<?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 05:32:33"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C00HBa0077H15-oN4lP/GenomeThreader_SGN_U_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C00HBa0077H15-oN4lP/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" type="ESTcDNA"/>
    </reference_files>
    <splice_site_parameters parameter_type="Bayesian" species="arabidopsis"/>
    <parameters>
      <parameter name="bssmfile" value="arabidopsis"/>
      <parameter name="scorematrixfile" value="BLOSUM62"/>
      <parameter name="searchmode" value="forward=True,reverse=True)"/>
      <parameter name="translationtable" value="1"/>
      <parameter name="frompos" value="0"/>
      <parameter name="topos" value="0"/>
      <parameter name="width" value="0"/>
      <parameter name="verbose" value="False"/>
      <parameter name="skipalignmentout" value="False"/>
      <parameter name="showintronmaxlen" value="120"/>
      <parameter name="minorflen" value="64"/>
      <parameter name="showseqnums" value="False"/>
      <parameter name="gs2out" value="False"/>
      <parameter name="maskpolyatails" value="False"/>
      <parameter name="noautoindex" value="False"/>
      <parameter name="minmatchlen" value="20"/>
      <parameter name="seedlength" value="16"/>
      <parameter name="exdrop" value="2"/>
      <parameter name="online" value="False"/>
      <parameter name="inverse" value="False"/>
      <parameter name="exact" value="False"/>
      <parameter name="chainwf" value="0.500000"/>
      <parameter name="gcmaxgapwidth" value="1000000"/>
      <parameter name="gcmincoverage" value="50"/>
      <parameter name="introncutout" value="False"/>
      <parameter name="autointroncutout" value="0"/>
      <parameter name="icinitialdelta" value="50"/>
      <parameter name="iciterations" value="2"/>
      <parameter name="icdeltaincrease" value="50"/>
      <parameter name="icminremintronlen" value="10"/>
      <parameter name="nou12intronmodel" value="False"/>
      <parameter name="u12donorprob" value="0.990000"/>
      <parameter name="u12donorprob1mism" value="0.900000"/>
      <parameter name="probies" value="0.500000"/>
      <parameter name="probdelgen" value="0.030000"/>
      <parameter name="identityweight" value="2.000000"/>
      <parameter name="mismatchweight" value="-2.000000"/>
      <parameter name="undetcharweight" value="0.000000"/>
      <parameter name="deletionweight" value="-4.000000"/>
      <parameter name="dpminexonlen" value="5"/>
      <parameter name="dpminintronlen" value="50"/>
      <parameter name="shortexonpenal" value="100"/>
      <parameter name="shortintronpenal" value="100"/>
      <parameter name="wzerotransition" value="80"/>
      <parameter name="wdecreasedoutput" value="80"/>
      <parameter name="leadcutoffsmode" value="RELAXED"/>
      <parameter name="termcutoffsmode" value="STRICT"/>
      <parameter name="cutoffsminexonlen" value="5"/>
      <parameter name="scoreminexonlen" value="50"/>
      <parameter name="minaveragessp" value="0.500000"/>
      <parameter name="minalignmentscore" value="0.900000"/>
      <parameter name="maxalignmentscore" value="1.000000"/>
      <parameter name="mincoverage" value="0.900000"/>
      <parameter name="maxcoverage" value="100.000000"/>
      <parameter name="intermediate" value="False"/>
      <parameter name="sortags" value="False"/>
      <parameter name="sortagswf" value="1.000000"/>
      <parameter name="first" value="0"/>
      <parameter name="exondistri" value="False"/>
      <parameter name="introndistri" value="False"/>
      <parameter name="refseqcovdistri" value="False"/>
    </parameters>
    <overall_reference_type>ESTcDNA</overall_reference_type>
  </header>
  <alignment_module>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0077H15-oN4lP/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" ref_id="SGN-U589884" ref_strand="+" ref_description="SGN-U589884 Tomato 200607#2 [1 ESTs aligned] ">
      <seq>cgagggtctttgttctaatacacttcaactcttggaatttgggtactgggatcacttctctgaacttcacgacgaacctgcaggacggaccgtcagatccacgacggaccgtcacaagcttcgtaatcccacacttagtcagacttccctatcttccttcagcagctgcactacgcttccacctacggaccgtcacaagcacgacggaccgtcataagctccgtaggtggtttcttctgcatttcttcgctcaaaatctccgcattcagctttggacagatttcctgcaaaacaaagagtaacttatataaaaattagcacaaaaaggcttttggacacactaagcttaaggaaaaagtattaataataccgtgaaaccacggtatatcaacaccctcaacttaaattagttgtttgtcctcaagcgacgcactatgactcactacacaatctttgtacaatagtatccatgttttatcctttgcaatcatttggctatcaatcccgattaatctcatcaaatctatgcatgctatcactattaggtttgaattttgtgggatcagaatatgacacagacttaccatgcactaacacctatcctcttcaatttctcaccgaggtgctaacaattctagtattgcaactagtgtcctcactataagacaaaatcctcctttttcacacagtgattttagtttgagtataaggattac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0077H15-oN4lP/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C00HBa0077H15.1" temp_strand="+" temp_description="C00HBa0077H15.1  AC213007.2 htgs_phase:3 submitted_to_sgn_as:C12HBa0077H15">
        <position start="13239" stop="14554"/>
      </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="13539" g_stop="14254" g_length="716"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="716" r_length="716" r_score="0.933"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0077H15.1" gen_strand="+" ref_id="SGN-U589884" ref_strand="+">
        <total_alignment_score>0.933</total_alignment_score>
        <cumulative_length_of_scored_exons>716</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0077H15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U589884" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="13539" e_stop="14254"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGAGGGTCTTCGTTTCAAAATACTTCAACTCTTGGAATCTGGGTACTGGGACCACTTCTCTGATCTTCACGACGAACCTGCAGGACGGACCGTCATAGCCATGACGGACCGTCACAAGCTTCGTAATCCCACACTTGGTCAGCCTTCCCCATCTTCCTTCAGCAGCTGCACCACGCTGCCACCTACGGACCGTCACAGGAACGACGGACCGTCATAAGCTCCATAGGTGGTATCTTCTGCATTTTTTCGCTCAAAATCTCCGCATTCAGCTTTGGACAGATTTCTTGCAAAACAAAGAGAAACTTATATAAAAATTAGCACAAAAAGGCTTTCAGACACACTAAACTTAAGGAAAAAGTATTCATTATACCGTGAAACCACGGTATATCAACACCCTCAACTTAAATTTGTTGCTTGTCCTCAAACGACGCACTATGACTCACTACACAATCTTTGTACAATAGTATTCATGTTTTATCCTTTGCAATCATTTGGCTATCAATCCCGATTAATCTCATCAAATCTATGCATGCTATAACTATTAGGCTTGAATTTTGTAGGATTCGAACATGACACAGACTCACCATGCACTAACACCTATCCTCTTCAATTTCTCACCGAGGTGCTAACAATTCCGGTATTGCAACTAGTGTCCTCACTTCAAAACAAAATCCTCATTTTTCACACAATGATTTCAGTTTGAGTATAAGGATAAC</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-C00HBa0077H15-oN4lP/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" ref_id="SGN-U588502" ref_strand="+" ref_description="SGN-U588502 Tomato 200607#2 [1 ESTs aligned] ">
      <seq>gttgttttttcacttctttactagtttaaaggtagaaatttcttctcttcacttacaatatttgaactctgaaattagttataggtatatgtagtctgcactatgcagagtccaatagcggaatggctatatctatgatcaactggaaaacctgagcaaacaaaaactctttctgattaggggtgatgttagcaatgacgatggtcttttacctatactaggtaacgtaaatctgtgacctagatatacaggtcctgatggaagagagtacttgttgatatcgtatgaggagttgatgatgcagtgttaaatgagtactctcaaggcttcaggtcctgttggacagcattgcaacaagcgtgtattctctgtgcatttgaagcataacccaacaaggattgttcatgaggtttggtttgatgctttggtaaattttatgatgcttttacatttttaactgaaattttatttgtttggttatttgattctttttaaattcttagaccatggaggatagataccaacacatgaatcgtgtgtctgctttatcttctttgtgagtgttagcgtctcttacaggtattccatcattttaatatttctcccanaataactgccttattatataatttaaattactatcttaaattttgtggtcgttgataanacaattgagtgtcatataaaaagtgagtatgagtttttgtagccnancagttgtgtaaacntggnnacntctatnnnncttttgatttttgnggnc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0077H15-oN4lP/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C00HBa0077H15.1" temp_strand="-" temp_description="C00HBa0077H15.1  AC213007.2 htgs_phase:3 submitted_to_sgn_as:C12HBa0077H15">
        <position start="74117" stop="72777"/>
      </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="73817" g_stop="73054" g_length="764"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="763" r_length="763" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0077H15.1" gen_strand="-" ref_id="SGN-U588502" ref_strand="+">
        <total_alignment_score>0.980</total_alignment_score>
