<?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 07:34:08"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C01HBa0101I08-o3mN4/GenomeThreader_SGN_E_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C01HBa0101I08-o3mN4/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_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-C01HBa0101I08-o3mN4/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E396832" ref_strand="+" ref_description="SGN-E396832 [TUS-44-G2](-)">
      <seq>tttatacaattcaggttttccatttcaagaaataaagcctagtgctggtaatgctgatcatgcagcttctttaagtaatagtaattattcaagtggtgggccagggggtctagaaaatggatcaggtgcaagaataatgttccctctaggaggattaaagcaactttcaagtacaaatcaagttgatcacctgactaagggacaggagaataataattcaactgctggtttatattggagtgggatgataagtggtactggaggatcttggtaaattaaagaaacatgaacaatgtgcacacaaatctcttttttctttttcacgttaatccagactccaggcgtgggattacactgggttgagtatgttgttgttatacgtgcttaggttactaataatttgtttgttcatgtttaattagaactaagtacgtactaacatatatggtagaagatatagttgatctggttatattgttgttaatttgtactaggattattttgagattagggaagctagcttgattaaagtaagcttctagggtttctgtgctagcatgtatgtatgtattatatatgatcaattataattaccgcctatattattagctaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0101I08-o3mN4/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0101I08.1" temp_strand="-" temp_description="C01HBa0101I08.1  AC233120.1 htgs_phase:1 submitted_to_sgn_as:AC233120 Solanum lycopersicum strain Heinz 1706 clone hba-101i8, WORKING DRAFT SEQUENCE.">
        <position start="3315" stop="2101"/>
      </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="3015" g_stop="2402" g_length="614"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="613" r_length="613" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="614" polyA_stop="626"/>
      <MATCH_line gen_id="C01HBa0101I08.1" gen_strand="-" ref_id="SGN-E396832" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>614</cumulative_length_of_scored_exons>
        <coverage percentage="0.981" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0101I08.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E396832" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="3015" e_stop="2402"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTATACAATTCAGGTTTTCCATTTCAAGAAATAAAGCCTAGTGCTGGTAATGCTGATCATGCAGCTTCTTTAAGTAATAGTAATTATTCAAGTGGTGGGCCAGGGGGGTCTAGAAAATGGATCAGGTGCAAGAATAATGTTCCCTCTAGGAGGATTAAAGCAACTTTCAAGTACAAATCAAGTTGATCACCTGACTAAGGGACAGGAGAATAATAATTCAACTGCTGGTTTATATTGGAGTGGGATGATAAGTGGTACTGGAGGATCTTGGTAAATTAAAGAAACATGAACAATGTGCACACAAATCTCTTTTTTCTTTTTCACGTTAATCCAGACTCCAGGCGTGGGATTACACTGGGTTGAGTATGTTGTTGTTATACGTGCTTAGGTTACTAATAATTTGTTTGTTCATGTTTAATTAGAACTAAGTACGTACTAACATATATGGTAGAAGATATAGTTGATCTGGTTATATTGTTGTTAATTTGTACTAGGATTATTTTGAGATTAGGGAAGCTAGCTTGATTAAAGTAAGCTTCTAGGGTTTCTGTGCTAGCATGTATGTATGTATTATATATGATCAATTATAATTACCGCCTATATTATTAGCTAC</genome_strand>
        <mrna_strand>TTTATACAATTCAGGTTTTCCATTTCAAGAAATAAAGCCTAGTGCTGGTAATGCTGATCATGCAGCTTCTTTAAGTAATAGTAATTATTCAAGTGGTGGGCCA-GGGGGTCTAGAAAATGGATCAGGTGCAAGAATAATGTTCCCTCTAGGAGGATTAAAGCAACTTTCAAGTACAAATCAAGTTGATCACCTGACTAAGGGACAGGAGAATAATAATTCAACTGCTGGTTTATATTGGAGTGGGATGATAAGTGGTACTGGAGGATCTTGGTAAATTAAAGAAACATGAACAATGTGCACACAAATCTCTTTTTTCTTTTTCACGTTAATCCAGACTCCAGGCGTGGGATTACACTGGGTTGAGTATGTTGTTGTTATACGTGCTTAGGTTACTAATAATTTGTTTGTTCATGTTTAATTAGAACTAAGTACGTACTAACATATATGGTAGAAGATATAGTTGATCTGGTTATATTGTTGTTAATTTGTACTAGGATTATTTTGAGATTAGGGAAGCTAGCTTGATTAAAGTAAGCTTCTAGGGTTTCTGTGCTAGCATGTATGTATGTATTATATATGATCAATTATAATTACCGCCTATATTATTAGCTAA</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-C01HBa0101I08-o3mN4/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E394904" ref_strand="+" ref_description="SGN-E394904 [TUS-43-G1](-)">
