<?xml version="1.0" encoding="ISO-8859-1"?>
<GTH_output xmlns="http://www.genomethreader.org/GTH_output/" GTH_XML_version="1.1">
  <header xmlns="http://www.genomethreader.org/GTH_output/header/">
    <source program="GenomeThreader" version="0.9.54" build_date="2006-07-28 11:55:15" run_date="2009-01-16 14:24:27"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C06SLe0120K02-przOm/GenomeThreader_SGN_E_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C06SLe0120K02-przOm/gth_cdna_fileCXGN::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-C06SLe0120K02-przOm/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E243215" ref_strand="+" ref_description="SGN-E243215 [cLEE-2-E2]">
      <seq>ttattgtagatgaccaattttttcttcgaatacgaaattaaattacaatacacacaaaaaaaatatttgaattttttttatttaaactaaggaatgaaagaaaaaaacaaaataagaataagaaactcaaattattataataaaagaagtcaaaaaataatttttgtatgaaaaaattaaaatataccttgaactttgatagaagaatcatatatatccctaaatattttttttaaaaaaaaattagaagtaacaaatataaatttaaaactaattttttaactttcgttaaatgaagggtatatgtgagccattttctaacggcaggggtatatgtgagccgtttgtataacgataagggcatatatgaaccacttttattacgagggatatatcagctctaaatgacaaagttgagaggtatatcagacccttttccctattttttaaaatttcatac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C06SLe0120K02-przOm/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C06SLe0120K02.1" temp_strand="+" temp_description="C06SLe0120K02.1  AC232862.1 htgs_phase:3 submitted_to_sgn_as:C06SLe0120K02 sequenced_by:cbsg upload_account_name:netherlands [organism=Solanum lycopersicum]">
        <position start="6580" stop="7622"/>
      </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="6880" g_stop="7308" g_length="429"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="427" r_length="427" r_score="0.928"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C06SLe0120K02.1" gen_strand="+" ref_id="SGN-E243215" ref_strand="+">
        <total_alignment_score>0.928</total_alignment_score>
        <cumulative_length_of_scored_exons>429</cumulative_length_of_scored_exons>
        <coverage percentage="0.933" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C06SLe0120K02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E243215" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="6880" e_stop="7308"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTATTGTAGATGACCAAATTTTTTCTTCGAATACGAAATTAAATTACTATACACACAAAAAAAATAGTTTAATTTTTTATTCTTTAAACTAAGGAATGAAAGAAAACAACAAAATAAGAATAAGAAATTCAAATAATTATAATAAAAGAAGTCAAAAAATAATTTATGTATGAAAAAAATTAAAATTATACCTTGAACTTTGATAGAAGAATCATATATACCCCTAAATAATTTTTTT-TAAAAAAA-TAGAAGTAATAAATATAAATTTAAAACTAATTTTTTAACTTCCGTTAAATGAAGGGTATATGTGAGCCATTTTGTAATGGCAGGGGTATATGTGAGTCATTTGTATAACGGTAAGGGCATATATGAGCCACTTTTATAACGAGGGGTATATCAGCTCCAAATGACAAAGTTGAGGGGTATATC</genome_strand>
        <mrna_strand>TTATTGTAGATGACC-AATTTTTTCTTCGAATACGAAATTAAATTACAATACACACAAAAAAAATATTTGAATTTTTT-TTATTTAAACTAAGGAATGAAAGAAAAAAACAAAATAAGAATAAGAAACTCAAATTATTATAATAAAAGAAGTCAAAAAATAATTTTTGTATG-AAAAAATTAAAA-TATACCTTGAACTTTGATAGAAGAATCATATATATCCCTAAATATTTTTTTTAAAAAAAAATTAGAAGTAACAAATATAAATTTAAAACTAATTTTTTAACTTTCGTTAAATGAAGGGTATATGTGAGCCATTTTCTAACGGCAGGGGTATATGTGAGCCGTTTGTATAACGATAAGGGCATATATGAACCACTTTTATTACGAGGGATATATCAGCTCTAAATGACAAAGTTGAGAGGTATATC</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-C06SLe0120K02-przOm/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E545548" ref_strand="+" ref_description="SGN-E545548 [TUS-68-H7](-)">
      <seq>cgcgcttttaaaaaaatagagacaaaaaatctaatgcaattatcaatcttccgatcaggggtcaatagaattccaaattgccctattggaattttgaatcttatcaacatctgtcttgtacttatagtttcaattccagcaattcagggtatgagaatgcatcctctctccttgaatccaaaaattggacgaattgattctaatttttcacaacagcaacaacacgttcctaattccgcaatgaagaaactccggagacttcctcacgtatttaactactttttggaattgccgttccgttctgatgcagatgtggcggtcgaagagaaggaaggattcttccgtttcgtggcgaaaatcgaactaggaggagcttggaatggacaagtgagagcacaggcagtagagatttatcctggggtaacgaagatcgttgtgagaaagggaaatggagacggtgatgacgatgaaaaattgaatgtggatacatggaggtacaggttgcctgcttcgactatgccggagatggccacagcggtatttgtggacggtgagcttgtagtgacggtgcccaaggatgaccatggccatggagagtttgataatagaggtgtttggagagacgttgaccaacttgttcttgtacaatagttaactttttcatatttgatgtattaattacacaaacaaataactatattggaatatatgtttatgacgaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C06SLe0120K02-przOm/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C06SLe0120K02.1" temp_strand="-" temp_description="C06SLe0120K02.1  AC232862.1 htgs_phase:3 submitted_to_sgn_as:C06SLe0120K02 sequenced_by:cbsg upload_account_name:netherlands [organism=Solanum lycopersicum]">