        <cumulative_length_of_scored_exons>764</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0077H15.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U588502" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="73817" e_stop="73054"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTGTTTTTTCACTTCTTTACTAGTTTAAAGGTAGAAATTTCTTCTCTTCACTTACAATATTTGAACTCTGAAATTAGTTATAGGTATATGTAGTCTGCACTATGCAGAGTCCAATAGCGGAATGGCTATATCTATGATCAACTGGAAAACCTGAGCAAACAAAAACTCTTTCTGATTAGGGGTGATGTTAGCAATGACGATGGTCTTTTACCTATACTAGGTAACGTAAATCTGTGACCTAGATATACAGGTCCTGATGGAAGAGAGTACTTGTTGATATCGTATGAGGAGTTGATGATGCAGTGTTAAATGAGTACTCTCAAGGCTTCAGGTCCTGTTGGACAGCATTGCAACAAGCGTGTATTCTCTGTGCATTTGAAGCATAACCCAACAAGGATTGTTCATGAGGTTTGGTTTGATGCTTTGGTAAATTTTATGATGCTTTTACATTTTTAACTGAAATTTTATTTGTTTGGTTATTTGATTCTTTTTAAATTCTTAGACCATGGAGGATAGATACCAACACATGAATCGTGTGTCTGCTTTATCTTCTTTGTGAGTGTTAGCGTCTCTTACAGGTATTCCATCATTTTAATATTTCTCCCAGAATAACTGCCTTATTATATAATTTAAATTACTATCTTAAATTTTGTGGTCGTTGATAAGACAATTGAGTGTCATATAAAAAGTGAGTATGAGTTTTTGTAGCCGAGCAGTTGTGTAAACATGGTTACATCTATATTAACTTTTGATTTTTGTGGTC</genome_strand>
        <mrna_strand>GTTGTTTTTTCACTTCTTTACTAGTTTAAAGGTAGAAATTTCTTCTCTTCACTTACAATATTTGAACTCTGAAATTAGTTATAGGTATATGTAGTCTGCACTATGCAGAGTCCAATAGCGGAATGGCTATATCTATGATCAACTGGAAAACCTGAGCAAACAAAAACTCTTTCTGATTAGGGGTGATGTTAGCAATGACGATGGTCTTTTACCTATACTAGGTAACGTAAATCTGTGACCTAGATATACAGGTCCTGATGGAAGAGAGTACTTGTTGATATCGTATGAGGAGTTGATGATGCAGTGTTAAATGAGTACTCTCAAGGCTTCAGGTCCTGTTGGACAGCATTGCAACAAGCGTGTATTCTCTGTGCATTTGAAGCATAACCCAACAAGGATTGTTCATGAGGTTTGGTTTGATGCTTTGGTAAATTTTATGATGCTTTTACATTTTTAACTGAAATTTTATTTGTTTGGTTATTTGATTCTTTTTAAATTCTTAGACCATGGAGGATAGATACCAACACATGAATCGTGTGTCTGCTTTATCTTCTTTGTGAGTGTTAGCGTCTCTTACAGGTATTCCATCATTTTAATATTTCTCCCANAATAACTGCCTTATTATATAATTTAAATTACTATCTTAAATTTTGTGGTCGTTGATAANACAATTGAGTGTCATATAAAAAGTGAGTATGAGTTTTTGTAGCCNANCAGTTGTGTAAACNTGGNNACNTCTAT-NNNNCTTTTGATTTTTGNGGNC</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-C00HBa0077H15-oN4lP/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" ref_id="SGN-U567985" ref_strand="+" ref_description="SGN-U567985 Tomato 200607#2 [36 ESTs aligned] (*GB) gi|28195239|gb|AAO27452.1| (e_value=0) peroxisomal targeting signal type 2 receptor [Lycopersicon esculentum]; (*ATH) AT1G29260.1 (e_value=2e-160)  Symbol: None | peroxisomal targeting signal type 2 receptor (PEX7), identical to peroxisomal targeting signal type 2 receptor (Pex7p) (GI:9502414) (Arabidopsis thaliana); WD-40 repeat protein family member; contains 6 WD-40 repeats (PF00400); simila... ; (*SWP) sp|Q8R537|PEX7_CRIGR (e_value=5e-73) Peroxisomal targeting signal 2 receptor OS=Cricetulus griseus GN=PEX7; ">
      <seq>gggacgattttgggggaaaaccccttttacatcgggaaagtaaatcaccggcaacaatcaaatcagcgccgaccgctgtccgccgtccgccgaccgcctaagatgccggtatttaaaactccatttaacggttactccgtaaaattcagtcccttctacgaaaacaaactagctgtggccactgcgcagaatttcggcatccttggtaacgggagagttcacattcttcagctcaatccaaacggaccggtatcggaacttgcggcttttgacacagctgatggagtttacgacgtttgctggtcggaagctcacgattcacttgttattgctggaagtggcgatggttctgtgaaactctatgacctttctttgcctcccaccaataaccctattcgttcttttaaggaacatacacgggaagttcactctgttgactataataccgtgagaaaagattccttcttgtcagcgtcttgggatgatactgtgaagctatggactgttgatagaaatgccagtgtaaggacttttaaggaacatgcttattgtgtctattccgctgcttggaatccaagacatgctgatatctttgcatctgcttctggggattgtactactcgcatctgggatgtccgcgaaccaggttctacaatgattctgcctgcacacgagtttgaaatcctcacatgtgattggagtaagtatgacgattgtatcattgcaactgcatccgttgataagtcaatcaaggtttgggatgttaggaattatagagtgccaatatcagtgcttaatgggcatggatatgcagtgaggaaagtgaggttttcaccacatagagcgagtgcaatggtttcttgttcatatgacatgacagtttgcatgtgggattacatggtggaagatgcacttattgggaggtatgatcatcacacagagtttgctgtaggagttgatatgagcgttctcgttgaaggtctattggctagtacaggatgggatgaacttgtttatgtttggcaacatggaatggaccctagagcttcttgacaaagggaagtcaaacattttcttctttttacttttatgtacttaatgctaagagaggaagtgaataaactgcttatgtttggaaacatggaatgggaactatttatgatgtctgctgttgaagttgtaaaataatttgaagtttcattgtatttaagattttggtaaaaccttggtaaatgacatttacaccaaacagctttgatgtttcag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0077H15-oN4lP/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C00HBa0077H15.1" temp_strand="-" temp_description="C00HBa0077H15.1  AC213007.2 htgs_phase:3 submitted_to_sgn_as:C12HBa0077H15">
        <position start="77158" stop="75155"/>
      </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="76859" g_stop="76214" g_length="646"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="646" r_length="646" r_score="0.998"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="76213" i_stop="76075" i_length="139">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.962" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="76074" g_stop="75455" g_length="620"/>
          <reference_exon_boundary r_type="cDNA" r_start="647" r_stop="1266" r_length="620" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0077H15.1" gen_strand="-" ref_id="SGN-U567985" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>1266</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0077H15.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U567985" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="76859" e_stop="76214"/>
          <exon e_start="76074" e_stop="75455"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGGACGATTTTGGGGGAAAACCCCTTTTACATCGGGAAAGTAAATCACCGGCAACAATCAAATCAGCGCCGACCGCTGTCCGCCGTCCGCCGACCGCCTAAGATGCCGGTATTTAAAACTCCATTTAACGGTTACTCCGTAAAATTCAGTCCCTTCTACGAAAACAAACTAGCTGTGGCCACTGCGCAGAATTTCGGCATCCTTGGTAACGGGAGAGTTCACATTCTTCAGCTCAATCCAAACGGACCGGTATCGGAACTTGCGGCTTTTGACACAGCTGATGGAGTTTACGACGTTTGCTGGTCGGAAGCTCACGATTCACTTGTTATTGCTGGAAGTGGCGATGGTTCTGTGAAACTCTATGACCTTTCTTTGCCTCCCACCAATAACCCTATTCGTTCTTTTAAGGAACATACACGGGAAGTTCACTCTGTTGACTATAATACCGTGAGAAAAGATTCCTTCTTGTCAGCGTCTTGGGATGATACTGTGAAGCTATGGACTGTTGATAGAAATGCCAGTGTAAGGACTTTTAAGGAACATGCTTATTGTGTCTATTCCGCTGCTTGGAATCCAAGACATGCTGATATCTTTGCATCTGCTTCTGGGGATTGTACTACTCGCATCTGGGATGTCCGCGAACCAGGTTAGCTTTGGATACATGTATTTGGCTGATCATACCTAAGAAAAATGATTCATTTCAACTGGTTTGACTAAGTTTTGATTAGTTTTTTAGGAGATTAATGATTTATCATTTTAACACGTATAATTCATGATTTGTGAAGGTTCTACAATGATTCTGCCTGCACACGAGTTTGAAATCCTCACATGTGATTGGAGTAAGTATGACGATTGTATCATTGCAACTGCATCCGTTGATAAGTCAATCAAGGTTTGGGATGTTAGGAATTATAGAGTGCCAATATCAGTGCTTAATGGGCATGGATATGCAGTGAGGAAAGTGAGGTTTTCACCACATAGAGCGAGTGCAATGGTTTCTTGTTCATATGACATGACAGTTTGCATGTGGGATTACATGGTGGAAGATGCACTTATTGGGAGGTATGATCATCACACAGAGTTTGCTGTAGGAGTTGATATGAGCGTTCTCGTTGAAGGTCTATTGGCTAGTACAGGATGGGATGAACTTGTTTATGTTTGGCAACATGGAATGGACCCTAGAGCTTCTTGACAAAGGGAAGTCAAACATTTTCTTCTTTTTACTTTTATGTACTTAATGCTAAGAGAGGAAGTGAATAAACTGCTTATGTTTGGAAACATGGAATGGGAACTATTTATGATGTCTGCTGTTGAAGTTGTAAAATAATTTGAAGTTTCATTGTATTTAAGATTTTGGTAAAACCTTGGTAAATGACATTTACACCAAACAGCTTTGATGTTTCAG</genome_strand>
        <mrna_strand>GGGACGATTTTGGGGGAAAACCCCTTTTACATCGGGAAAGTAAATCACCGGCAACAATCAAATCAGCGCCGACCGCTGTCCGCCGTCCGCCGACCGCCTAAGATGCCGGTATTTAAAACTCCATTTAACGGTTACTCCGTAAAATTCAGTCCCTTCTACGAAAACAAACTAGCTGTGGCCACTGCGCAGAATTTCGGCATCCTTGGTAACGGGAGAGTTCACATTCTTCAGCTCAATCCAAACGGACCGGTATCGGAACTTGCGGCTTTTGACACAGCTGATGGAGTTTACGACGTTTGCTGGTCGGAAGCTCACGATTCACTTGTTATTGCTGGAAGTGGCGATGGTTCTGTGAAACTCTATGACCTTTCTTTGCCTCCCACCAATAACCCTATTCGTTCTTTTAAGGAACATACACGGGAAGTTCACTCTGTTGACTATAATACCGTGAGAAAAGATTCCTTCTTGTCAGCGTCTTGGGATGATACTGTGAAGCTATGGACTGTTGATAGAAATGCCAGTGTAAGGACTTTTAAGGAACATGCTTATTGTGTCTATTCCGCTGCTTGGAATCCAAGACATGCTGATATCTTTGCATCTGCTTCTGGGGATTGTACTACTCGCATCTGGGATGTCCGCGAACCAG...........................................................................................................................................GTTCTACAATGATTCTGCCTGCACACGAGTTTGAAATCCTCACATGTGATTGGAGTAAGTATGACGATTGTATCATTGCAACTGCATCCGTTGATAAGTCAATCAAGGTTTGGGATGTTAGGAATTATAGAGTGCCAATATCAGTGCTTAATGGGCATGGATATGCAGTGAGGAAAGTGAGGTTTTCACCACATAGAGCGAGTGCAATGGTTTCTTGTTCATATGACATGACAGTTTGCATGTGGGATTACATGGTGGAAGATGCACTTATTGGGAGGTATGATCATCACACAGAGTTTGCTGTAGGAGTTGATATGAGCGTTCTCGTTGAAGGTCTATTGGCTAGTACAGGATGGGATGAACTTGTTTATGTTTGGCAACATGGAATGGACCCTAGAGCTTCTTGACAAAGGGAAGTCAAACATTTTCTTCTTTTTACTTTTATGTACTTAATGCTAAGAGAGGAAGTGAATAAACTGCTTATGTTTGGAAACATGGAATGGGAACTATTTATGATGTCTGCTGTTGAAGTTGTAAAATAATTTGAAGTTTCATTGTATTTAAGATTTTGGTAAAACCTTGGTAAATGACATTTACACCAAACAGCTTTGATGTTTCAG</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-C00HBa0077H15-oN4lP/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" ref_id="SGN-U567685" ref_strand="+" ref_description="SGN-U567685 Tomato 200607#2 [2 ESTs aligned] ">