      <seq>agtaattattcaagtggtgggccagggggtctagaaaatggatcaggtgcaagaataatgttccctctacccccccccaaagcaactttcaagtacaaatcaagttgatcacctgactaagggacaggagaataataattcaactgctggtttatattggagtgggatgataagtggtactggaggatcttggtaaattaaagaaacatgaacaatgtgcacacaaatctcttttttctttttcacgttaatccagactccaggcgtgggattacactgggttgagtatgttgttgttatacgtgcttaggttactaataatttgtttgttcatgtttaattagaactaagtacgtactaacatatatggtagaagatatagttgatctggttatattgttgttaatttgtactaggattattttgagattagggaagctagcttgattaaagtaagcttctagggtttctgtgctagcatgtatgtatgtattatatatgatcaattataattaccgcctatattattagctaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0101I08-o3mN4/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0101I08.1" temp_strand="-" temp_description="C01HBa0101I08.1  AC233120.1 htgs_phase:1 submitted_to_sgn_as:AC233120 Solanum lycopersicum strain Heinz 1706 clone hba-101i8, WORKING DRAFT SEQUENCE.">
        <position start="3236" stop="2101"/>
      </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="2936" g_stop="2402" g_length="535"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="535" r_length="535" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="536" polyA_stop="548"/>
      <MATCH_line gen_id="C01HBa0101I08.1" gen_strand="-" ref_id="SGN-E394904" ref_strand="+">
        <total_alignment_score>0.978</total_alignment_score>
        <cumulative_length_of_scored_exons>535</cumulative_length_of_scored_exons>
        <coverage percentage="0.976" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0101I08.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E394904" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2936" e_stop="2402"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTAATTATTCAAGTGGTGGGCCAGGGGGGTCTAGAAAATGGATCAGGTGCAAGAATAATGTTCCCTCTA-GGAGGATTAAAGCAACTTTCAAGTACAAATCAAGTTGATCACCTGACTAAGGGACAGGAGAATAATAATTCAACTGCTGGTTTATATTGGAGTGGGATGATAAGTGGTACTGGAGGATCTTGGTAAATTAAAGAAACATGAACAATGTGCACACAAATCTCTTTTTTCTTTTTCACGTTAATCCAGACTCCAGGCGTGGGATTACACTGGGTTGAGTATGTTGTTGTTATACGTGCTTAGGTTACTAATAATTTGTTTGTTCATGTTTAATTAGAACTAAGTACGTACTAACATATATGGTAGAAGATATAGTTGATCTGGTTATATTGTTGTTAATTTGTACTAGGATTATTTTGAGATTAGGGAAGCTAGCTTGATTAAAGTAAGCTTCTAGGGTTTCTGTGCTAGCATGTATGTATGTATTATATATGATCAATTATAATTACCGCCTATATTATTAGCTAC</genome_strand>
        <mrna_strand>AGTAATTATTCAAGTGGTGGGCCA-GGGGGTCTAGAAAATGGATCAGGTGCAAGAATAATGTTCCCTCTACCCCCCCCCAAAGCAACTTTCAAGTACAAATCAAGTTGATCACCTGACTAAGGGACAGGAGAATAATAATTCAACTGCTGGTTTATATTGGAGTGGGATGATAAGTGGTACTGGAGGATCTTGGTAAATTAAAGAAACATGAACAATGTGCACACAAATCTCTTTTTTCTTTTTCACGTTAATCCAGACTCCAGGCGTGGGATTACACTGGGTTGAGTATGTTGTTGTTATACGTGCTTAGGTTACTAATAATTTGTTTGTTCATGTTTAATTAGAACTAAGTACGTACTAACATATATGGTAGAAGATATAGTTGATCTGGTTATATTGTTGTTAATTTGTACTAGGATTATTTTGAGATTAGGGAAGCTAGCTTGATTAAAGTAAGCTTCTAGGGTTTCTGTGCTAGCATGTATGTATGTATTATATATGATCAATTATAATTACCGCCTATATTATTAGCTAA</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-C01HBa0101I08-o3mN4/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E394528" ref_strand="+" ref_description="SGN-E394528 [TUS-14-D9](-)">