        <position start="43798" stop="42478"/>
      </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="43499" g_stop="42771" g_length="729"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="730" r_length="730" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C06SLe0120K02.1" gen_strand="-" ref_id="SGN-E545548" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>729</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C06SLe0120K02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E545548" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43499" e_stop="42771"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCGCTTTTAAAAAAATAGAGACAAAAAATCTAATGCAATTATCAATCTTCCGATCAGGGGTCAATAGAATTCCAAATTGCCCTATTGGAATTTTGAATCTTATCAACATCTGTCTTCTACTTATCGTTTCAATTCCAACAATTCAGGGTATGAGAATGCATCCTCTCTCCTTGAATCCAAAAATTGGACGAATTGATTCTAATTTTTCACAACAGCAACAACACGTTCCTAATTCCGCAATGAAGAAACTCCGGAGACTTCCTCACGTATTTAACTACTTTTTGGAATTGCCGTTCCGTTCTGATGCAGATGTGGCGGTCGAAGAGAAGGAAGGATTCTTCCGTTTCGTGGCGAAAATCGAACTAGGAGGAGCTTGGAATGGACAAGTGAGAGCACAGGCAGTAGAGATTTATCCTGGGGTAACGAAGATCGTTGTGAGAAAGGGAAATGGAGACGGTGATGACGATGAAAAATTGAATGTGGATACATGGAGGTACAGGTTGCCTGCTTCGACTATGCCGGAGATGGCCACAGCGGTATTTGTGGACGGTGAGCTTGTAGTGACGGTGCCCAAGGATGACCATGGCCATGGAGAGTTTGATAATAGAGGTGTTTGGAGAGACGTTGACCAACTTGTTCTTGTACAATAGTTAACTTTTTCATATTTGATGTATTAATTACACAAACAAAT-ACTATATTGGAATATATGTTTATGACGAAACTTCAAT</genome_strand>
        <mrna_strand>CGCGCTTTTAAAAAAATAGAGACAAAAAATCTAATGCAATTATCAATCTTCCGATCAGGGGTCAATAGAATTCCAAATTGCCCTATTGGAATTTTGAATCTTATCAACATCTGTCTTGTACTTATAGTTTCAATTCCAGCAATTCAGGGTATGAGAATGCATCCTCTCTCCTTGAATCCAAAAATTGGACGAATTGATTCTAATTTTTCACAACAGCAACAACACGTTCCTAATTCCGCAATGAAGAAACTCCGGAGACTTCCTCACGTATTTAACTACTTTTTGGAATTGCCGTTCCGTTCTGATGCAGATGTGGCGGTCGAAGAGAAGGAAGGATTCTTCCGTTTCGTGGCGAAAATCGAACTAGGAGGAGCTTGGAATGGACAAGTGAGAGCACAGGCAGTAGAGATTTATCCTGGGGTAACGAAGATCGTTGTGAGAAAGGGAAATGGAGACGGTGATGACGATGAAAAATTGAATGTGGATACATGGAGGTACAGGTTGCCTGCTTCGACTATGCCGGAGATGGCCACAGCGGTATTTGTGGACGGTGAGCTTGTAGTGACGGTGCCCAAGGATGACCATGGCCATGGAGAGTTTGATAATAGAGGTGTTTGGAGAGACGTTGACCAACTTGTTCTTGTACAATAGTTAACTTTTTCATATTTGATGTATTAATTACACAAACAAATAACTATATTGGAATATATGTTTATGACGAAAAAAAAAA</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-C06SLe0120K02-przOm/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E719243" ref_strand="+" ref_description="SGN-E719243 [FC07AH01]">
      <seq>gggcgattggcggcaaatcggccgaattgagagaaaaaaatcccataaattatcaatcttccgatcaggggtcaatagaattcccaattgccctattggaattttgaatcttatcaacatctgtcttctacttatcgtttcaattccaacaattcagggtatgagaatgcatcctctctccttgaatccaaaaattggacgaattgattctaatttttcacaacagcaacaacacgttcctaattccgcaatgaaaaaactccggagacttcctcacgtatttaactactttttggaattgccgttccgttctgatgcaaatgtggcggtcgaaaagaaggaaggattcttccgtttcgtggcgaaaatcgaactaggaggagcttggaatggacaagtgagagcacaggcagtagagatttatcctggggtaacgaaaatcgttgtgagaaagggaaatggagacggtgatgactatcaaaaattgaatgtggatacttggaggtacaggttgcctgcttcgactatgccggagatggccacagcggtatttgtggacggtgagcttgtagtgacggtgcccaaggatgaccatggccatggagagtttgataatagaggtgtttggagagacattgaccaacttgttcttgtacaatagttaactttttcatatttgatgtattaattacacaaacaaatactatattggaatatatgtttatgacgaaact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C06SLe0120K02-przOm/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C06SLe0120K02.1" temp_strand="-" temp_description="C06SLe0120K02.1  AC232862.1 htgs_phase:3 submitted_to_sgn_as:C06SLe0120K02 sequenced_by:cbsg upload_account_name:netherlands [organism=Solanum lycopersicum]">
        <position start="43762" stop="42476"/>
      </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="43480" g_stop="42776" g_length="705"/>
          <reference_exon_boundary r_type="cDNA" r_start="32" r_stop="734" r_length="703" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C06SLe0120K02.1" gen_strand="-" ref_id="SGN-E719243" ref_strand="+">
        <total_alignment_score>0.980</total_alignment_score>
        <cumulative_length_of_scored_exons>705</cumulative_length_of_scored_exons>
