  G  H  R  E  Q  R  A  W  K  D  Q  E  :  G  Y  Y  G  Q  C  K  Q  L  C  G  E  *  C  Y  V  P  C  Y  C  C  E  E  C  R  R  L  I  L  Q  C  A  E  L  L  N  W  Q  K  A  K  G  F  Y  V  K  L  V  A  S  V  F  Y  *  A  W  C  R  I  K  L  L  S  Y  R  E  H  *  T  C  *  C  V  Y  C  V  P  S  C  *  T  S  V  I  P  V  T  M  D  C  C  S  K  *  T  F  F  E  L  L  Q  S  G </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="C01HBa0126F09.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="6678" stop="6471"/>
                    <exon start="5152" stop="5043"/>
                    <exon start="4953" stop="4835"/>
                    <exon start="4517" stop="4436"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>516</number_coding_nucleotides>
                  <number_encoded_amino_acids>172</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>PSKNLGVVGMEGGGRFVGVAVDFSACSNKALKWAIDNILRKGDHLILVTVRPEGHYEEGEMQLWEATGSPLIPLSEICDGHTMKRYGVNPDPETLQMITLAARQMEITVVMKIFWGDAREKLCEAIDKTPLSCLVIGNRGLGKIKRVIMGSVSNYVVNNATCPVTVVKNAED*</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="119179" PGL_stop="120273"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="119179" e_stop="120273"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.943"/>
        </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="0.943">
            <gDNA_exon_boundary e_start="119179" e_stop="120273" e_length="1095"/>
          </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="119179" stop="120273"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="C2_At5g49400" 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>GGTGCTGGTATAGATTAACATAAACTCAAAGAGGGGACTTCTCTTTGTTGAGAGCCAAGATTATGGCATCCTCTAAGAATGAAGAAAGTGGTGCTCAGGATGCAGCAGAAAGGATTAAGGCTCAGGCCTTGTCAGCTGCAAAAGGTTTGAGTCGGGCTCAGGCTGAGCGTGCTGCTACTGCTGCTGCGAGAAATGTCAATGCATATGGACAAAAGGAGGAAGGACCCAGTCGATGGCAGGAAAGAAAAGAAGCAAAGAGGCAGATGTATTTAATGAGTACTGAGAAACAGGTGCGACTGGGTGAAAGGAAAGACAAGCCTTCAGGTTCCACTCTTGGTGCAGCTTCACAATGTCAGAAATGTTTCCAGGCAGGGCATTGGACTTATGAGTGCAAGAATGAGAGGGTGTACATATCACGACCATCTCGCACGCAGCAGCTGAAAAATCCAAAGTTGAGGATGAAAGTTTCAGCATCTTATGATCTAGAAAACCCAGATATTGAGAAGGAGATGAAGAGTGAAAAACCTGTGAAGAAGAGTAAGAGGAAGCATAAGTCAGATACAGAGTCAGGGACTGATAGTGAGGCTTCTGTGTTTGAATCTGGCAGTGAGGCGTCATCAGTCACAGGGTCAGATTATTCTTCTGGGGAAAGTGACTCAAGCGATAGTTCTTCAACTGATTCAGAGGAAGAGAGGAGGAGGAAGAGGAAGAACAAGAAGAAGAAGAAGCAGAAGAAGAGGAGACACCGGAAATACAGCTCAACATCTGAGTCCTCTGATTCATACTCAGATTCCGAGTCTGATTCTGAAGGGAGGACTAGCCGTAAGAAGAGCAGCAAGAGGCATAACAAAAAGCGGTGAAGCATTGGACAAGATGAGAACTCCATATGTGGTACCTGGTTCTTAAAACTTGAAAATATTCATATTTATGTTTGTGATAAAAGATCTTTTGAGCGATGCACTTAAGATAACTGGGATTTTCCTGTCTCAAAGGTTTTGTAGATTGTCATAAGCTTATGTTGTGGCTGTAGAATTCAATGTGGCGAGAGTTGTCTCTTGTATTGAATTTTTTCATGTGCTAGCTTGCTCATTTACA</gDNA_template>
            <first_frame> G  A  G  I  D  *  H  K  L  K  E  G  T  S  L  C  *  E  P  R  L  W  H  P  L  R  M  K  K  V  V  L  R  M  Q  Q  K  G  L  R  L  R  P  C  Q  L  Q  K  V  *  V  G  L  R  L  S  V  L  L  L  L  L  R  E  M  S  M  H  M  D  K  R  R  K  D  P  V  D  G  R  K  E  K  K  Q  R  G  R  C  I  *  *  V  L  R  N  R  C  D  W  V  K  G  K  T  S  L  Q  V  P  L  L  V  Q  L  H  N  V  R  N  V  S  R  Q  G  I  G  L  M  S  A  R  M  R  G  C  T  Y  H  D  H  L  A  R  S  S  *  K  I  Q  S  *  G  *  K  F  Q  H  L  M  I  *  K  T  Q  I  L  R  R  R  *  R  V  K  N  L  *  R  R  V  R  G  S  I  S  Q  I  Q  S  Q  G  L  I  V  R  L  L  C  L  N  L  A  V  R  R  H  Q  S  Q  G  Q  I  I  L  L  G  K  V  T  Q  A  I  V  L  Q  L  I  Q  R  K  R  G  G  G  R  G  R  T  R  R  R  R  S  R  R  R  G  D  T  G  N  T  A  Q  H  L  S  P  L  I  H  T  Q  I  P  S  L  I  L  K  G  G  L  A  V  R  R  A  A  R  G  I  T  K  S  G  E  A  L  D  K  M  R  T  P  Y  V  V  P  G  S  *  N  L  K  I  F  I  F  M  F  V  I  K  D  L  L  S  D  A  L  K  I  T  G  I  F  L  S  Q  R  F  C  R  L  S  *  A  Y  V  V  A  V  E  F  N  V  A  R  V  V  S  C  I  E  F  F  H  V  L  A  C  S  F  T </first_frame>