      <seq>gaaaaaccattttgagaacaaagtgaggtattccataaactatacaagaaaaataatctatgaagaaaaatagagtgtgagcgatattttagtaaggtggaaaccaaaagagtgttgttccttttgagtgtgtattagttactttgagtattgtattcgtgactacacagtttaaaactctttactatattaatatcagttgctcctcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0077H15-oN4lP/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C00HBa0077H15.1" temp_strand="+" temp_description="C00HBa0077H15.1  AC213007.2 htgs_phase:3 submitted_to_sgn_as:C12HBa0077H15">
        <position start="80526" stop="81338"/>
      </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="80826" g_stop="81038" g_length="213"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="211" r_length="211" r_score="0.930"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0077H15.1" gen_strand="+" ref_id="SGN-U567685" ref_strand="+">
        <total_alignment_score>0.930</total_alignment_score>
        <cumulative_length_of_scored_exons>213</cumulative_length_of_scored_exons>
        <coverage percentage="1.009" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0077H15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U567685" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="80826" e_stop="81038"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAAAACCATTTTGAGAGCAAAGTGAGGTATTCCATAGACTGTACAAGAAAAATAGTCTTTGAAGAAAAATAGAGTGTCGGGGCGATATTTTAGTAAGGTGGAAACCAAAATAGTGTTGTTCCTTTTGAGTGTGTAGTAGTCACTTTGAGTATTGTATTCGTGACTACACAGTGTAAAACTCCTTACTATAGTGATATCAGTTGCTCCTCTTG</genome_strand>
        <mrna_strand>GAAAAACCATTTTGAGAACAAAGTGAGGTATTCCATAAACTATACAAGAAAAATAATCTATGAAGAAAAATAGAGTGT--GAGCGATATTTTAGTAAGGTGGAAACCAAAAGAGTGTTGTTCCTTTTGAGTGTGTATTAGTTACTTTGAGTATTGTATTCGTGACTACACAGTTTAAAACTCTTTACTATATTAATATCAGTTGCTCCTCTTG</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-C00HBa0077H15-oN4lP/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" ref_id="SGN-U577122" ref_strand="-" ref_description="SGN-U577122 Tomato 200607#2 [3 ESTs aligned] (*GB) gi|157353742|emb|CAO46274.1| (e_value=4e-28) unnamed; (*ATH) AT3G52050.2 (e_value=4e-21)  Symbol: None | 5'-3' exonuclease family protein, similar to DNA polymerase type I (Rhodothermus sp. 'ITI 518') gi:4090935:gb:AAC98908 ; contains Pfam profile PF02739: 5'-3' exonuclease, N-terminal resolvase-like domain | chr3:19315994-19320558 FORWA... ; ">
      <seq>gcaaaaatttggtacactagaaattttgttagaatgtgttgaacaagttgaggaggagcaaattaggaaggcattgctgtccgatgcagagctgggtagacttagcaaggatctagcaatactacgatgtgatcttccatcctacatggttccttttgtccctgatgacttgatatttgagaaaccagaggatggtggggagaaatttcctcgcctcttaacagctattagtgcttatgcggaaggattttccgcagataacataattagaagagctttgtatttgtggaagaaacttgagaaacaaactgtagataccattcaccaaaaagttgtatcagctgataagagactcgagtcttgaaaactgatgatgatgtaaagagttcccgattctgtctatagctttttttggctgtacttgtattatagtgagatattaaagagtagtttagcagtgtaattgcttcttttttttttggaaatctctgggaaacacacaacctctaccgttcaggtgagcattctgtagtatgcactttgtggtaaaatgctcactaggcaagctccatgtaacaagctcatctcttcttcaaactctctatgtaactcctaaaatatgaaggttgtagatggattacatgtaaatgattccttcgtttgtcaact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0077H15-oN4lP/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C00HBa0077H15.1" temp_strand="-" temp_description="C00HBa0077H15.1  AC213007.2 htgs_phase:3 submitted_to_sgn_as:C12HBa0077H15">
        <position start="95277" stop="88214"/>
      </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="94972" g_stop="94914" g_length="59"/>
          <reference_exon_boundary r_type="cDNA" r_start="12" r_stop="70" r_length="59" r_score="0.966"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="94913" i_stop="90207" i_length="4707">
            <donor d_prob="0.988" d_score="0.96"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="90206" g_stop="90162" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="71" r_stop="115" r_length="45" r_score="0.978"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="90161" i_stop="90078" i_length="84">
            <donor d_prob="0.987" d_score="0.98"/>
            <acceptor a_prob="0.975" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="90077" g_stop="90003" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="116" r_stop="190" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="90002" i_stop="88993" i_length="1010">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.936" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="88992" g_stop="88514" g_length="479"/>
          <reference_exon_boundary r_type="cDNA" r_start="191" r_stop="669" r_length="479" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0077H15.1" gen_strand="-" ref_id="SGN-U577122" ref_strand="-">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>658</cumulative_length_of_scored_exons>
        <coverage percentage="0.984" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0077H15.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U577122" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="94972" e_stop="94914"/>
          <exon e_start="90206" e_stop="90162"/>
          <exon e_start="90077" e_stop="90003"/>
          <exon e_start="88992" e_stop="88514"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTACACTAGAAAATTTGTTAGAATGTGTTGAACAAGTTGAGGAGGAGCGAATTAGGAAGGTAACTCCTGCTAATTTATGATTGTGGTTTATTTAACTTCTCTTGGTAGTGACTTGTTACATGAGATTCACCATTTCCAATTATTCTTTCTTTAATTTTTTCCATTCAAATTGCCTCCTCCAGAGGAAGCCTATGTAAGTTTGTCATCTCTGGGTATCATTTAGACACGGTAGCTGATTAGATTTAATAGTAATCTATAAACAAAGCAATATATCAGTCTTCAATCCACATCTGCTGATCCAGTATTACTGGTCACGTGAACAGGATCCAAATTACTCTGGCTGTGAATTGTTTACACTTTAACTGTTTTGTCCATGTTATTCCTGTTAAATTAGGTCTTAGGCCTAACTCATATCCCAAAAGCTAGCTCAAAGGGAGAAGGATTGCCAACCCTTATAAGGAGTCCACCCATCTCATTAACCACCAATGTGAGATTTTTGTTTTTAGCACCCCACCTCACGCCTAGTGCTTAGCATCTCGTGCGTGGAAAACTCACATCCCAAAAGCTAGCTCAAAGGGAGGAGGATTGTCAACCTTTATAAGGAGTCCACCCATCTCATTAACCACCAATGTGAGATTTTTTTCTTTTAAGACTCCACCTCACGCCTAGTGCTTAACATCTCGTGCGTGGGCAATTTGACCCACCTCATGCCCAGTGCTTAGCATTTGGTGCGCGGGTAGTTTTTGGGCAATTTTTGATTTTTTTTGCGGCCCCAACATCGGGTAAGATGGGCCCTACTATGATACCATGTAAGGATATGGTACCTTGGTCTAACTCAACCCCTAAAGCTAGCTCATGAGGGGAGGTTTGTCCAAGTCCATATAAGGAGACCAAATTTCCATCCTTCTACCAATGTGGGACTTCTTAACACTCCCCCGCACGCCCAGACCTCAAATGGAGCGTGAACACTTCTAAATGGGGGCCCAAAATCGGTGAACAACGAATTGGGATGGGCATGACTTTGATACCATGTTAAATTAGGTGTTAGGTCTAACTCACACCTCAAAAGCTAGCTCAAAAGGGAGGAGGATTGTCCAAGCCTTATAAGGAGTCCAGCCATCTCATTAATAACCAATGTGGTACTTTTTGCTTTTAACAATTCCCTTAGCTTAAATTATAATACGATTTCCCAATTGTTTTAGACCATGTCTGTTCAATGGACTACCATTGGAATTCACTCTGCTAAAAAAAGAGAAATATGTACAGAAGAGAAGAAGAAAACTAGTTTATCATTTGTGATTTCTGACAATTAAGATATGTTATCTGCCAAATACCATCTTTTAGAAATTGGAGTTTCCTTGCTTTGTACATGATCACAGCATGTGTGTGTCTGTGTTGGCTTTGTACTTTGCAAGAAGCTGGATTTTGGGACTAATTCAACCCCAAAAATTAGCTGAAGAGGGGAATATTGAGCAAATCATTTAAAGAGACCACCTATCCTGTAAATCCTTGATGTGGGAACTCTTCGATCCCCCCCTCCCGTCCAGGGTTGAACATTTGAAGCATCGACAATTTTTATAATATGGTGGCCCAACATCGGGTGATAAGATTTGGAAGAAGTTCTGCTTTGATATGTAAAGAAATGGATTTTATGGATCAAACCTGAAGTAGGCCGTAGTGAGTATCAATCTTATGGATGAAAGCTATACTTGAAAATGGTAAGAATATGGTAGCTATATGTTTGTCTGTCTTCCCCTTCTAAAACAATTGTACTGTTCTACCTCTTTCTGTCTCATCACTTATGCCAGCTTGCCAACCTGTTTCCAATTTTTCCACTATTCCTTGCCATACTCCCTGCTGACCTATGTTCGTCACCGAGAGAGGCCCAACTTCAAGTATGTAGTTGGAAAACCAGCAGTTCTGCATCCTAGGATCTCAGCCAGCTCCAAAATATTGGCAACATTATTAACTGTTGCATCTCTATCTGCCAAATGCCATCTTTTTGGAATTTGAGTCACTTCCCTTTGTATATGGAATCACAGCATGTGCATGTCAGGGTTAGCTTTGTATTTCACAGTTCACCAAATTATAGGATGTGCATACCCTGAAGCAGGCTATAGCGAGTAGAAACAGTCAATCTTTTGGATTAGACCCGTTTTTGAAAGTGGTAATAATGTAGTATTCATATGTTTGGTCTCTCCCCCCCTCCAAAACAATTCTACTGTTGCATCTCTATTGCAGCAATTTTCAATTGATCTTTGAATGGAGCATCTGAAGTATGCAATCGTCTTACATCTGAACTCTTTCGGTTGAGTCTTAGAAATGGTTTGGCATTCCTTTTGTAGGACCTGACAGATTAAAATATAAACCTAATTAAAATGAGACTCTATTCTTTTTAGTTAATCTAATACTTGTATTCTCCTTCTTAGTTTTGTTAGAGAGTTGTATGTAAACCAAATTTTAGAGAACTCCTAGATTGCCTTACAACAACAACACACCTAGTGAAATCCTACTAAGTGGGGTCTGAGGAGGGTTAGGGTATACACAGACTTTTCCACTACCTCGTGGAGGTAGAGAGATTGTTTCAAAAGACCCTCGGCTCAAGCGCATCAAACTAAAATAAAAGAAGAAAACAATGAAGAAATCATAGCATTTAATAAGAAAAGCAGTGTAAAGTCTACAAAGAATAGTTTTCTTTTTTCTTCTTTTCTTTTCTTTATCTTTTGTTTATGCCAGACACACGAGACACACAAGTGTGGAGGGAGGATATGATGTAAATTGTTGGATAACAAATTTGAGCTGATGATTGATATGCAAATGTTACCTTTATAACAAAAAGAAAGTGTACAAGAAAGAACAATAACAACTACAAAATAGTGTGGTAATTAAACCACAATAACATATGGCCAGAACTACAAGGGTACGACTAGTACTATTAAAGGAACTAACAAGCCTAAACATTCCCAAGGCAATACAACAACTGCTAAATTGCCTTAGTGTCCAATTATTCAATATTGGAATAATAAGCCTGAATAGAACTAATTGTTTGCTTGAGGTTTGTTTGAGAACGGAAGATGCTAGGATATCACCAAATCAGTAGATATTGACTTGCTGGTTTCAGAGACGTGCTGATTTTATTTTCCATACCATTTATTCAAATCTAGAAACTTAGGAAAGTTAATTGTAGGGTTATCTGTGATTCTGTAGCAGTTTTTCCTGCTAGTATTTTGATCTTGATCTTCATTCTTCTATTATAAGAAAATGTGTACAACATTCTTTAACAAGAAGTGATTAAAGAGTTCTCCTCAAAAATATTCTCTTTCTCATGGTATGAAAGCTTAGTTGCTCTTTTCTGTCCTTTTTTTATAGAGGCTGGCATCTTGTCGTGAAGTTCCATCTGACTCTTCATGTGCAATCTAAAAACCAGTGTCCACACTCTGTGCAGATTATGACCACTCCATTCATGAAGTAAACTTCCTACGAATCTTGACAATTTTATAAACACTAAGCAACTCTCGCCGAAAAAGTTCTCAAACAAGGCACACCGGCCTTCTGCTTTCTTGTTAACTGTCTCGTATTGGTTAAGGGACACAGATGACCTTGGACAACATCATCTTATGAGCTAGATTTTTGGGGTAGATTCAAGCTCAAGGTCCCTTTTTTTAACATAATATCACAGCTAGACCAATTTCATTTTTTTTTTACCCAATCTTGGTCCCCCATATCAAGTTATCAATGCTCCAATGTCCATCTTTTTTGTTAAGTGCCTTTCCTAAACTAGAAACATCAAAAAGGAAACTTGCTGATGACTTTGATATCAAGGACTTGGGGGTGTTCAAATATATCCTTGTGCTGGAGTTTGCTACGTCTAAGGAAGGTAAATTTGTCAGTCAATGCCCATATGTGCATGACTTGCTCACTGAAACAAGCTTACTTGGTCGCAAATCTGTTGAAACATCGGTTGATCTTGAAGTTACAGTCCGTCAATATATAAGATGTGGTGGGTGCGATACTTAAAGCTTGTTGAAAATAGCAAATTTGCTCCATACCTGTCCAAAAATAACTTCTGCAGTAATCTAGGTGAGTCAATTCATGCATTCACTAAAAAAGTAACTCTTTGATGGTGAGTGCAAACTGTGAGATACTTGTAAGTTGCTAGGGAGTCATGGAAAAGGCTAGTTATTTAAGATATGGACATCTACGAACGGAAGTCTATGCTAATGTAGATTCGGGATAGCTAATGTAAGATCCAGTTCTGGTTGTTGTAACCTTTGTCAGAGAAAATCTCGTGAAATTGTAAGTACTATACAAAATATGGTGGCCAGGAACCAAGAGGTTGTGCAATAATTGAATTTAGACTAGTTGCTCATGTTCGTGAAATGTGAAGTAAACAATTCGTAGAAGTTTTGAATATTTTCAGTATTCTCCCCTGCAAGTATATTGCAATAATAAAACAACAATCTATATTGCGTATAATCTGGTTATTCATGACGGAACAATGCATGCGGAAGTGAATAGGCACTTCAGTCAATAAAGACTTGATAATGGGCTGTCTTGTATGCCATACATACCAACTGCCTGTCAAATTACTAATTTACTTGCAAAGGACTACAAAAGAAGCAAATTGACAGTTTGATAAGCATGCAGGAACTACTCATATTCCTCCTGTCTGTATGTGATCCCTTCCACATTCATGATTCTTCTACTTTGAAGAGAAGATGAGTAATAAGTTAATCTCTTAATTTGATTGGTTAATCTGCTTTCAGGCATTGCTGTCCGATGCAGAGCTGGCTAGACTTAGCAAGGATCTAGTATGTAGTTTTTTCCCTATGATATGTTGTTCTGACCTCATAATTCATCCCACTGCGCACTGAATAAATCTGTCAATTTTGCAGGCAATACTACGATGTGATCTTCCATCCTACATGGTTCCTTTTGTCCCTGATGACTTGATATTTGAGAAACCAGAGGTGAATCATCTTAGTATTTATATTTTCCGTTCCACATCTATAATTTTAAATGCTGTCTATTTTTGGGTGCAACTCTGCAATTCACTTAGAATCAATGTCCTATAAGTATCTCCATGTTTGTTGATGTTTAGAAGCTATTAAAGTGTTGACTAGAGGCCAGCATCCAACCATCCAAGTTTGCATTGCTTAGTGGTGGGTGTCAAATAGTAAAGTGGCTTTCCTTATACTTAGAGTGAGGAAACAGGTTGGAGTTAAGACTTCTAAATTTCTCGCACCATATTTCTAATATATCTGTAGTTATTAATTGGAAGGTATGTTGGCCTTTTAGCCCAAATTTGGTGGGAACTTTTTCAGCCTATAGATGCTCGGAAGGATAAAAAATTGACTTATAATATGACTTCACATTGCTCAATGATACATGTTCCACATCCAATGGAAAATTTATTGGCCAAATCATGGGGCTCATGAACCCATGGTCTTTCCGTAAAACTAGGTATTTTATGTATATATGTTTTCTAAAATTAATATAATTTTATCTGCTAGCACCCGATGATACAAGGTCAAATGGTGCACTTGTTAAATTTTGAGTTGTTCACCTAGAGGATTAGGATCAATTCCCATTGTATACATTATTTTCTTCTTTTTTTAGTGGTGCACCTGTGTTCTAGAAATCCTAGATTCGCCTGTCCACATCAATGAATTTCAAGGTCCACATTGGCAGCAGCTTGAGCAAGTCCATACATTGAAAAGCACCTTGTCTTCCTTAGTGTATGTTGTGGGAGTTTTGATTAGACTGATGCCTGAACCTTGTGAGGGCTACTTCTATTTTCCGAGATTGGCTATATGTCCATTGATAGCTTTTCCTATGAGTGAGTATATTATATTGAAGCTTGAATTTATACAGTTGGCAACAAGCATTAGAAAATCAGTCCAGGAACTTGTAAAAAAATAAAACTGGTGCTGATGCTTAGATGTTTGCTACAATCTGAAAGCTGAGATTTTTTATGCAGGATGGTGGGGAGAAATTTACTAGCCTCTTAACAGCTATTAGTGCTTATGCGGAAGGATTTTCCGCAGATAACATAATTAGAAGAGCTTTGTATTTGTGGAAGAAACTTGAGAAACAAACTGTAGATACCATTCACCAAAAAGTTGTATCAGCTGATAAGAGACTCGAGTCTTGAAAACTGATGATGATGTAAAGAGTTCCCGATTCTGTCTATAGCTTTTTTTGGCTGTACTTGTATTATAGTGAGATATTAAAGAGTAGTTTAGCAGTGTAATTGCTTCTTTTTTTTTTGGAAATCTCTGGGAAACACACAACCTCTACCGTTCAGGTGAGCATTCTGTAGTATGCACTTTGTGGTAAAATGCTCACTAGGCAAGCTCCATGTAACAAGCTCATCTCTTCTTCAAACTCTCTATGTAACTCCTAAAATATGAAGGTTGTAGATGGATTACATGTAAATGATTCCTTCGTTTGTCAACT</genome_strand>
        <mrna_strand>GTACACTAGAAATTTTGTTAGAATGTGTTGAACAAGTTGAGGAGGAGCAAATTAGGAAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCATTGCTGTCCGATGCAGAGCTGGGTAGACTTAGCAAGGATCTA....................................................................................GCAATACTACGATGTGATCTTCCATCCTACATGGTTCCTTTTGTCCCTGATGACTTGATATTTGAGAAACCAGAG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGGTGGGGAGAAATTTCCTCGCCTCTTAACAGCTATTAGTGCTTATGCGGAAGGATTTTCCGCAGATAACATAATTAGAAGAGCTTTGTATTTGTGGAAGAAACTTGAGAAACAAACTGTAGATACCATTCACCAAAAAGTTGTATCAGCTGATAAGAGACTCGAGTCTTGAAAACTGATGATGATGTAAAGAGTTCCCGATTCTGTCTATAGCTTTTTTTGGCTGTACTTGTATTATAGTGAGATATTAAAGAGTAGTTTAGCAGTGTAATTGCTTCTTTTTTTTTTGGAAATCTCTGGGAAACACACAACCTCTACCGTTCAGGTGAGCATTCTGTAGTATGCACTTTGTGGTAAAATGCTCACTAGGCAAGCTCCATGTAACAAGCTCATCTCTTCTTCAAACTCTCTATGTAACTCCTAAAATATGAAGGTTGTAGATGGATTACATGTAAATGATTCCTTCGTTTGTCAACT</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-C00HBa0077H15-oN4lP/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" ref_id="SGN-U600083" ref_strand="+" ref_description="SGN-U600083 Tomato 200607#2 [1 ESTs aligned] (*GB) gi|113205290|gb|ABI34329.1| (e_value=1e-97) Integrase; ">
      <seq>gaaagtacgaatagaaacatcaaactgattttgtatttgaactcatcaaattctgtctgagcaatatgagcattattggatgtttgattaggatgagcaccatatgctactggtggagatgactgtgtacttgcgcgatttcgaaggaactcattatattcgttttgaacaagaggatcataactgggtggtggaccatgcaaaatatgacatatgtcacgagtgtatccagacttatgacaatgactatacttggattgaggtttcccaaaacgtcgtcccccctaccgattctccgtagactgatatgtacgcttttcaaaggtttgagatgcgagaatagaggagtcaacagtgggtgatgaaacgactttgtgactaggaggtgccgcaagacgaaggaggcgagagaataattcatcgattgtagaaattgtagggctagctaaaatctgatcacgcataaaatcgttatcaggaggaagtccagcaagcgtaagaactagaaacaatgtttttctatgttcttgttgtttttccacatccgtagttactggcatcaacatgtcgaattcctccatgactgcctgtacctgtcccaagtaagtagacatatcaaattcttgtttctttaagttggtcaatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0077H15-oN4lP/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C00HBa0077H15.1" temp_strand="-" temp_description="C00HBa0077H15.1  AC213007.2 htgs_phase:3 submitted_to_sgn_as:C12HBa0077H15">
        <position start="103602" stop="101538"/>
      </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="103302" g_stop="103265" g_length="38"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="38" r_length="38" r_score="0.947"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="103264" i_stop="102444" i_length="821">
            <donor d_prob="0.000" d_score="0.00"/>
            <acceptor a_prob="0.000" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="102443" g_stop="101838" g_length="606"/>
          <reference_exon_boundary r_type="cDNA" r_start="39" r_stop="646" r_length="608" r_score="0.926"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0077H15.1" gen_strand="-" ref_id="SGN-U600083" ref_strand="+">
        <total_alignment_score>0.926</total_alignment_score>
        <cumulative_length_of_scored_exons>644</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0077H15.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U600083" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="103302" e_stop="103265"/>
          <exon e_start="102443" e_stop="101838"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAAGTACGAATAGAAATACCAAACTGATTTTGTATTTCAGCAAAGAAACTTTTGAAAATAGAAAATAACTCAGAACGATCTTTCATTAAAAAAACCCAAGTACATCTTGAATAATCATCACCGAAACTAACAAAATAACGAAATCCTAAGGTGGAACTGACTCTACTAGGACCCCAAATATCAGAATGAACTAATGAAAAAATAGACTCAGAACGACCCTCAGTATTACGAGAAAATGTAGCACGAGTGTGTTTCCCAAGTTGACACGACTCAATCTAATGTAGATAAACTAGACAAACTAGGCACTATCCTTTGTAGTTTGGATAGACTCGAATGTCCCAGACGTTTGTGAATTAGATCTGGGGAATCTTTAATGGAGCATGTTGTCAATGAATTTGAAGAGGTAAGATAGTAAAGGCCTTGTGATTCATTTCCTGTTCCAATAATCTGTCCCGTACTACGGTCCTGTATGAGAAAAAAAAATCATCGAAAAAAGTTATGCTACAATGTAGAGATTTTGTCAAACGACTAATAGATGCTAGATGAAAAGGAGAACCAAGAACATAAAGAACAAAGTCTAGGGTGACAGAAGATAGGGGTTTGGCTTTTCCAACCCCTTTTGGTTTTGTCTAGATCCCATTGGCTAAAGTAATAGCTGGAAGAGATTGCGAATAAACAATATCGAATAAAAGTGATTTATTACCAGAAATATGATCAAAAGCCCTAGAGCCCACGACCCATGTTCCAATAGTACTACATTGCAACACACAAGCAAAAGAATTACCCGTGACAGACAACATCAGGTTGTGCAATCGAAACTACTTGTGGAGATGTTTGTTTATTTGCACGATACTGAAGGAACTCATCATATTCTATCTGAGCAATATGAGCATTATTGGATGGTTGATTAGGTTGAGCACCATATGCTACTGATGGAGATGCTTGTTTACTTGCGCGATTTCGAAGGAACTCATTATATTCCTTTAGAACAAGAGGATCATAACTGGGTGGTGGACCATGCTAAATATGACATATGTCACGAGTGTGTCCAGACTTATGACAATGACTACACTTGGATCGAGGTTT-CCAAAACGTCTTCCCCCTCGCCGATTCTCCGTAGACTGATATGTACACTTTTCAAAGGTTTGAGATGCGAGAATAGAGGAGTCAACAGTGGGTGATGAAACGA-TTT-TGACTAGGAGTTGCCGCAAGACGAAGGAAGCGAGAGAATAATTCATTGATTGTAGGAACTGTAGGGCTAGCTAAAATCTGATCACAACACAGAATAATTATCAGGAGGAAGTCCAGCAAGAGTAAGAATTAGAAACAATGTTTGTCTATGTTCTTGTTGTTTTTCCACATCCGTAGTTACTGGCATCAACGTGTTGAGTTCCTCTAAGACTGCCTGTACCTGTCCCAAGTAAGTAGACATATCAGATTCTTGTTTCTTTAAGTTGGTCAATC</genome_strand>