        <coverage percentage="0.960" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C06SLe0120K02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E719243" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43480" e_stop="42776"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGACAAAAAATCTAATGCAATTATCAATCTTCCGATCAGGGGTCAATAGAATTCCAAATTGCCCTATTGGAATTTTGAATCTTATCAACATCTGTCTTCTACTTATCGTTTCAATTCCAACAATTCAGGGTATGAGAATGCATCCTCTCTCCTTGAATCCAAAAATTGGACGAATTGATTCTAATTTTTCACAACAGCAACAACACGTTCCTAATTCCGCAATGAAGAAACTCCGGAGACTTCCTCACGTATTTAACTACTTTTTGGAATTGCCGTTCCGTTCTGATGCAGATGTGGCGGTCGAAGAGAAGGAAGGATTCTTCCGTTTCGTGGCGAAAATCGAACTAGGAGGAGCTTGGAATGGACAAGTGAGAGCACAGGCAGTAGAGATTTATCCTGGGGTAACGAAGATCGTTGTGAGAAAGGGAAATGGAGACGGTGATGACGATGAAAAATTGAATGTGGATACATGGAGGTACAGGTTGCCTGCTTCGACTATGCCGGAGATGGCCACAGCGGTATTTGTGGACGGTGAGCTTGTAGTGACGGTGCCCAAGGATGACCATGGCCATGGAGAGTTTGATAATAGAGGTGTTTGGAGAGACGTTGACCAACTTGTTCTTGTACAATAGTTAACTTTTTCATATTTGATGTATTAATTACACAAACAAATACTATATTGGAATATATGTTTATGACGAAACT</genome_strand>
        <mrna_strand>AGA-AAAAAATCCCAT-AAATTATCAATCTTCCGATCAGGGGTCAATAGAATTCCCAATTGCCCTATTGGAATTTTGAATCTTATCAACATCTGTCTTCTACTTATCGTTTCAATTCCAACAATTCAGGGTATGAGAATGCATCCTCTCTCCTTGAATCCAAAAATTGGACGAATTGATTCTAATTTTTCACAACAGCAACAACACGTTCCTAATTCCGCAATGAAAAAACTCCGGAGACTTCCTCACGTATTTAACTACTTTTTGGAATTGCCGTTCCGTTCTGATGCAAATGTGGCGGTCGAAAAGAAGGAAGGATTCTTCCGTTTCGTGGCGAAAATCGAACTAGGAGGAGCTTGGAATGGACAAGTGAGAGCACAGGCAGTAGAGATTTATCCTGGGGTAACGAAAATCGTTGTGAGAAAGGGAAATGGAGACGGTGATGACTATCAAAAATTGAATGTGGATACTTGGAGGTACAGGTTGCCTGCTTCGACTATGCCGGAGATGGCCACAGCGGTATTTGTGGACGGTGAGCTTGTAGTGACGGTGCCCAAGGATGACCATGGCCATGGAGAGTTTGATAATAGAGGTGTTTGGAGAGACATTGACCAACTTGTTCTTGTACAATAGTTAACTTTTTCATATTTGATGTATTAATTACACAAACAAATACTATATTGGAATATATGTTTATGACGAAACT</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-C06SLe0120K02-przOm/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E310887" ref_strand="+" ref_description="SGN-E310887 [cLEZ-17-G19]">
      <seq>gcttttaaaaaaatagagacaaaaaatctaatgcaattatcaatcttccgatcaggggtcaatagaattccaaattgccctattggaattttgaatcttatcaacatctgtcttctacttatcgtttcaattccaacaattcagggtatgagaatgcatcctctctccttgaatccaaaaattggacgaattgattctaatttttcacaacagcaacaacacgttcctaattccgcaatgaagaaactccggagacttcctcacgtatttaactactttttggaattgccgttccgttctgatgcagatgtggcggtcgaagagaaggaaggattcttccgtttcgtggcgaaaatcgaactaggaggagcttggaatggacaagtgagagcacaggcagtagagatttatcctggggtaacgaagatcgttgtgagaaagggaaatggagacggtgatgacgatgaaaaattgaatgtggatacat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C06SLe0120K02-przOm/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C06SLe0120K02.1" temp_strand="-" temp_description="C06SLe0120K02.1  AC232862.1 htgs_phase:3 submitted_to_sgn_as:C06SLe0120K02 sequenced_by:cbsg upload_account_name:netherlands [organism=Solanum lycopersicum]">
        <position start="43796" stop="42710"/>
      </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="43496" g_stop="43010" g_length="487"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="487" r_length="487" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C06SLe0120K02.1" gen_strand="-" ref_id="SGN-E310887" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>487</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C06SLe0120K02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E310887" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43496" e_stop="43010"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTTTTAAAAAAATAGAGACAAAAAATCTAATGCAATTATCAATCTTCCGATCAGGGGTCAATAGAATTCCAAATTGCCCTATTGGAATTTTGAATCTTATCAACATCTGTCTTCTACTTATCGTTTCAATTCCAACAATTCAGGGTATGAGAATGCATCCTCTCTCCTTGAATCCAAAAATTGGACGAATTGATTCTAATTTTTCACAACAGCAACAACACGTTCCTAATTCCGCAATGAAGAAACTCCGGAGACTTCCTCACGTATTTAACTACTTTTTGGAATTGCCGTTCCGTTCTGATGCAGATGTGGCGGTCGAAGAGAAGGAAGGATTCTTCCGTTTCGTGGCGAAAATCGAACTAGGAGGAGCTTGGAATGGACAAGTGAGAGCACAGGCAGTAGAGATTTATCCTGGGGTAACGAAGATCGTTGTGAGAAAGGGAAATGGAGACGGTGATGACGATGAAAAATTGAATGTGGATACAT</genome_strand>
        <mrna_strand>GCTTTTAAAAAAATAGAGACAAAAAATCTAATGCAATTATCAATCTTCCGATCAGGGGTCAATAGAATTCCAAATTGCCCTATTGGAATTTTGAATCTTATCAACATCTGTCTTCTACTTATCGTTTCAATTCCAACAATTCAGGGTATGAGAATGCATCCTCTCTCCTTGAATCCAAAAATTGGACGAATTGATTCTAATTTTTCACAACAGCAACAACACGTTCCTAATTCCGCAATGAAGAAACTCCGGAGACTTCCTCACGTATTTAACTACTTTTTGGAATTGCCGTTCCGTTCTGATGCAGATGTGGCGGTCGAAGAGAAGGAAGGATTCTTCCGTTTCGTGGCGAAAATCGAACTAGGAGGAGCTTGGAATGGACAAGTGAGAGCACAGGCAGTAGAGATTTATCCTGGGGTAACGAAGATCGTTGTGAGAAAGGGAAATGGAGACGGTGATGACGATGAAAAATTGAATGTGGATACAT</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-C06SLe0120K02-przOm/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E205417" ref_strand="+" ref_description="SGN-E205417 [cLEC-28-F13]">