      <seq>tgttccctttaggaggacttaaagcaactttcaagtacaaatcaagttgatcacctgactaagggacaggagaataataattcaactgctggtttatattggagtgggatgataagtggtactggaggatcttggtaaattaaagaaacatgaacaatgtgcacacaaatctcttttttctttttcacgttaatccagactccaggcgtgggattacactgggttgagtatgttgttgttatacgtgcttaggttactaataatttgtttgttcatgtttaattagaactaagtacgtactaacatatatggtagaagatatagttgatctggttatattgttgttaatttgtactaggattattttgagattagggaagctagcttgattaaagtaagcttctagggtttctgtgctagcatgtatgtatgtattatatatgatcaattataattaccgcctatattattagctaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0101I08-o3mN4/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0101I08.1" temp_strand="-" temp_description="C01HBa0101I08.1  AC233120.1 htgs_phase:1 submitted_to_sgn_as:AC233120 Solanum lycopersicum strain Heinz 1706 clone hba-101i8, WORKING DRAFT SEQUENCE.">
        <position start="3177" stop="2101"/>
      </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="2877" g_stop="2402" g_length="476"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="477" r_length="477" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="478" polyA_stop="490"/>
      <MATCH_line gen_id="C01HBa0101I08.1" gen_strand="-" ref_id="SGN-E394528" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>476</cumulative_length_of_scored_exons>
        <coverage percentage="0.971" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0101I08.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E394528" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2877" e_stop="2402"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTTCCCTCTAGGAGGA-TTAAAGCAACTTTCAAGTACAAATCAAGTTGATCACCTGACTAAGGGACAGGAGAATAATAATTCAACTGCTGGTTTATATTGGAGTGGGATGATAAGTGGTACTGGAGGATCTTGGTAAATTAAAGAAACATGAACAATGTGCACACAAATCTCTTTTTTCTTTTTCACGTTAATCCAGACTCCAGGCGTGGGATTACACTGGGTTGAGTATGTTGTTGTTATACGTGCTTAGGTTACTAATAATTTGTTTGTTCATGTTTAATTAGAACTAAGTACGTACTAACATATATGGTAGAAGATATAGTTGATCTGGTTATATTGTTGTTAATTTGTACTAGGATTATTTTGAGATTAGGGAAGCTAGCTTGATTAAAGTAAGCTTCTAGGGTTTCTGTGCTAGCATGTATGTATGTATTATATATGATCAATTATAATTACCGCCTATATTATTAGCTAC</genome_strand>
        <mrna_strand>TGTTCCCTTTAGGAGGACTTAAAGCAACTTTCAAGTACAAATCAAGTTGATCACCTGACTAAGGGACAGGAGAATAATAATTCAACTGCTGGTTTATATTGGAGTGGGATGATAAGTGGTACTGGAGGATCTTGGTAAATTAAAGAAACATGAACAATGTGCACACAAATCTCTTTTTTCTTTTTCACGTTAATCCAGACTCCAGGCGTGGGATTACACTGGGTTGAGTATGTTGTTGTTATACGTGCTTAGGTTACTAATAATTTGTTTGTTCATGTTTAATTAGAACTAAGTACGTACTAACATATATGGTAGAAGATATAGTTGATCTGGTTATATTGTTGTTAATTTGTACTAGGATTATTTTGAGATTAGGGAAGCTAGCTTGATTAAAGTAAGCTTCTAGGGTTTCTGTGCTAGCATGTATGTATGTATTATATATGATCAATTATAATTACCGCCTATATTATTAGCTAA</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-C01HBa0101I08-o3mN4/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E379999" ref_strand="+" ref_description="SGN-E379999 [TUS-1-A10](-)">
      <seq>agagggtttacttcattcatctcctcagcatcaacaccagatttgaatgctttatacaattcaggttttccatttcaagaaataaagcctagtgctggtaatgctgatcatgcagcttctttaagtaatagtaattattcaagtggtgggccagggggtctagaaaatggatcaggtgcaagaataatgttccctctaggaggattaaagcaactttcaagtacaaatcaagttgatcacctgactaagggacaggagaataataattcaactgctggtttatattggagtgggatgataagtggtactggaggatcttggtaaattaaagaaacatgaacaatgtgcacacaaatctcttttttctttttcacgttaatccagactccaggcgtgggattacactgggttgagtatgttgttgttatacgtgcttaggttactaataatttgtttgttcatgtttaattagaactaagtacgtactaacatatatggtagaagatatagttgatctggttatattgttgttaatttgtactaggattattttgagattagggaagctagcttgattaaagtaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C01HBa0101I08-o3mN4/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C01HBa0101I08.1" temp_strand="-" temp_description="C01HBa0101I08.1  AC233120.1 htgs_phase:1 submitted_to_sgn_as:AC233120 Solanum lycopersicum strain Heinz 1706 clone hba-101i8, WORKING DRAFT SEQUENCE.">
        <position start="3365" stop="2181"/>