        <mrna_strand>GAAAGTACGAATAGAAACATCAAACTGATTTTGTATTT.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAACTCATCAAATTCTGTCTGAGCAATATGAGCATTATTGGATGTTTGATTAGGATGAGCACCATATGCTACTGGTGGAGATGACTGTGTACTTGCGCGATTTCGAAGGAACTCATTATATTCGTTTTGAACAAGAGGATCATAACTGGGTGGTGGACCATGCAAAATATGACATATGTCACGAGTGTATCCAGACTTATGACAATGACTATACTTGGATTGAGGTTTCCCAAAACGTCGTCCCCCCTACCGATTCTCCGTAGACTGATATGTACGCTTTTCAAAGGTTTGAGATGCGAGAATAGAGGAGTCAACAGTGGGTGATGAAACGACTTTGTGACTAGGAGGTGCCGCAAGACGAAGGAGGCGAGAGAATAATTCATCGATTGTAGAAATTGTAGGGCTAGCTAAAATCTGATCAC-GCATAAAATCGTTATCAGGAGGAAGTCCAGCAAGCGTAAGAACTAGAAACAATGTTTTTCTATGTTCTTGTTGTTTTTCCACATCCGTAGTTACTGGCATCAACATGTCGAATTCCTCCATGACTGCCTGTACCTGTCCCAAGTAAGTAGACATATCAAATTCTTGTTTCTTTAAGTTGGTCAATC</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-C00HBa0077H15-oN4lP/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" ref_id="SGN-U604259" ref_strand="+" ref_description="SGN-U604259 Tomato 200607#2 [1 ESTs aligned] (*GB) gi|113205352|gb|AAT38797.2| (e_value=7e-19) Polyprotein,; ">
      <seq>attttattagagaagtccaacaatttaatgaagtgttgcttgttcattgttcatctgagaactagctagctgacattttcaccaagtcattgccaaaggaaaggtttgaagatccgaggcaaagaattagtgtttgccacaaaaatgccaaggaggagtgttagacaattgacattttttcagcttattattatttttactattttttacttatttcaatttagtgcttcctattttctagtagacttagtcaactttagttgctcaactttctgaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0077H15-oN4lP/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C00HBa0077H15.1" temp_strand="+" temp_description="C00HBa0077H15.1  AC213007.2 htgs_phase:3 submitted_to_sgn_as:C12HBa0077H15">
        <position start="111953" stop="112831"/>
      </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="112253" g_stop="112531" g_length="279"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="278" r_length="278" r_score="0.968"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0077H15.1" gen_strand="+" ref_id="SGN-U604259" ref_strand="+">
        <total_alignment_score>0.968</total_alignment_score>
        <cumulative_length_of_scored_exons>279</cumulative_length_of_scored_exons>
        <coverage percentage="1.004" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0077H15.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U604259" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="112253" e_stop="112531"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTTTATTAGAGAAGTCCAACAATCTAATGAAGTGTTGCTTGTTCATTGTACATCTGAGAACCAGCTAGCTGACATTTTCACCAAGTCATTGCCAAAGGAAAGGTTTGAAGATCTGAGGCAAAGAATTAGTGTTTGCCACAAAAATGCCAAGGAGGAGTGTTAGACAATTCACATTTTTTTAGCTTATTATTATTTTTACTGTTTTTTACTTATTTCAATTTAGTGCTTCCTATTTTCTAGCTAGACTTAGTCAACTTTAGTTGCTCAACTTTCTTAAG</genome_strand>
        <mrna_strand>ATTTTATTAGAGAAGTCCAACAATTTAATGAAGTGTTGCTTGTTCATTGTTCATCTGAGAACTAGCTAGCTGACATTTTCACCAAGTCATTGCCAAAGGAAAGGTTTGAAGATCCGAGGCAAAGAATTAGTGTTTGCCACAAAAATGCCAAGGAGGAGTGTTAGACAATTGACATTTTTTCAGCTTATTATTATTTTTACTATTTTTTACTTATTTCAATTTAGTGCTTCCTATTTTCTAG-TAGACTTAGTCAACTTTAGTTGCTCAACTTTCTGAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>7</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="13539" PGL_stop="14254"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="13539" e_stop="14254"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.933"/>
        </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="0.933">
            <gDNA_exon_boundary e_start="13539" e_stop="14254" e_length="716"/>
          </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="13539" stop="14254"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U589884" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="1" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>CGAGGGTCTTCGTTTCAAAATACTTCAACTCTTGGAATCTGGGTACTGGGACCACTTCTCTGATCTTCACGACGAACCTGCAGGACGGACCGTCATAGCCATGACGGACCGTCACAAGCTTCGTAATCCCACACTTGGTCAGCCTTCCCCATCTTCCTTCAGCAGCTGCACCACGCTGCCACCTACGGACCGTCACAGGAACGACGGACCGTCATAAGCTCCATAGGTGGTATCTTCTGCATTTTTTCGCTCAAAATCTCCGCATTCAGCTTTGGACAGATTTCTTGCAAAACAAAGAGAAACTTATATAAAAATTAGCACAAAAAGGCTTTCAGACACACTAAACTTAAGGAAAAAGTATTCATTATACCGTGAAACCACGGTATATCAACACCCTCAACTTAAATTTGTTGCTTGTCCTCAAACGACGCACTATGACTCACTACACAATCTTTGTACAATAGTATTCATGTTTTATCCTTTGCAATCATTTGGCTATCAATCCCGATTAATCTCATCAAATCTATGCATGCTATAACTATTAGGCTTGAATTTTGTAGGATTCGAACATGACACAGACTCACCATGCACTAACACCTATCCTCTTCAATTTCTCACCGAGGTGCTAACAATTCCGGTATTGCAACTAGTGTCCTCACTTCAAAACAAAATCCTCATTTTTCACACAATGATTTCAGTTTGAGTATAAGGATAAC</gDNA_template>
            <first_frame> R  G  S  S  F  Q  N  T  S  T  L  G  I  W  V  L  G  P  L  L  *  S  S  R  R  T  C  R  T  D  R  H  S  H  D  G  P  S  Q  A  S  *  S  H  T  W  S  A  F  P  I  F  L  Q  Q  L  H  H  A  A  T  Y  G  P  S  Q  E  R  R  T  V  I  S  S  I  G  G  I  F  C  I  F  S  L  K  I  S  A  F  S  F  G  Q  I  S  C  K  T  K  R  N  L  Y  K  N  *  H  K  K  A  F  R  H  T  K  L  K  E  K  V  F  I  I  P  *  N  H  G  I  S  T  P  S  T  *  I  C  C  L  S  S  N  D  A  L  *  L  T  T  Q  S  L  Y  N  S  I  H  V  L  S  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  R  I  R  T  *  H  R  L  T  M  H  *  H  L  S  S  S  I  S  H  R  G  A  N  N  S  G  I  A  T  S  V  L  T  S  K  Q  N  P  H  F  S  H  N  D  F  S  L  S  I  R  I   </first_frame>
            <second_frame>  E  G  L  R  F  K  I  L  Q  L  L  E  S  G  Y  W  D  H  F  S  D  L  H  D  E  P  A  G  R  T  V  I  A  M  T  D  R  H  K  L  R  N  P  T  L  G  Q  P  S  P  S  S  F  S  S  C  T  T  L  P  P  T  D  R  H  R  N  D  G  P  S  *  A  P  *  V  V  S  S  A  F  F  R  S  K  S  P  H  S  A  L  D  R  F  L  A  K  Q  R  E  T  Y  I  K  I  S  T  K  R  L  S  D  T  L  N  L  R  K  K  Y  S  L  Y  R  E  T  T  V  Y  Q  H  P  Q  L  K  F  V  A  C  P  Q  T  T  H  Y  D  S  L  H  N  L  C  T  I  V  F  M  F  Y  P  L  Q  S  F  G  Y  Q  S  R  L  I  S  S  N  L  C  M  L  *  L  L  G  L  N  F  V  G  F  E  H  D  T  D  S  P  C  T  N  T  Y  P  L  Q  F  L  T  E  V  L  T  I  P  V  L  Q  L  V  S  S  L  Q  N  K  I  L  I  F  H  T  M  I  S  V  *  V  *  G  *  </second_frame>
            <third_frame>   R  V  F  V  S  K  Y  F  N  S  W  N  L  G  T  G  T  T  S  L  I  F  T  T  N  L  Q  D  G  P  S  *  P  *  R  T  V  T  S  F  V  I  P  H  L  V  S  L  P  H  L  P  S  A  A  A  P  R  C  H  L  R  T  V  T  G  T  T  D  R  H  K  L  H  R  W  Y  L  L  H  F  F  A  Q  N  L  R  I  Q  L  W  T  D  F  L  Q  N  K  E  K  L  I  *  K  L  A  Q  K  G  F  Q  T  H  *  T  *  G  K  S  I  H  Y  T  V  K  P  R  Y  I  N  T  L  N  L  N  L  L  L  V  L  K  R  R  T  M  T  H  Y  T  I  F  V  Q  *  Y  S  C  F  I  L  C  N  H  L  A  I  N  P  D  *  S  H  Q  I  Y  A  C  Y  N  Y  *  A  *  I  L  *  D  S  N  M  T  Q  T  H  H  A  L  T  P  I  L  F  N  F  S  P  R  C  *  Q  F  R  Y  C  N  *  C  P  H  F  K  T  K  S  S  F  F  T  Q  *  F  Q  F  E  Y  K  D  N </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="C00HBa0077H15.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="13765" stop="14076"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>309</number_coding_nucleotides>
                  <number_encoded_amino_acids>103</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>VVSSAFFRSKSPHSALDRFLAKQRETYIKISTKRLSDTLNLRKKYSLYRETTVYQHPQLKFVACPQTTHYDSLHNLCTIVFMFYPLQSFGYQSRLISSNLCML*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C00HBa0077H15.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="13540" stop="13755"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>213</number_coding_nucleotides>
                  <number_encoded_amino_acids>71</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EGLRFKILQLLESGYWDHFSDLHDEPAGRTVIAMTDRHKLRNPTLGQPSPSSFSSCTTLPPTDRHRNDGPS*</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="73817" PGL_stop="73054"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="73817" e_stop="73054"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.980"/>
        </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="0.980">
            <gDNA_exon_boundary e_start="73817" e_stop="73054" e_length="764"/>