      <seq>aactttccagaaattgaaaaagagttgccaaaacattggtaacaagtacagatgtttattccataaatttatttcttctaactaatacatgctgggaattcagaactcaaatttgatttcatccaaatatttcaagtggagatgaacattcaacttcccctgtgttaatcctctataactagcttatgttgaaatctgtacatcatccctgtataactgaaatgcaaatggagccataaatatatactagcagcttggaggtaatacaaattccagctagagatttggtgcatgactcattcagctatgatgcaatactccgcgtatcaaggagagagcagattcgcaataattttaggtacatgcaaggggcatttgtgaggtctacttggtcgattgaagaaagctcaaacatccatgttctccttgtgacgcatcctatgcctacgctgggaccttttctggttatagttatgccttctaggcagtgagctaaatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C06SLe0120K02-przOm/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C06SLe0120K02.1" temp_strand="+" temp_description="C06SLe0120K02.1  AC232862.1 htgs_phase:3 submitted_to_sgn_as:C06SLe0120K02 sequenced_by:cbsg upload_account_name:netherlands [organism=Solanum lycopersicum]">
        <position start="43759" stop="44857"/>
      </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="44059" g_stop="44557" g_length="499"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="499" r_length="499" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C06SLe0120K02.1" gen_strand="+" ref_id="SGN-E205417" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>499</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C06SLe0120K02.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E205417" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="44059" e_stop="44557"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACTTTCCAGAAATTGAAAAAGAGTTGCCAAAACATTGGTAACAAGTACAGATGTTTATTCCATAAATTTATTTCTTCTAACTAATACATGCTGGGAATTCAGAACTCAAATTTGATTTCATCCAAATATTTCAAGTGGAGATGAACATTCAACTTCCCCTGTGTTAATCCTCTATAACTAGCTTATGTTGAAATCTGTACATCATCCCTGTATAACTGAAATGCAAATGGAGCCATAAATATATACTAGCAGCTTGGAGGTAATACAAATTCCAGCTAGAGATTTGGTGCATGACTCATTCAGCTATGATGCAATACTCCGCGTATCAAGGAGAGAGCAGATTCGCAATAATTTTAGGTACATGCAAGGGGCATTTGTGAGGTCTACTTGGTCGATTGAAGAAAGCTCAAACATCCATGTTCTCCTTGTGACGCATCCTATGCCTACGCTGGGACCTTTTCTGGTTATAGTTATGCCTTCTAGGCAGTGAGCTAAATG</genome_strand>
        <mrna_strand>AACTTTCCAGAAATTGAAAAAGAGTTGCCAAAACATTGGTAACAAGTACAGATGTTTATTCCATAAATTTATTTCTTCTAACTAATACATGCTGGGAATTCAGAACTCAAATTTGATTTCATCCAAATATTTCAAGTGGAGATGAACATTCAACTTCCCCTGTGTTAATCCTCTATAACTAGCTTATGTTGAAATCTGTACATCATCCCTGTATAACTGAAATGCAAATGGAGCCATAAATATATACTAGCAGCTTGGAGGTAATACAAATTCCAGCTAGAGATTTGGTGCATGACTCATTCAGCTATGATGCAATACTCCGCGTATCAAGGAGAGAGCAGATTCGCAATAATTTTAGGTACATGCAAGGGGCATTTGTGAGGTCTACTTGGTCGATTGAAGAAAGCTCAAACATCCATGTTCTCCTTGTGACGCATCCTATGCCTACGCTGGGACCTTTTCTGGTTATAGTTATGCCTTCTAGGCAGTGAGCTAAATG</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-C06SLe0120K02-przOm/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E578246" ref_strand="+" ref_description="SGN-E578246 [LE12BC07]">
      <seq>aaaagtaccaataaatctcataaaaaacaaagccaaaaaaggtactttaattaaaaaaaatcaagaaaattgagtgatggaaatagtattggcaaagtgtgattgttgtggattaaaagaagagtgtacaatagagtacataagtgaagtgaaagagaattttgaaggtaaatggctatgtggattatgttcagaagctgttagagatgaatttaatagaggaaacaagaagcaatattttattgaaatggaagaagctttaaaagctcacatgtcattttgtagaaaatataagtctaataatcctgctgttcatgtagctgatggtatgaggcaaatgttaagaagaaggtcaggtgatttgtcaactaattcttcttctaagaagtatacaagtagatcaatcactacataataataagtaggagatgtatcttcttttatcaaacgtatcgaattcgagcattaataatatataaaattattagtatatacgtacatttttctttttaatagatttgtatatgtgatatgaattcgaattagtcaaattagcttaaccagtttcacatatggtctaattagttagaaggttgaaaaataagacctcacgatcccttttgatggctaaatcttaatgtaccaatctttgtgttgtacatatatatagaatgttagtaatatnttttagtggagaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C06SLe0120K02-przOm/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C06SLe0120K02.1" temp_strand="-" temp_description="C06SLe0120K02.1  AC232862.1 htgs_phase:3 submitted_to_sgn_as:C06SLe0120K02 sequenced_by:cbsg upload_account_name:netherlands [organism=Solanum lycopersicum]">
        <position start="55468" stop="54172"/>
      </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="55168" g_stop="54472" g_length="697"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="697" r_length="697" r_score="0.999"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="54471" i_stop="54322" i_length="150">
            <donor d_prob="0.000" d_score="0.98"/>
            <acceptor a_prob="0.834" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="54321" g_stop="54313" g_length="9"/>