      </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="3065" g_stop="2481" g_length="585"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="584" r_length="584" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C01HBa0101I08.1" gen_strand="-" ref_id="SGN-E379999" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>585</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C01HBa0101I08.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E379999" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="3065" e_stop="2481"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAGGGTTTACTTCATTCATCTCCTCAGCATCAACACCAGATTTGAATGCTTTATACAATTCAGGTTTTCCATTTCAAGAAATAAAGCCTAGTGCTGGTAATGCTGATCATGCAGCTTCTTTAAGTAATAGTAATTATTCAAGTGGTGGGCCAGGGGGGTCTAGAAAATGGATCAGGTGCAAGAATAATGTTCCCTCTAGGAGGATTAAAGCAACTTTCAAGTACAAATCAAGTTGATCACCTGACTAAGGGACAGGAGAATAATAATTCAACTGCTGGTTTATATTGGAGTGGGATGATAAGTGGTACTGGAGGATCTTGGTAAATTAAAGAAACATGAACAATGTGCACACAAATCTCTTTTTTCTTTTTCACGTTAATCCAGACTCCAGGCGTGGGATTACACTGGGTTGAGTATGTTGTTGTTATACGTGCTTAGGTTACTAATAATTTGTTTGTTCATGTTTAATTAGAACTAAGTACGTACTAACATATATGGTAGAAGATATAGTTGATCTGGTTATATTGTTGTTAATTTGTACTAGGATTATTTTGAGATTAGGGAAGCTAGCTTGATTAAAGTAA</genome_strand>
        <mrna_strand>AGAGGGTTTACTTCATTCATCTCCTCAGCATCAACACCAGATTTGAATGCTTTATACAATTCAGGTTTTCCATTTCAAGAAATAAAGCCTAGTGCTGGTAATGCTGATCATGCAGCTTCTTTAAGTAATAGTAATTATTCAAGTGGTGGGCCA-GGGGGTCTAGAAAATGGATCAGGTGCAAGAATAATGTTCCCTCTAGGAGGATTAAAGCAACTTTCAAGTACAAATCAAGTTGATCACCTGACTAAGGGACAGGAGAATAATAATTCAACTGCTGGTTTATATTGGAGTGGGATGATAAGTGGTACTGGAGGATCTTGGTAAATTAAAGAAACATGAACAATGTGCACACAAATCTCTTTTTTCTTTTTCACGTTAATCCAGACTCCAGGCGTGGGATTACACTGGGTTGAGTATGTTGTTGTTATACGTGCTTAGGTTACTAATAATTTGTTTGTTCATGTTTAATTAGAACTAAGTACGTACTAACATATATGGTAGAAGATATAGTTGATCTGGTTATATTGTTGTTAATTTGTACTAGGATTATTTTGAGATTAGGGAAGCTAGCTTGATTAAAGTAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>4</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="3065" PGL_stop="2402"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="3065" e_stop="2402"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.998"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.998">
            <gDNA_exon_boundary e_start="3065" e_stop="2402" e_length="664"/>
          </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="3065" stop="2481"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E379999" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="3015" stop="2402"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E396832" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2936" stop="2402"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E394904" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2877" stop="2402"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E394528" 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>AGAGGGTTTACTTCATTCATCTCCTCAGCATCAACACCAGATTTGAATGCTTTATACAATTCAGGTTTTCCATTTCAAGAAATAAAGCCTAGTGCTGGTAATGCTGATCATGCAGCTTCTTTAAGTAATAGTAATTATTCAAGTGGTGGGCCAGGGGGGTCTAGAAAATGGATCAGGTGCAAGAATAATGTTCCCTCTAGGAGGATTAAAGCAACTTTCAAGTACAAATCAAGTTGATCACCTGACTAAGGGACAGGAGAATAATAATTCAACTGCTGGTTTATATTGGAGTGGGATGATAAGTGGTACTGGAGGATCTTGGTAAATTAAAGAAACATGAACAATGTGCACACAAATCTCTTTTTTCTTTTTCACGTTAATCCAGACTCCAGGCGTGGGATTACACTGGGTTGAGTATGTTGTTGTTATACGTGCTTAGGTTACTAATAATTTGTTTGTTCATGTTTAATTAGAACTAAGTACGTACTAACATATATGGTAGAAGATATAGTTGATCTGGTTATATTGTTGTTAATTTGTACTAGGATTATTTTGAGATTAGGGAAGCTAGCTTGATTAAAGTAAGCTTCTAGGGTTTCTGTGCTAGCATGTATGTATGTATTATATATGATCAATTATAATTACCGCCTATATTATTAGCTAC</gDNA_template>