          </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="73817" stop="73054"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U588502" 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>GTTGTTTTTTCACTTCTTTACTAGTTTAAAGGTAGAAATTTCTTCTCTTCACTTACAATATTTGAACTCTGAAATTAGTTATAGGTATATGTAGTCTGCACTATGCAGAGTCCAATAGCGGAATGGCTATATCTATGATCAACTGGAAAACCTGAGCAAACAAAAACTCTTTCTGATTAGGGGTGATGTTAGCAATGACGATGGTCTTTTACCTATACTAGGTAACGTAAATCTGTGACCTAGATATACAGGTCCTGATGGAAGAGAGTACTTGTTGATATCGTATGAGGAGTTGATGATGCAGTGTTAAATGAGTACTCTCAAGGCTTCAGGTCCTGTTGGACAGCATTGCAACAAGCGTGTATTCTCTGTGCATTTGAAGCATAACCCAACAAGGATTGTTCATGAGGTTTGGTTTGATGCTTTGGTAAATTTTATGATGCTTTTACATTTTTAACTGAAATTTTATTTGTTTGGTTATTTGATTCTTTTTAAATTCTTAGACCATGGAGGATAGATACCAACACATGAATCGTGTGTCTGCTTTATCTTCTTTGTGAGTGTTAGCGTCTCTTACAGGTATTCCATCATTTTAATATTTCTCCCAGAATAACTGCCTTATTATATAATTTAAATTACTATCTTAAATTTTGTGGTCGTTGATAAGACAATTGAGTGTCATATAAAAAGTGAGTATGAGTTTTTGTAGCCGAGCAGTTGTGTAAACATGGTTACATCTATATTAACTTTTGATTTTTGTGGTC</gDNA_template>
            <first_frame> V  V  F  S  L  L  Y  *  F  K  G  R  N  F  F  S  S  L  T  I  F  E  L  *  N  *  L  *  V  Y  V  V  C  T  M  Q  S  P  I  A  E  W  L  Y  L  *  S  T  G  K  P  E  Q  T  K  T  L  S  D  *  G  *  C  *  Q  *  R  W  S  F  T  Y  T  R  *  R  K  S  V  T  *  I  Y  R  S  *  W  K  R  V  L  V  D  I  V  *  G  V  D  D  A  V  L  N  E  Y  S  Q  G  F  R  S  C  W  T  A  L  Q  Q  A  C  I  L  C  A  F  E  A  *  P  N  K  D  C  S  *  G  L  V  *  C  F  G  K  F  Y  D  A  F  T  F  L  T  E  I  L  F  V  W  L  F  D  S  F  *  I  L  R  P  W  R  I  D  T  N  T  *  I  V  C  L  L  Y  L  L  C  E  C  *  R  L  L  Q  V  F  H  H  F  N  I  S  P  R  I  T  A  L  L  Y  N  L  N  Y  Y  L  K  F  C  G  R  *  *  D  N  *  V  S  Y  K  K  *  V  *  V  F  V  A  E  Q  L  C  K  H  G  Y  I  Y  I  N  F  *  F  L  W   </first_frame>
            <second_frame>  L  F  F  H  F  F  T  S  L  K  V  E  I  S  S  L  H  L  Q  Y  L  N  S  E  I  S  Y  R  Y  M  *  S  A  L  C  R  V  Q  *  R  N  G  Y  I  Y  D  Q  L  E  N  L  S  K  Q  K  L  F  L  I  R  G  D  V  S  N  D  D  G  L  L  P  I  L  G  N  V  N  L  *  P  R  Y  T  G  P  D  G  R  E  Y  L  L  I  S  Y  E  E  L  M  M  Q  C  *  M  S  T  L  K  A  S  G  P  V  G  Q  H  C  N  K  R  V  F  S  V  H  L  K  H  N  P  T  R  I  V  H  E  V  W  F  D  A  L  V  N  F  M  M  L  L  H  F  *  L  K  F  Y  L  F  G  Y  L  I  L  F  K  F  L  D  H  G  G  *  I  P  T  H  E  S  C  V  C  F  I  F  F  V  S  V  S  V  S  Y  R  Y  S  I  I  L  I  F  L  P  E  *  L  P  Y  Y  I  I  *  I  T  I  L  N  F  V  V  V  D  K  T  I  E  C  H  I  K  S  E  Y  E  F  L  *  P  S  S  C  V  N  M  V  T  S  I  L  T  F  D  F  C  G  </second_frame>
            <third_frame>   C  F  F  T  S  L  L  V  *  R  *  K  F  L  L  F  T  Y  N  I  *  T  L  K  L  V  I  G  I  C  S  L  H  Y  A  E  S  N  S  G  M  A  I  S  M  I  N  W  K  T  *  A  N  K  N  S  F  *  L  G  V  M  L  A  M  T  M  V  F  Y  L  Y  *  V  T  *  I  C  D  L  D  I  Q  V  L  M  E  E  S  T  C  *  Y  R  M  R  S  *  *  C  S  V  K  *  V  L  S  R  L  Q  V  L  L  D  S  I  A  T  S  V  Y  S  L  C  I  *  S  I  T  Q  Q  G  L  F  M  R  F  G  L  M  L  W  *  I  L  *  C  F  Y  I  F  N  *  N  F  I  C  L  V  I  *  F  F  L  N  S  *  T  M  E  D  R  Y  Q  H  M  N  R  V  S  A  L  S  S  L  *  V  L  A  S  L  T  G  I  P  S  F  *  Y  F  S  Q  N  N  C  L  I  I  *  F  K  L  L  S  *  I  L  W  S  L  I  R  Q  L  S  V  I  *  K  V  S  M  S  F  C  S  R  A  V  V  *  T  W  L  H  L  Y  *  L  L  I  F  V  V </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="C00HBa0077H15.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="3" PGL_strand="-" PGL_start="76859" PGL_stop="75455"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="76859" e_stop="76214"/>
            <exon e_start="76074" e_stop="75455"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.995" acc_prob="0.962" e_score="0.998"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.998">
            <gDNA_exon_boundary e_start="76859" e_stop="76214" e_length="646"/>
          </exon>
          <intron i_serial="1" don_prob="0.995" acc_prob="0.962">
            <gDNA_intron_boundary i_start="76213" i_stop="76075" i_length="139"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="76074" e_stop="75455" e_length="620"/>
          </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="76859" stop="76214"/>
              <exon start="76074" stop="75455"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U567985" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="3" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>AGGACGATTTTGGGGGAAAACCCCTTTTACATCGGGAAAGTAAATCACCGGCAACAATCAAATCAGCGCCGACCGCTGTCCGCCGTCCGCCGACCGCCTAAGATGCCGGTATTTAAAACTCCATTTAACGGTTACTCCGTAAAATTCAGTCCCTTCTACGAAAACAAACTAGCTGTGGCCACTGCGCAGAATTTCGGCATCCTTGGTAACGGGAGAGTTCACATTCTTCAGCTCAATCCAAACGGACCGGTATCGGAACTTGCGGCTTTTGACACAGCTGATGGAGTTTACGACGTTTGCTGGTCGGAAGCTCACGATTCACTTGTTATTGCTGGAAGTGGCGATGGTTCTGTGAAACTCTATGACCTTTCTTTGCCTCCCACCAATAACCCTATTCGTTCTTTTAAGGAACATACACGGGAAGTTCACTCTGTTGACTATAATACCGTGAGAAAAGATTCCTTCTTGTCAGCGTCTTGGGATGATACTGTGAAGCTATGGACTGTTGATAGAAATGCCAGTGTAAGGACTTTTAAGGAACATGCTTATTGTGTCTATTCCGCTGCTTGGAATCCAAGACATGCTGATATCTTTGCATCTGCTTCTGGGGATTGTACTACTCGCATCTGGGATGTCCGCGAACCAG : GTTCTACAATGATTCTGCCTGCACACGAGTTTGAAATCCTCACATGTGATTGGAGTAAGTATGACGATTGTATCATTGCAACTGCATCCGTTGATAAGTCAATCAAGGTTTGGGATGTTAGGAATTATAGAGTGCCAATATCAGTGCTTAATGGGCATGGATATGCAGTGAGGAAAGTGAGGTTTTCACCACATAGAGCGAGTGCAATGGTTTCTTGTTCATATGACATGACAGTTTGCATGTGGGATTACATGGTGGAAGATGCACTTATTGGGAGGTATGATCATCACACAGAGTTTGCTGTAGGAGTTGATATGAGCGTTCTCGTTGAAGGTCTATTGGCTAGTACAGGATGGGATGAACTTGTTTATGTTTGGCAACATGGAATGGACCCTAGAGCTTCTTGACAAAGGGAAGTCAAACATTTTCTTCTTTTTACTTTTATGTACTTAATGCTAAGAGAGGAAGTGAATAAACTGCTTATGTTTGGAAACATGGAATGGGAACTATTTATGATGTCTGCTGTTGAAGTTGTAAAATAATTTGAAGTTTCATTGTATTTAAGATTTTGGTAAAACCTTGGTAAATGACATTTACACCAAACAGCTTTGATGTTTCAG</gDNA_template>
            <first_frame> R  T  I  L  G  E  N  P  F  Y  I  G  K  V  N  H  R  Q  Q  S  N  Q  R  R  P  L  S  A  V  R  R  P  P  K  M  P  V  F  K  T  P  F  N  G  Y  S  V  K  F  S  P  F  Y  E  N  K  L  A  V  A  T  A  Q  N  F  G  I  L  G  N  G  R  V  H  I  L  Q  L  N  P  N  G  P  V  S  E  L  A  A  F  D  T  A  D  G  V  Y  D  V  C  W  S  E  A  H  D  S  L  V  I  A  G  S  G  D  G  S  V  K  L  Y  D  L  S  L  P  P  T  N  N  P  I  R  S  F  K  E  H  T  R  E  V  H  S  V  D  Y  N  T  V  R  K  D  S  F  L  S  A  S  W  D  D  T  V  K  L  W  T  V  D  R  N  A  S  V  R  T  F  K  E  H  A  Y  C  V  Y  S  A  A  W  N  P  R  H  A  D  I  F  A  S  A  S  G  D  C  T  T  R  I  W  D  V  R  E  P   : G  S  T  M  I  L  P  A  H  E  F  E  I  L  T  C  D  W  S  K  Y  D  D  C  I  I  A  T  A  S  V  D  K  S  I  K  V  W  D  V  R  N  Y  R  V  P  I  S  V  L  N  G  H  G  Y  A  V  R  K  V  R  F  S  P  H  R  A  S  A  M  V  S  C  S  Y  D  M  T  V  C  M  W  D  Y  M  V  E  D  A  L  I  G  R  Y  D  H  H  T  E  F  A  V  G  V  D  M  S  V  L  V  E  G  L  L  A  S  T  G  W  D  E  L  V  Y  V  W  Q  H  G  M  D  P  R  A  S  *  Q  R  E  V  K  H  F  L  L  F  T  F  M  Y  L  M  L  R  E  E  V  N  K  L  L  M  F  G  N  M  E  W  E  L  F  M  M  S  A  V  E  V  V  K  *  F  E  V  S  L  Y  L  R  F  W  *  N  L  G  K  *  H  L  H  Q  T  A  L  M  F  Q </first_frame>
            <second_frame>  G  R  F  W  G  K  T  P  F  T  S  G  K  *  I  T  G  N  N  Q  I  S  A  D  R  C  P  P  S  A  D  R  L  R  C  R  Y  L  K  L  H  L  T  V  T  P  *  N  S  V  P  S  T  K  T  N  *  L  W  P  L  R  R  I  S  A  S  L  V  T  G  E  F  T  F  F  S  S  I  Q  T  D  R  Y  R  N  L  R  L  L  T  Q  L  M  E  F  T  T  F  A  G  R  K  L  T  I  H  L  L  L  L  E  V  A  M  V  L  *  N  S  M  T  F  L  C  L  P  P  I  T  L  F  V  L  L  R  N  I  H  G  K  F  T  L  L  T  I  I  P  *  E  K  I  P  S  C  Q  R  L  G  M  I  L  *  S  Y  G  L  L  I  E  M  P  V  *  G  L  L  R  N  M  L  I  V  S  I  P  L  L  G  I  Q  D  M  L  I  S  L  H  L  L  L  G  I  V  L  L  A  S  G  M  S  A  N  Q  :  V  L  Q  *  F  C  L  H  T  S  L  K  S  S  H  V  I  G  V  S  M  T  I  V  S  L  Q  L  H  P  L  I  S  Q  S  R  F  G  M  L  G  I  I  E  C  Q  Y  Q  C  L  M  G  M  D  M  Q  *  G  K  *  G  F  H  H  I  E  R  V  Q  W  F  L  V  H  M  T  *  Q  F  A  C  G  I  T  W  W  K  M  H  L  L  G  G  M  I  I  T  Q  S  L  L  *  E  L  I  *  A  F  S  L  K  V  Y  W  L  V  Q  D  G  M  N  L  F  M  F  G  N  M  E  W  T  L  E  L  L  D  K  G  K  S  N  I  F  F  F  L  L  L  C  T  *  C  *  E  R  K  *  I  N  C  L  C  L  E  T  W  N  G  N  Y  L  *  C  L  L  L  K  L  *  N  N  L  K  F  H  C  I  *  D  F  G  K  T  L  V  N  D  I  Y  T  K  Q  L  *  C  F   </second_frame>