          <reference_exon_boundary r_type="cDNA" r_start="698" r_stop="706" r_length="9" r_score="0.667"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C06SLe0120K02.1" gen_strand="-" ref_id="SGN-E578246" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>706</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C06SLe0120K02.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E578246" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="55168" e_stop="54472"/>
          <exon e_start="54321" e_stop="54313"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAAGTACCAATAAATCTCATAAAAAACAAAGCCAAAAAAGGTACTTTAATTAAAAAAAATCAAGAAAATTGAGTGATGGAAATAGTATTGGCAAAGTGTGATTGTTGTGGATTAAAAGAAGAGTGTACAATAGAGTACATAAGTGAAGTGAAAGAGAATTTTGAAGGTAAATGGCTATGTGGATTATGTTCAGAAGCTGTTAGAGATGAATTTAATAGAGGAAACAAGAAGCAATATTTTATTGAAATGGAAGAAGCTTTAAAAGCTCACATGTCATTTTGTAGAAAATATAAGTCTAATAATCCTGCTGTTCATGTAGCTGATGGTATGAGGCAAATGTTAAGAAGAAGGTCAGGTGATTTGTCAACTAATTCTTCTTCTAAGAAGTATACAAGTAGATCAATCACTACATAATAATAAGTAGGAGATGTATCTTCTTTTATCAAACGTATCGAATTCGAGCATTAATAATATATAAAATTATTAGTATATACGTACATTTTTCTTTTTAATAGATTTGTATATGTGATATGAATTCGAATTAGTCAAATTAGCTTAACCAGTTTCACATATGGTCTAATTAGTTAGAAGGTTGAAAAATAAGACCTCACGATCCCTTTTGATGGCTAAATCTTAATGTACCAATCTTTGTGTTGTACATATATATAGAATGTTAGTAATATTTTTTAGTGGAGAGTACTATTGTGTTAATAATTTTGTTTAATTTCTCTTTGTTCATGGGAGTTTATGTTGTTTATTTTTGAGTGAATAGGTTAAAGAGTTCCTAAATTTAATAGTATTATTTTTTGTTGTTTTTTTTTTCTTTTGGATTATAACTCATTGCAGATTAAAAAT</genome_strand>
        <mrna_strand>AAAAGTACCAATAAATCTCATAAAAAACAAAGCCAAAAAAGGTACTTTAATTAAAAAAAATCAAGAAAATTGAGTGATGGAAATAGTATTGGCAAAGTGTGATTGTTGTGGATTAAAAGAAGAGTGTACAATAGAGTACATAAGTGAAGTGAAAGAGAATTTTGAAGGTAAATGGCTATGTGGATTATGTTCAGAAGCTGTTAGAGATGAATTTAATAGAGGAAACAAGAAGCAATATTTTATTGAAATGGAAGAAGCTTTAAAAGCTCACATGTCATTTTGTAGAAAATATAAGTCTAATAATCCTGCTGTTCATGTAGCTGATGGTATGAGGCAAATGTTAAGAAGAAGGTCAGGTGATTTGTCAACTAATTCTTCTTCTAAGAAGTATACAAGTAGATCAATCACTACATAATAATAAGTAGGAGATGTATCTTCTTTTATCAAACGTATCGAATTCGAGCATTAATAATATATAAAATTATTAGTATATACGTACATTTTTCTTTTTAATAGATTTGTATATGTGATATGAATTCGAATTAGTCAAATTAGCTTAACCAGTTTCACATATGGTCTAATTAGTTAGAAGGTTGAAAAATAAGACCTCACGATCCCTTTTGATGGCTAAATCTTAATGTACCAATCTTTGTGTTGTACATATATATAGAATGTTAGTAATATNTTTTAGTGGAGA......................................................................................................................................................AAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>6</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="6880" PGL_stop="7308"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="6880" e_stop="7308"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.928"/>
        </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="0.928">
            <gDNA_exon_boundary e_start="6880" e_stop="7308" e_length="429"/>
          </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="6880" stop="7308"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E243215" 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>TTATTGTAGATGACCAAATTTTTTCTTCGAATACGAAATTAAATTACTATACACACAAAAAAAATAGTTTAATTTTTTATTCTTTAAACTAAGGAATGAAAGAAAACAACAAAATAAGAATAAGAAATTCAAATAATTATAATAAAAGAAGTCAAAAAATAATTTATGTATGAAAAAAATTAAAATTATACCTTGAACTTTGATAGAAGAATCATATATACCCCTAAATAATTTTTTTTAAAAAAATAGAAGTAATAAATATAAATTTAAAACTAATTTTTTAACTTCCGTTAAATGAAGGGTATATGTGAGCCATTTTGTAATGGCAGGGGTATATGTGAGTCATTTGTATAACGGTAAGGGCATATATGAGCCACTTTTATAACGAGGGGTATATCAGCTCCAAATGACAAAGTTGAGGGGTATATC</gDNA_template>
            <first_frame> L  L  *  M  T  K  F  F  L  R  I  R  N  *  I  T  I  H  T  K  K  I  V  *  F  F  I  L  *  T  K  E  *  K  K  T  T  K  *  E  *  E  I  Q  I  I  I  I  K  E  V  K  K  *  F  M  Y  E  K  N  *  N  Y  T  L  N  F  D  R  R  I  I  Y  T  P  K  *  F  F  L  K  K  *  K  *  *  I  *  I  *  N  *  F  F  N  F  R  *  M  K  G  I  C  E  P  F  C  N  G  R  G  I  C  E  S  F  V  *  R  *  G  H  I  *  A  T  F  I  T  R  G  I  S  A  P  N  D  K  V  E  G  Y  I </first_frame>
            <second_frame>  Y  C  R  *  P  N  F  F  F  E  Y  E  I  K  L  L  Y  T  Q  K  K  *  F  N  F  L  F  F  K  L  R  N  E  R  K  Q  Q  N  K  N  K  K  F  K  *  L  *  *  K  K  S  K  N  N  L  C  M  K  K  I  K  I  I  P  *  T  L  I  E  E  S  Y  I  P  L  N  N  F  F  *  K  N  R  S  N  K  Y  K  F  K  T  N  F  L  T  S  V  K  *  R  V  Y  V  S  H  F  V  M  A  G  V  Y  V  S  H  L  Y  N  G  K  G  I  Y  E  P  L  L  *  R  G  V  Y  Q  L  Q  M  T  K  L  R  G  I   </second_frame>