            <second_frame>  V  L  V  *  I  N  I  N  S  K  R  G  L  L  F  V  E  S  Q  D  Y  G  I  L  *  E  *  R  K  W  C  S  G  C  S  R  K  D  *  G  S  G  L  V  S  C  K  R  F  E  S  G  S  G  *  A  C  C  Y  C  C  C  E  K  C  Q  C  I  W  T  K  G  G  R  T  Q  S  M  A  G  K  K  R  S  K  E  A  D  V  F  N  E  Y  *  E  T  G  A  T  G  *  K  E  R  Q  A  F  R  F  H  S  W  C  S  F  T  M  S  E  M  F  P  G  R  A  L  D  L  *  V  Q  E  *  E  G  V  H  I  T  T  I  S  H  A  A  A  E  K  S  K  V  E  D  E  S  F  S  I  L  *  S  R  K  P  R  Y  *  E  G  D  E  E  *  K  T  C  E  E  E  *  E  E  A  *  V  R  Y  R  V  R  D  *  *  *  G  F  C  V  *  I  W  Q  *  G  V  I  S  H  R  V  R  L  F  F  W  G  K  *  L  K  R  *  F  F  N  *  F  R  G  R  E  E  E  E  E  E  E  Q  E  E  E  E  A  E  E  E  E  T  P  E  I  Q  L  N  I  *  V  L  *  F  I  L  R  F  R  V  *  F  *  R  E  D  *  P  *  E  E  Q  Q  E  A  *  Q  K  A  V  K  H  W  T  R  *  E  L  H  M  W  Y  L  V  L  K  T  *  K  Y  S  Y  L  C  L  *  *  K  I  F  *  A  M  H  L  R  *  L  G  F  S  C  L  K  G  F  V  D  C  H  K  L  M  L  W  L  *  N  S  M  W  R  E  L  S  L  V  L  N  F  F  M  C  *  L  A  H  L   </second_frame>
            <third_frame>   C  W  Y  R  L  T  *  T  Q  R  G  D  F  S  L  L  R  A  K  I  M  A  S  S  K  N  E  E  S  G  A  Q  D  A  A  E  R  I  K  A  Q  A  L  S  A  A  K  G  L  S  R  A  Q  A  E  R  A  A  T  A  A  A  R  N  V  N  A  Y  G  Q  K  E  E  G  P  S  R  W  Q  E  R  K  E  A  K  R  Q  M  Y  L  M  S  T  E  K  Q  V  R  L  G  E  R  K  D  K  P  S  G  S  T  L  G  A  A  S  Q  C  Q  K  C  F  Q  A  G  H  W  T  Y  E  C  K  N  E  R  V  Y  I  S  R  P  S  R  T  Q  Q  L  K  N  P  K  L  R  M  K  V  S  A  S  Y  D  L  E  N  P  D  I  E  K  E  M  K  S  E  K  P  V  K  K  S  K  R  K  H  K  S  D  T  E  S  G  T  D  S  E  A  S  V  F  E  S  G  S  E  A  S  S  V  T  G  S  D  Y  S  S  G  E  S  D  S  S  D  S  S  S  T  D  S  E  E  E  R  R  R  K  R  K  N  K  K  K  K  K  Q  K  K  R  R  H  R  K  Y  S  S  T  S  E  S  S  D  S  Y  S  D  S  E  S  D  S  E  G  R  T  S  R  K  K  S  S  K  R  H  N  K  K  R  *  S  I  G  Q  D  E  N  S  I  C  G  T  W  F  L  K  L  E  N  I  H  I  Y  V  C  D  K  R  S  F  E  R  C  T  *  D  N  W  D  F  P  V  S  K  V  L  *  I  V  I  S  L  C  C  G  C  R  I  Q  C  G  E  S  C  L  L  Y  *  I  F  S  C  A  S  L  L  I  Y  </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="C01HBa0126F09.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="119202" stop="120038"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>834</number_coding_nucleotides>
                  <number_encoded_amino_acids>278</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TQRGDFSLLRAKIMASSKNEESGAQDAAERIKAQALSAAKGLSRAQAERAATAAARNVNAYGQKEEGPSRWQERKEAKRQMYLMSTEKQVRLGERKDKPSGSTLGAASQCQKCFQAGHWTYECKNERVYISRPSRTQQLKNPKLRMKVSASYDLENPDIEKEMKSEKPVKKSKRKHKSDTESGTDSEASVFESGSEASSVTGSDYSSGESDSSDSSSTDSEEERRRKRKNKKKKKQKKRRHRKYSSTSESSDSYSDSESDSEGRTSRKKSSKRHNKKR*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 247 chains have been computed
$ 
$ memory statistics:
$ 5576 bytes spliced alignments in total
$ 3 spliced alignments have been stored
$ 1858 bytes was the average size of a spliced alignment
$ 6800 bytes predicted gene locations in total
$ 2 predicted gene locations have been stored
$ 3400 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 247 backtrace matrices have been allocated
$ 
$ date finished: 2009-12-03 20:44:15
-->