            <third_frame>   D  D  F  G  G  K  P  L  L  H  R  E  S  K  S  P  A  T  I  K  S  A  P  T  A  V  R  R  P  P  T  A  *  D  A  G  I  *  N  S  I  *  R  L  L  R  K  I  Q  S  L  L  R  K  Q  T  S  C  G  H  C  A  E  F  R  H  P  W  *  R  E  S  S  H  S  S  A  Q  S  K  R  T  G  I  G  T  C  G  F  *  H  S  *  W  S  L  R  R  L  L  V  G  S  S  R  F  T  C  Y  C  W  K  W  R  W  F  C  E  T  L  *  P  F  F  A  S  H  Q  *  P  Y  S  F  F  *  G  T  Y  T  G  S  S  L  C  *  L  *  Y  R  E  K  R  F  L  L  V  S  V  L  G  *  Y  C  E  A  M  D  C  *  *  K  C  Q  C  K  D  F  *  G  T  C  L  L  C  L  F  R  C  L  E  S  K  T  C  *  Y  L  C  I  C  F  W  G  L  Y  Y  S  H  L  G  C  P  R  T  R :   F  Y  N  D  S  A  C  T  R  V  *  N  P  H  M  *  L  E  *  V  *  R  L  Y  H  C  N  C  I  R  *  *  V  N  Q  G  L  G  C  *  E  L  *  S  A  N  I  S  A  *  W  A  W  I  C  S  E  E  S  E  V  F  T  T  *  S  E  C  N  G  F  L  F  I  *  H  D  S  L  H  V  G  L  H  G  G  R  C  T  Y  W  E  V  *  S  S  H  R  V  C  C  R  S  *  Y  E  R  S  R  *  R  S  I  G  *  Y  R  M  G  *  T  C  L  C  L  A  T  W  N  G  P  *  S  F  L  T  K  G  S  Q  T  F  S  S  F  Y  F  Y  V  L  N  A  K  R  G  S  E  *  T  A  Y  V  W  K  H  G  M  G  T  I  Y  D  V  C  C  *  S  C  K  I  I  *  S  F  I  V  F  K  I  L  V  K  P  W  *  M  T  F  T  P  N  S  F  D  V  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/">
            <orf_entry>
              <id_line>
                <gDNA id="C00HBa0077H15.1" strand="-"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="76859" stop="76214"/>
                    <exon start="76074" stop="75668"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>1050</number_coding_nucleotides>
                  <number_encoded_amino_acids>350</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RTILGENPFYIGKVNHRQQSNQRRPLSAVRRPPKMPVFKTPFNGYSVKFSPFYENKLAVATAQNFGILGNGRVHILQLNPNGPVSELAAFDTADGVYDVCWSEAHDSLVIAGSGDGSVKLYDLSLPPTNNPIRSFKEHTREVHSVDYNTVRKDSFLSASWDDTVKLWTVDRNASVRTFKEHAYCVYSAAWNPRHADIFASASGDCTTRIWDVREPGSTMILPAHEFEILTCDWSKYDDCIIATASVDKSIKVWDVRNYRVPISVLNGHGYAVRKVRFSPHRASAMVSCSYDMTVCMWDYMVEDALIGRYDHHTEFAVGVDMSVLVEGLLASTGWDELVYVWQHGMDPRAS*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="4" PGL_strand="+" PGL_start="80826" PGL_stop="81038"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="80826" e_stop="81038"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.930"/>
        </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="0.930">
            <gDNA_exon_boundary e_start="80826" e_stop="81038" e_length="213"/>
          </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="80826" stop="81038"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U567685" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="4" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>GAAAAACCATTTTGAGAGCAAAGTGAGGTATTCCATAGACTGTACAAGAAAAATAGTCTTTGAAGAAAAATAGAGTGTCGGGGCGATATTTTAGTAAGGTGGAAACCAAAATAGTGTTGTTCCTTTTGAGTGTGTAGTAGTCACTTTGAGTATTGTATTCGTGACTACACAGTGTAAAACTCCTTACTATAGTGATATCAGTTGCTCCTCTTG</gDNA_template>
            <first_frame> E  K  P  F  *  E  Q  S  E  V  F  H  R  L  Y  K  K  N  S  L  *  R  K  I  E  C  R  G  D  I  L  V  R  W  K  P  K  *  C  C  S  F  *  V  C  S  S  H  F  E  Y  C  I  R  D  Y  T  V  *  N  S  L  L  *  *  Y  Q  L  L  L  L </first_frame>
            <second_frame>  K  N  H  F  E  S  K  V  R  Y  S  I  D  C  T  R  K  I  V  F  E  E  K  *  S  V  G  A  I  F  *  *  G  G  N  Q  N  S  V  V  P  F  E  C  V  V  V  T  L  S  I  V  F  V  T  T  Q  C  K  T  P  Y  Y  S  D  I  S  C  S  S   </second_frame>
            <third_frame>   K  T  I  L  R  A  K  *  G  I  P  *  T  V  Q  E  K  *  S  L  K  K  N  R  V  S  G  R  Y  F  S  K  V  E  T  K  I  V  L  F  L  L  S  V  *  *  S  L  *  V  L  Y  S  *  L  H  S  V  K  L  L  T  I  V  I  S  V  A  P  L  </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="C00HBa0077H15.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="5" PGL_strand="-" PGL_start="94972" PGL_stop="88514"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="94972" e_stop="94914"/>
            <exon e_start="90206" e_stop="90162"/>
            <exon e_start="90077" e_stop="90003"/>
            <exon e_start="88992" e_stop="88514"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.988" acc_prob="0.999" e_score="0.966"/>
          <exon-intron don_prob="0.987" acc_prob="0.975" e_score="0.978"/>
          <exon-intron don_prob="0.996" acc_prob="0.936" e_score="1.000"/>
          <exon-only e_score="0.996"/>
        </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="0.966">
            <gDNA_exon_boundary e_start="94972" e_stop="94914" e_length="59"/>
          </exon>
          <intron i_serial="1" don_prob="0.988" acc_prob="0.999">
            <gDNA_intron_boundary i_start="94913" i_stop="90207" i_length="4707"/>
          </intron>
          <exon e_serial="2" e_score="0.978">
            <gDNA_exon_boundary e_start="90206" e_stop="90162" e_length="45"/>
          </exon>
          <intron i_serial="2" don_prob="0.987" acc_prob="0.975">
            <gDNA_intron_boundary i_start="90161" i_stop="90078" i_length="84"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="90077" e_stop="90003" e_length="75"/>
          </exon>
          <intron i_serial="3" don_prob="0.996" acc_prob="0.936">
            <gDNA_intron_boundary i_start="90002" i_stop="88993" i_length="1010"/>
          </intron>
          <exon e_serial="4" e_score="0.996">
            <gDNA_exon_boundary e_start="88992" e_stop="88514" e_length="479"/>
          </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="94972" stop="94914"/>
              <exon start="90206" stop="90162"/>
              <exon start="90077" stop="90003"/>
              <exon start="88992" stop="88514"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U577122" strand="-"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="5" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GTACACTAGAAAATTTGTTAGAATGTGTTGAACAAGTTGAGGAGGAGCGAATTAGGAAG : GCATTGCTGTCCGATGCAGAGCTGGCTAGACTTAGCAAGGATCTA : GCAATACTACGATGTGATCTTCCATCCTACATGGTTCCTTTTGTCCCTGATGACTTGATATTTGAGAAACCAGAG : GATGGTGGGGAGAAATTTACTAGCCTCTTAACAGCTATTAGTGCTTATGCGGAAGGATTTTCCGCAGATAACATAATTAGAAGAGCTTTGTATTTGTGGAAGAAACTTGAGAAACAAACTGTAGATACCATTCACCAAAAAGTTGTATCAGCTGATAAGAGACTCGAGTCTTGAAAACTGATGATGATGTAAAGAGTTCCCGATTCTGTCTATAGCTTTTTTTGGCTGTACTTGTATTATAGTGAGATATTAAAGAGTAGTTTAGCAGTGTAATTGCTTCTTTTTTTTTTGGAAATCTCTGGGAAACACACAACCTCTACCGTTCAGGTGAGCATTCTGTAGTATGCACTTTGTGGTAAAATGCTCACTAGGCAAGCTCCATGTAACAAGCTCATCTCTTCTTCAAACTCTCTATGTAACTCCTAAAATATGAAGGTTGTAGATGGATTACATGTAAATGATTCCTTCGTTTGTCAACT</gDNA_template>
            <first_frame> V  H  *  K  I  C  *  N  V  L  N  K  L  R  R  S  E  L  G  R :   H  C  C  P  M  Q  S  W  L  D  L  A  R  I  * :   Q  Y  Y  D  V  I  F  H  P  T  W  F  L  L  S  L  M  T  *  Y  L  R  N  Q  R :   M  V  G  R  N  L  L  A  S  *  Q  L  L  V  L  M  R  K  D  F  P  Q  I  T  *  L  E  E  L  C  I  C  G  R  N  L  R  N  K  L  *  I  P  F  T  K  K  L  Y  Q  L  I  R  D  S  S  L  E  N  *  *  *  C  K  E  F  P  I  L  S  I  A  F  F  G  C  T  C  I  I  V  R  Y  *  R  V  V  *  Q  C  N  C  F  F  F  F  W  K  S  L  G  N  T  Q  P  L  P  F  R  *  A  F  C  S  M  H  F  V  V  K  C  S  L  G  K  L  H  V  T  S  S  S  L  L  Q  T  L  Y  V  T  P  K  I  *  R  L  *  M  D  Y  M  *  M  I  P  S  F  V  N  </first_frame>
            <second_frame>  Y  T  R  K  F  V  R  M  C  *  T  S  *  G  G  A  N  *  E   : G  I  A  V  R  C  R  A  G  *  T  *  Q  G  S   : S  N  T  T  M  *  S  S  I  L  H  G  S  F  C  P  *  *  L  D  I  *  E  T  R   : G  W  W  G  E  I  Y  *  P  L  N  S  Y  *  C  L  C  G  R  I  F  R  R  *  H  N  *  K  S  F  V  F  V  E  E  T  *  E  T  N  C  R  Y  H  S  P  K  S  C  I  S  *  *  E  T  R  V  L  K  T  D  D  D  V  K  S  S  R  F  C  L  *  L  F  L  A  V  L  V  L  *  *  D  I  K  E  *  F  S  S  V  I  A  S  F  F  F  G  N  L  W  E  T  H  N  L  Y  R  S  G  E  H  S  V  V  C  T  L  W  *  N  A  H  *  A  S  S  M  *  Q  A  H  L  F  F  K  L  S  M  *  L  L  K  Y  E  G  C  R  W  I  T  C  K  *  F  L  R  L  S  T </second_frame>