            <third_frame>   I  V  D  D  Q  I  F  S  S  N  T  K  L  N  Y  Y  T  H  K  K  N  S  L  I  F  Y  S  L  N  *  G  M  K  E  N  N  K  I  R  I  R  N  S  N  N  Y  N  K  R  S  Q  K  I  I  Y  V  *  K  K  L  K  L  Y  L  E  L  *  *  K  N  H  I  Y  P  *  I  I  F  F  K  K  I  E  V  I  N  I  N  L  K  L  I  F  *  L  P  L  N  E  G  Y  M  *  A  I  L  *  W  Q  G  Y  M  *  V  I  C  I  T  V  R  A  Y  M  S  H  F  Y  N  E  G  Y  I  S  S  K  *  Q  S  *  G  V  Y  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C06SLe0120K02.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="2" PGL_strand="-" PGL_start="43499" PGL_stop="42771"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="43499" e_stop="42771"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.985"/>
        </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="0.985">
            <gDNA_exon_boundary e_start="43499" e_stop="42771" e_length="729"/>
          </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="43499" stop="42771"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E545548" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43496" stop="43010"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E310887" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43480" stop="42776"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E719243" 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>AGCGCTTTTAAAAAAATAGAGACAAAAAATCTAATGCAATTATCAATCTTCCGATCAGGGGTCAATAGAATTCCAAATTGCCCTATTGGAATTTTGAATCTTATCAACATCTGTCTTCTACTTATCGTTTCAATTCCAACAATTCAGGGTATGAGAATGCATCCTCTCTCCTTGAATCCAAAAATTGGACGAATTGATTCTAATTTTTCACAACAGCAACAACACGTTCCTAATTCCGCAATGAAGAAACTCCGGAGACTTCCTCACGTATTTAACTACTTTTTGGAATTGCCGTTCCGTTCTGATGCAGATGTGGCGGTCGAAGAGAAGGAAGGATTCTTCCGTTTCGTGGCGAAAATCGAACTAGGAGGAGCTTGGAATGGACAAGTGAGAGCACAGGCAGTAGAGATTTATCCTGGGGTAACGAAGATCGTTGTGAGAAAGGGAAATGGAGACGGTGATGACGATGAAAAATTGAATGTGGATACATGGAGGTACAGGTTGCCTGCTTCGACTATGCCGGAGATGGCCACAGCGGTATTTGTGGACGGTGAGCTTGTAGTGACGGTGCCCAAGGATGACCATGGCCATGGAGAGTTTGATAATAGAGGTGTTTGGAGAGACGTTGACCAACTTGTTCTTGTACAATAGTTAACTTTTTCATATTTGATGTATTAATTACACAAACAAATACTATATTGGAATATATGTTTATGACGAAACTTCAAT</gDNA_template>
            <first_frame> S  A  F  K  K  I  E  T  K  N  L  M  Q  L  S  I  F  R  S  G  V  N  R  I  P  N  C  P  I  G  I  L  N  L  I  N  I  C  L  L  L  I  V  S  I  P  T  I  Q  G  M  R  M  H  P  L  S  L  N  P  K  I  G  R  I  D  S  N  F  S  Q  Q  Q  Q  H  V  P  N  S  A  M  K  K  L  R  R  L  P  H  V  F  N  Y  F  L  E  L  P  F  R  S  D  A  D  V  A  V  E  E  K  E  G  F  F  R  F  V  A  K  I  E  L  G  G  A  W  N  G  Q  V  R  A  Q  A  V  E  I  Y  P  G  V  T  K  I  V  V  R  K  G  N  G  D  G  D  D  D  E  K  L  N  V  D  T  W  R  Y  R  L  P  A  S  T  M  P  E  M  A  T  A  V  F  V  D  G  E  L  V  V  T  V  P  K  D  D  H  G  H  G  E  F  D  N  R  G  V  W  R  D  V  D  Q  L  V  L  V  Q  *  L  T  F  S  Y  L  M  Y  *  L  H  K  Q  I  L  Y  W  N  I  C  L  *  R  N  F  N </first_frame>
            <second_frame>  A  L  L  K  K  *  R  Q  K  I  *  C  N  Y  Q  S  S  D  Q  G  S  I  E  F  Q  I  A  L  L  E  F  *  I  L  S  T  S  V  F  Y  L  S  F  Q  F  Q  Q  F  R  V  *  E  C  I  L  S  P  *  I  Q  K  L  D  E  L  I  L  I  F  H  N  S  N  N  T  F  L  I  P  Q  *  R  N  S  G  D  F  L  T  Y  L  T  T  F  W  N  C  R  S  V  L  M  Q  M  W  R  S  K  R  R  K  D  S  S  V  S  W  R  K  S  N  *  E  E  L  G  M  D  K  *  E  H  R  Q  *  R  F  I  L  G  *  R  R  S  L  *  E  R  E  M  E  T  V  M  T  M  K  N  *  M  W  I  H  G  G  T  G  C  L  L  R  L  C  R  R  W  P  Q  R  Y  L  W  T  V  S  L  *  *  R  C  P  R  M  T  M  A  M  E  S  L  I  I  E  V  F  G  E  T  L  T  N  L  F  L  Y  N  S  *  L  F  H  I  *  C  I  N  Y  T  N  K  Y  Y  I  G  I  Y  V  Y  D  E  T  S   </second_frame>
            <third_frame>   R  F  *  K  N  R  D  K  K  S  N  A  I  I  N  L  P  I  R  G  Q  *  N  S  K  L  P  Y  W  N  F  E  S  Y  Q  H  L  S  S  T  Y  R  F  N  S  N  N  S  G  Y  E  N  A  S  S  L  L  E  S  K  N  W  T  N  *  F  *  F  F  T  T  A  T  T  R  S  *  F  R  N  E  E  T  P  E  T  S  S  R  I  *  L  L  F  G  I  A  V  P  F  *  C  R  C  G  G  R  R  E  G  R  I  L  P  F  R  G  E  N  R  T  R  R  S  L  E  W  T  S  E  S  T  G  S  R  D  L  S  W  G  N  E  D  R  C  E  K  G  K  W  R  R  *  *  R  *  K  I  E  C  G  Y  M  E  V  Q  V  A  C  F  D  Y  A  G  D  G  H  S  G  I  C  G  R  *  A  C  S  D  G  A  Q  G  *  P  W  P  W  R  V  *  *  *  R  C  L  E  R  R  *  P  T  C  S  C  T  I  V  N  F  F  I  F  D  V  L  I  T  Q  T  N  T  I  L  E  Y  M  F  M  T  K  L  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="C06SLe0120K02.1" strand="-"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="43499" stop="42849"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>648</number_coding_nucleotides>