            <first_frame> R  G  F  T  S  F  I  S  S  A  S  T  P  D  L  N  A  L  Y  N  S  G  F  P  F  Q  E  I  K  P  S  A  G  N  A  D  H  A  A  S  L  S  N  S  N  Y  S  S  G  G  P  G  G  S  R  K  W  I  R  C  K  N  N  V  P  S  R  R  I  K  A  T  F  K  Y  K  S  S  *  S  P  D  *  G  T  G  E  *  *  F  N  C  W  F  I  L  E  W  D  D  K  W  Y  W  R  I  L  V  N  *  R  N  M  N  N  V  H  T  N  L  F  F  L  F  H  V  N  P  D  S  R  R  G  I  T  L  G  *  V  C  C  C  Y  T  C  L  G  Y  *  *  F  V  C  S  C  L  I  R  T  K  Y  V  L  T  Y  M  V  E  D  I  V  D  L  V  I  L  L  L  I  C  T  R  I  I  L  R  L  G  K  L  A  *  L  K  *  A  S  R  V  S  V  L  A  C  M  Y  V  L  Y  M  I  N  Y  N  Y  R  L  Y  Y  *  L  </first_frame>
            <second_frame>  E  G  L  L  H  S  S  P  Q  H  Q  H  Q  I  *  M  L  Y  T  I  Q  V  F  H  F  K  K  *  S  L  V  L  V  M  L  I  M  Q  L  L  *  V  I  V  I  I  Q  V  V  G  Q  G  G  L  E  N  G  S  G  A  R  I  M  F  P  L  G  G  L  K  Q  L  S  S  T  N  Q  V  D  H  L  T  K  G  Q  E  N  N  N  S  T  A  G  L  Y  W  S  G  M  I  S  G  T  G  G  S  W  *  I  K  E  T  *  T  M  C  T  Q  I  S  F  F  F  F  T  L  I  Q  T  P  G  V  G  L  H  W  V  E  Y  V  V  V  I  R  A  *  V  T  N  N  L  F  V  H  V  *  L  E  L  S  T  Y  *  H  I  W  *  K  I  *  L  I  W  L  Y  C  C  *  F  V  L  G  L  F  *  D  *  G  S  *  L  D  *  S  K  L  L  G  F  L  C  *  H  V  C  M  Y  Y  I  *  S  I  I  I  T  A  Y  I  I  S  Y </second_frame>
            <third_frame>   R  V  Y  F  I  H  L  L  S  I  N  T  R  F  E  C  F  I  Q  F  R  F  S  I  S  R  N  K  A  *  C  W  *  C  *  S  C  S  F  F  K  *  *  *  L  F  K  W  W  A  R  G  V  *  K  M  D  Q  V  Q  E  *  C  S  L  *  E  D  *  S  N  F  Q  V  Q  I  K  L  I  T  *  L  R  D  R  R  I  I  I  Q  L  L  V  Y  I  G  V  G  *  *  V  V  L  E  D  L  G  K  L  K  K  H  E  Q  C  A  H  K  S  L  F  S  F  S  R  *  S  R  L  Q  A  W  D  Y  T  G  L  S  M  L  L  L  Y  V  L  R  L  L  I  I  C  L  F  M  F  N  *  N  *  V  R  T  N  I  Y  G  R  R  Y  S  *  S  G  Y  I  V  V  N  L  Y  *  D  Y  F  E  I  R  E  A  S  L  I  K  V  S  F  *  G  F  C  A  S  M  Y  V  C  I  I  Y  D  Q  L  *  L  P  P  I  L  L  A   </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="C01HBa0101I08.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="3065" stop="2829"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>234</number_coding_nucleotides>
                  <number_encoded_amino_acids>78</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RGFTSFISSASTPDLNALYNSGFPFQEIKPSAGNADHAASLSNSNYSSGGPGGSRKWIRCKNNVPSRRIKATFKYKSS*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C01HBa0101I08.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="2941" stop="2741"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>198</number_coding_nucleotides>
                  <number_encoded_amino_acids>66</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>VIVIIQVVGQGGLENGSGARIMFPLGGLKQLSSTNQVDHLTKGQENNNSTAGLYWSGMISGTGGSW*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 6 chains have been computed
$ 
$ memory statistics:
$ 6624 bytes spliced alignments in total
$ 4 spliced alignments have been stored
$ 1656 bytes was the average size of a spliced alignment
$ 5528 bytes predicted gene locations in total
$ 1 predicted gene locations have been stored
$ 5528 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 6 backtrace matrices have been allocated
$ 
$ date finished: 2009-12-01 07:35:06
-->