            <third_frame>   T  L  E  N  L  L  E  C  V  E  Q  V  E  E  E  R  I  R  K  :  A  L  L  S  D  A  E  L  A  R  L  S  K  D  L  :  A  I  L  R  C  D  L  P  S  Y  M  V  P  F  V  P  D  D  L  I  F  E  K  P  E  :  D  G  G  E  K  F  T  S  L  L  T  A  I  S  A  Y  A  E  G  F  S  A  D  N  I  I  R  R  A  L  Y  L  W  K  K  L  E  K  Q  T  V  D  T  I  H  Q  K  V  V  S  A  D  K  R  L  E  S  *  K  L  M  M  M  *  R  V  P  D  S  V  Y  S  F  F  W  L  Y  L  Y  Y  S  E  I  L  K  S  S  L  A  V  *  L  L  L  F  F  L  E  I  S  G  K  H  T  T  S  T  V  Q  V  S  I  L  *  Y  A  L  C  G  K  M  L  T  R  Q  A  P  C  N  K  L  I  S  S  S  N  S  L  C  N  S  *  N  M  K  V  V  D  G  L  H  V  N  D  S  F  V  C  Q   </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="C00HBa0077H15.1" strand="-"/>
                <serials PGL_serial="5" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="94970" stop="94914"/>
                    <exon start="90206" stop="90162"/>
                    <exon start="90077" stop="90003"/>
                    <exon start="88992" stop="88819"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>348</number_coding_nucleotides>
                  <number_encoded_amino_acids>116</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TLENLLECVEQVEEERIRKALLSDAELARLSKDLAILRCDLPSYMVPFVPDDLIFEKPEDGGEKFTSLLTAISAYAEGFSADNIIRRALYLWKKLEKQTVDTIHQKVVSADKRLES*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="6" PGL_strand="-" PGL_start="103302" PGL_stop="101838"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="103302" e_stop="103265"/>
            <exon e_start="102443" e_stop="101838"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="0.947"/>
          <exon-only e_score="0.926"/>
        </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="0.947">
            <gDNA_exon_boundary e_start="103302" e_stop="103265" e_length="38"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="103264" i_stop="102444" i_length="821"/>
          </intron>
          <exon e_serial="2" e_score="0.926">
            <gDNA_exon_boundary e_start="102443" e_stop="101838" e_length="606"/>
          </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="103302" stop="103265"/>
              <exon start="102443" stop="101838"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U600083" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="6" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GAAAGTACGAATAGAAATACCAAACTGATTTTGTATTT : GAACTCATCATATTCTATCTGAGCAATATGAGCATTATTGGATGGTTGATTAGGTTGAGCACCATATGCTACTGATGGAGATGCTTGTTTACTTGCGCGATTTCGAAGGAACTCATTATATTCCTTTAGAACAAGAGGATCATAACTGGGTGGTGGACCATGCTAAATATGACATATGTCACGAGTGTGTCCAGACTTATGACAATGACTACACTTGGATCGAGGTTTCCAAAACGTCTTCCCCCTCGCCGATTCTCCGTAGACTGATATGTACACTTTTCAAAGGTTTGAGATGCGAGAATAGAGGAGTCAACAGTGGGTGATGAAACGATTTTGACTAGGAGTTGCCGCAAGACGAAGGAAGCGAGAGAATAATTCATTGATTGTAGGAACTGTAGGGCTAGCTAAAATCTGATCACAACACAGAATAATTATCAGGAGGAAGTCCAGCAAGAGTAAGAATTAGAAACAATGTTTGTCTATGTTCTTGTTGTTTTTCCACATCCGTAGTTACTGGCATCAACGTGTTGAGTTCCTCTAAGACTGCCTGTACCTGTCCCAAGTAAGTAGACATATCAGATTCTTGTTTCTTTAAGTTGGTCAATC</gDNA_template>
            <first_frame> E  S  T  N  R  N  T  K  L  I  L  Y  L :   N  S  S  Y  S  I  *  A  I  *  A  L  L  D  G  *  L  G  *  A  P  Y  A  T  D  G  D  A  C  L  L  A  R  F  R  R  N  S  L  Y  S  F  R  T  R  G  S  *  L  G  G  G  P  C  *  I  *  H  M  S  R  V  C  P  D  L  *  Q  *  L  H  L  D  R  G  F  Q  N  V  F  P  L  A  D  S  P  *  T  D  M  Y  T  F  Q  R  F  E  M  R  E  *  R  S  Q  Q  W  V  M  K  R  F  *  L  G  V  A  A  R  R  R  K  R  E  N  N  S  L  I  V  G  T  V  G  L  A  K  I  *  S  Q  H  R  I  I  I  R  R  K  S  S  K  S  K  N  *  K  Q  C  L  S  M  F  L  L  F  F  H  I  R  S  Y  W  H  Q  R  V  E  F  L  *  D  C  L  Y  L  S  Q  V  S  R  H  I  R  F  L  F  L  *  V  G  Q   </first_frame>
            <second_frame>  K  V  R  I  E  I  P  N  *  F  C  I   : *  T  H  H  I  L  S  E  Q  Y  E  H  Y  W  M  V  D  *  V  E  H  H  M  L  L  M  E  M  L  V  Y  L  R  D  F  E  G  T  H  Y  I  P  L  E  Q  E  D  H  N  W  V  V  D  H  A  K  Y  D  I  C  H  E  C  V  Q  T  Y  D  N  D  Y  T  W  I  E  V  S  K  T  S  S  P  S  P  I  L  R  R  L  I  C  T  L  F  K  G  L  R  C  E  N  R  G  V  N  S  G  *  *  N  D  F  D  *  E  L  P  Q  D  E  G  S  E  R  I  I  H  *  L  *  E  L  *  G  *  L  K  S  D  H  N  T  E  *  L  S  G  G  S  P  A  R  V  R  I  R  N  N  V  C  L  C  S  C  C  F  S  T  S  V  V  T  G  I  N  V  L  S  S  S  K  T  A  C  T  C  P  K  *  V  D  I  S  D  S  C  F  F  K  L  V  N  </second_frame>
            <third_frame>   K  Y  E  *  K  Y  Q  T  D  F  V  F  :  E  L  I  I  F  Y  L  S  N  M  S  I  I  G  W  L  I  R  L  S  T  I  C  Y  *  W  R  C  L  F  T  C  A  I  S  K  E  L  I  I  F  L  *  N  K  R  I  I  T  G  W  W  T  M  L  N  M  T  Y  V  T  S  V  S  R  L  M  T  M  T  T  L  G  S  R  F  P  K  R  L  P  P  R  R  F  S  V  D  *  Y  V  H  F  S  K  V  *  D  A  R  I  E  E  S  T  V  G  D  E  T  I  L  T  R  S  C  R  K  T  K  E  A  R  E  *  F  I  D  C  R  N  C  R  A  S  *  N  L  I  T  T  Q  N  N  Y  Q  E  E  V  Q  Q  E  *  E  L  E  T  M  F  V  Y  V  L  V  V  F  P  H  P  *  L  L  A  S  T  C  *  V  P  L  R  L  P  V  P  V  P  S  K  *  T  Y  Q  I  L  V  S  L  S  W  S  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="C00HBa0077H15.1" strand="-"/>
                <serials PGL_serial="6" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="102390" stop="102121"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>267</number_coding_nucleotides>
                  <number_encoded_amino_acids>89</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>VEHHMLLMEMLVYLRDFEGTHYIPLEQEDHNWVVDHAKYDICHECVQTYDNDYTWIEVSKTSSPSPILRRLICTLFKGLRCENRGVNSG*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="7" PGL_strand="+" PGL_start="112253" PGL_stop="112531"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="112253" e_stop="112531"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.968"/>
        </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="0.968">
            <gDNA_exon_boundary e_start="112253" e_stop="112531" e_length="279"/>
          </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="112253" stop="112531"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U604259" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="7" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>ATTTTATTAGAGAAGTCCAACAATCTAATGAAGTGTTGCTTGTTCATTGTACATCTGAGAACCAGCTAGCTGACATTTTCACCAAGTCATTGCCAAAGGAAAGGTTTGAAGATCTGAGGCAAAGAATTAGTGTTTGCCACAAAAATGCCAAGGAGGAGTGTTAGACAATTCACATTTTTTTAGCTTATTATTATTTTTACTGTTTTTTACTTATTTCAATTTAGTGCTTCCTATTTTCTAGCTAGACTTAGTCAACTTTAGTTGCTCAACTTTCTTAAG</gDNA_template>
            <first_frame> I  L  L  E  K  S  N  N  L  M  K  C  C  L  F  I  V  H  L  R  T  S  *  L  T  F  S  P  S  H  C  Q  R  K  G  L  K  I  *  G  K  E  L  V  F  A  T  K  M  P  R  R  S  V  R  Q  F  T  F  F  *  L  I  I  I  F  T  V  F  Y  L  F  Q  F  S  A  S  Y  F  L  A  R  L  S  Q  L  *  L  L  N  F  L  K </first_frame>
            <second_frame>  F  Y  *  R  S  P  T  I  *  *  S  V  A  C  S  L  Y  I  *  E  P  A  S  *  H  F  H  Q  V  I  A  K  G  K  V  *  R  S  E  A  K  N  *  C  L  P  Q  K  C  Q  G  G  V  L  D  N  S  H  F  F  S  L  L  L  F  L  L  F  F  T  Y  F  N  L  V  L  P  I  F  *  L  D  L  V  N  F  S  C  S  T  F  L   </second_frame>
            <third_frame>   F  I  R  E  V  Q  Q  S  N  E  V  L  L  V  H  C  T  S  E  N  Q  L  A  D  I  F  T  K  S  L  P  K  E  R  F  E  D  L  R  Q  R  I  S  V  C  H  K  N  A  K  E  E  C  *  T  I  H  I  F  L  A  Y  Y  Y  F  Y  C  F  L  L  I  S  I  *  C  F  L  F  S  S  *  T  *  S  T  L  V  A  Q  L  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="C00HBa0077H15.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 74 chains have been computed
$ 
$ memory statistics:
$ 15000 bytes spliced alignments in total
$ 7 spliced alignments have been stored
$ 2142 bytes was the average size of a spliced alignment
$ 12744 bytes predicted gene locations in total
$ 7 predicted gene locations have been stored
$ 1820 bytes was the average size of a predicted gene location
$ 1 megabytes was the average size of the backtrace matrix
$ 92 backtrace matrices have been allocated
$ 
$ date finished: 2009-12-01 05:33:30
-->