                  <number_encoded_amino_acids>216</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SAFKKIETKNLMQLSIFRSGVNRIPNCPIGILNLINICLLLIVSIPTIQGMRMHPLSLNPKIGRIDSNFSQQQQHVPNSAMKKLRRLPHVFNYFLELPFRSDADVAVEEKEGFFRFVAKIELGGAWNGQVRAQAVEIYPGVTKIVVRKGNGDGDDDEKLNVDTWRYRLPASTMPEMATAVFVDGELVVTVPKDDHGHGEFDNRGVWRDVDQLVLVQ*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="3" PGL_strand="+" PGL_start="44059" PGL_stop="44557"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="44059" e_stop="44557"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <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="1.000">
            <gDNA_exon_boundary e_start="44059" e_stop="44557" e_length="499"/>
          </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="44059" stop="44557"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E205417" 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>AACTTTCCAGAAATTGAAAAAGAGTTGCCAAAACATTGGTAACAAGTACAGATGTTTATTCCATAAATTTATTTCTTCTAACTAATACATGCTGGGAATTCAGAACTCAAATTTGATTTCATCCAAATATTTCAAGTGGAGATGAACATTCAACTTCCCCTGTGTTAATCCTCTATAACTAGCTTATGTTGAAATCTGTACATCATCCCTGTATAACTGAAATGCAAATGGAGCCATAAATATATACTAGCAGCTTGGAGGTAATACAAATTCCAGCTAGAGATTTGGTGCATGACTCATTCAGCTATGATGCAATACTCCGCGTATCAAGGAGAGAGCAGATTCGCAATAATTTTAGGTACATGCAAGGGGCATTTGTGAGGTCTACTTGGTCGATTGAAGAAAGCTCAAACATCCATGTTCTCCTTGTGACGCATCCTATGCCTACGCTGGGACCTTTTCTGGTTATAGTTATGCCTTCTAGGCAGTGAGCTAAATG</gDNA_template>
            <first_frame> N  F  P  E  I  E  K  E  L  P  K  H  W  *  Q  V  Q  M  F  I  P  *  I  Y  F  F  *  L  I  H  A  G  N  S  E  L  K  F  D  F  I  Q  I  F  Q  V  E  M  N  I  Q  L  P  L  C  *  S  S  I  T  S  L  C  *  N  L  Y  I  I  P  V  *  L  K  C  K  W  S  H  K  Y  I  L  A  A  W  R  *  Y  K  F  Q  L  E  I  W  C  M  T  H  S  A  M  M  Q  Y  S  A  Y  Q  G  E  S  R  F  A  I  I  L  G  T  C  K  G  H  L  *  G  L  L  G  R  L  K  K  A  Q  T  S  M  F  S  L  *  R  I  L  C  L  R  W  D  L  F  W  L  *  L  C  L  L  G  S  E  L  N  </first_frame>
            <second_frame>  T  F  Q  K  L  K  K  S  C  Q  N  I  G  N  K  Y  R  C  L  F  H  K  F  I  S  S  N  *  Y  M  L  G  I  Q  N  S  N  L  I  S  S  K  Y  F  K  W  R  *  T  F  N  F  P  C  V  N  P  L  *  L  A  Y  V  E  I  C  T  S  S  L  Y  N  *  N  A  N  G  A  I  N  I  Y  *  Q  L  G  G  N  T  N  S  S  *  R  F  G  A  *  L  I  Q  L  *  C  N  T  P  R  I  K  E  R  A  D  S  Q  *  F  *  V  H  A  R  G  I  C  E  V  Y  L  V  D  *  R  K  L  K  H  P  C  S  P  C  D  A  S  Y  A  Y  A  G  T  F  S  G  Y  S  Y  A  F  *  A  V  S  *  M </second_frame>
            <third_frame>   L  S  R  N  *  K  R  V  A  K  T  L  V  T  S  T  D  V  Y  S  I  N  L  F  L  L  T  N  T  C  W  E  F  R  T  Q  I  *  F  H  P  N  I  S  S  G  D  E  H  S  T  S  P  V  L  I  L  Y  N  *  L  M  L  K  S  V  H  H  P  C  I  T  E  M  Q  M  E  P  *  I  Y  T  S  S  L  E  V  I  Q  I  P  A  R  D  L  V  H  D  S  F  S  Y  D  A  I  L  R  V  S  R  R  E  Q  I  R  N  N  F  R  Y  M  Q  G  A  F  V  R  S  T  W  S  I  E  E  S  S  N  I  H  V  L  L  V  T  H  P  M  P  T  L  G  P  F  L  V  I  V  M  P  S  R  Q  *  A  K   </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="C06SLe0120K02.1" strand="+"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="44298" stop="44549"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>249</number_coding_nucleotides>
                  <number_encoded_amino_acids>83</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>IYTSSLEVIQIPARDLVHDSFSYDAILRVSRREQIRNNFRYMQGAFVRSTWSIEESSNIHVLLVTHPMPTLGPFLVIVMPSRQ*</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="55168" PGL_stop="54313"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="55168" e_stop="54472"/>
            <exon e_start="54321" e_stop="54313"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.834" e_score="0.999"/>
          <exon-only e_score="0.667"/>
        </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="0.999">
            <gDNA_exon_boundary e_start="55168" e_stop="54472" e_length="697"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.834">
            <gDNA_intron_boundary i_start="54471" i_stop="54322" i_length="150"/>
          </intron>
          <exon e_serial="2" e_score="0.667">
            <gDNA_exon_boundary e_start="54321" e_stop="54313" e_length="9"/>
          </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="55168" stop="54472"/>
              <exon start="54321" stop="54313"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E578246" 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>AAAAGTACCAATAAATCTCATAAAAAACAAAGCCAAAAAAGGTACTTTAATTAAAAAAAATCAAGAAAATTGAGTGATGGAAATAGTATTGGCAAAGTGTGATTGTTGTGGATTAAAAGAAGAGTGTACAATAGAGTACATAAGTGAAGTGAAAGAGAATTTTGAAGGTAAATGGCTATGTGGATTATGTTCAGAAGCTGTTAGAGATGAATTTAATAGAGGAAACAAGAAGCAATATTTTATTGAAATGGAAGAAGCTTTAAAAGCTCACATGTCATTTTGTAGAAAATATAAGTCTAATAATCCTGCTGTTCATGTAGCTGATGGTATGAGGCAAATGTTAAGAAGAAGGTCAGGTGATTTGTCAACTAATTCTTCTTCTAAGAAGTATACAAGTAGATCAATCACTACATAATAATAAGTAGGAGATGTATCTTCTTTTATCAAACGTATCGAATTCGAGCATTAATAATATATAAAATTATTAGTATATACGTACATTTTTCTTTTTAATAGATTTGTATATGTGATATGAATTCGAATTAGTCAAATTAGCTTAACCAGTTTCACATATGGTCTAATTAGTTAGAAGGTTGAAAAATAAGACCTCACGATCCCTTTTGATGGCTAAATCTTAATGTACCAATCTTTGTGTTGTACATATATATAGAATGTTAGTAATATTTTTTAGTGGAGA : ATTAAAAAT</gDNA_template>
            <first_frame> K  S  T  N  K  S  H  K  K  Q  S  Q  K  R  Y  F  N  *  K  K  S  R  K  L  S  D  G  N  S  I  G  K  V  *  L  L  W  I  K  R  R  V  Y  N  R  V  H  K  *  S  E  R  E  F  *  R  *  M  A  M  W  I  M  F  R  S  C  *  R  *  I  *  *  R  K  Q  E  A  I  F  Y  *  N  G  R  S  F  K  S  S  H  V  I  L  *  K  I  *  V  *  *  S  C  C  S  C  S  *  W  Y  E  A  N  V  K  K  K  V  R  *  F  V  N  *  F  F  F  *  E  V  Y  K  *  I  N  H  Y  I  I  I  S  R  R  C  I  F  F  Y  Q  T  Y  R  I  R  A  L  I  I  Y  K  I  I  S  I  Y  V  H  F  S  F  *  *  I  C  I  C  D  M  N  S  N  *  S  N  *  L  N  Q  F  H  I  W  S  N  *  L  E  G  *  K  I  R  P  H  D  P  F  *  W  L  N  L  N  V  P  I  F  V  L  Y  I  Y  I  E  C  *  *  Y  F  L  V  E   : N  *  K  </first_frame>
            <second_frame>  K  V  P  I  N  L  I  K  N  K  A  K  K  G  T  L  I  K  K  N  Q  E  N  *  V  M  E  I  V  L  A  K  C  D  C  C  G  L  K  E  E  C  T  I  E  Y  I  S  E  V  K  E  N  F  E  G  K  W  L  C  G  L  C  S  E  A  V  R  D  E  F  N  R  G  N  K  K  Q  Y  F  I  E  M  E  E  A  L  K  A  H  M  S  F  C  R  K  Y  K  S  N  N  P  A  V  H  V  A  D  G  M  R  Q  M  L  R  R  R  S  G  D  L  S  T  N  S  S  S  K  K  Y  T  S  R  S  I  T  T  *  *  *  V  G  D  V  S  S  F  I  K  R  I  E  F  E  H  *  *  Y  I  K  L  L  V  Y  T  Y  I  F  L  F  N  R  F  V  Y  V  I  *  I  R  I  S  Q  I  S  L  T  S  F  T  Y  G  L  I  S  *  K  V  E  K  *  D  L  T  I  P  F  D  G  *  I  L  M  Y  Q  S  L  C  C  T  Y  I  *  N  V  S  N  I  F  *  W  R  :  I  K  N </second_frame>
            <third_frame>   K  Y  Q  *  I  S  *  K  T  K  P  K  K  V  L  *  L  K  K  I  K  K  I  E  *  W  K  *  Y  W  Q  S  V  I  V  V  D  *  K  K  S  V  Q  *  S  T  *  V  K  *  K  R  I  L  K  V  N  G  Y  V  D  Y  V  Q  K  L  L  E  M  N  L  I  E  E  T  R  S  N  I  L  L  K  W  K  K  L  *  K  L  T  C  H  F  V  E  N  I  S  L  I  I  L  L  F  M  *  L  M  V  *  G  K  C  *  E  E  G  Q  V  I  C  Q  L  I  L  L  L  R  S  I  Q  V  D  Q  S  L  H  N  N  K  *  E  M  Y  L  L  L  S  N  V  S  N  S  S  I  N  N  I  *  N  Y  *  Y  I  R  T  F  F  F  L  I  D  L  Y  M  *  Y  E  F  E  L  V  K  L  A  *  P  V  S  H  M  V  *  L  V  R  R  L  K  N  K  T  S  R  S  L  L  M  A  K  S  *  C  T  N  L  C  V  V  H  I  Y  R  M  L  V  I  F  F  S  G  E :   L  K   </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="C06SLe0120K02.1" strand="-"/>
                <serials PGL_serial="4" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="55095" stop="54754"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>339</number_coding_nucleotides>
                  <number_encoded_amino_acids>113</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>VMEIVLAKCDCCGLKEECTIEYISEVKENFEGKWLCGLCSEAVRDEFNRGNKKQYFIEMEEALKAHMSFCRKYKSNNPAVHVADGMRQMLRRRSGDLSTNSSSKKYTSRSITT*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 46 chains have been computed
$ 
$ memory statistics:
$ 11456 bytes spliced alignments in total
$ 6 spliced alignments have been stored
$ 1909 bytes was the average size of a spliced alignment
$ 9088 bytes predicted gene locations in total
$ 4 predicted gene locations have been stored
$ 2272 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 51 backtrace matrices have been allocated
$ 
$ date finished: 2009-01-16 14:26:23
-->
