<?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="2008-02-20 05:12:43"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C04HBa0128G23-Xblyo/GenomeThreader_SGN_U_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/cxgn-bacpublish-resources-s69unG/lycopersicum_combined_unigene_seqs" 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/cxgn-bacpublish-resources-s69unG/lycopersicum_combined_unigene_seqs" ref_id="SGN-U322548" ref_strand="+" ref_description="SGN-U322548        Tomato 200607 #1 [7 ESTs aligned] arabidopsis/peptide: | Symbol: YCF2.1 | hypothetical protein | chrC:86474-93358 FORWARD | Aliases: YCF2.1(evalue: 0, score=682) genbank/nr: Ycf2(evalue: 0, score=833)">
      <seq>gaagtgatgtggattattcaagaatcgaagtcgatttgctttataaaaagaagatatcaatgaacttctatgaaatggtttcacgggattcagccaattgtcttgatcgtggaatatcattgagaaataggaatccgggttatcaaaggatttcctgcgattatttctagtatggaatgagtcaatcatccactttggtatcttattgaacaaaaatggtgatattgttcctccattgatcaagaatttcgatttttgggaagtatcatgatcgtccaataagaagggtttcaattttttcaaatgaacaatttgaagacctattgattctaacaactgattgcagagttgatcattcggacctttcaattcttcatagatgtagatctcggacctatgaatggggatatttccgaaactcacacagaaaaaaggaagtgagttagacaaaaataaaagcaacttggacaaaaaaagaagtgacttggacaaaaagaaacgaagtgacttagacaaatcttttttgtcgataacctcagaccaatcaatcgaatattgattaatacgtaatcgatcgaacactacttgaaaacggctcttctgcttcgaaacggactgttccaaatgttcctggaaactcttgctcccattggaccatttgtatctatatgcatcaggatcccgattcatggatctctcggttcgagaaatcaaaataagaggctcgaaccatttcttctgactctttttcaaattcgataaatattggttgatcgtatatttcattatagttctatgattcagagtatcctttcctatttgatccctttgaattccatattcgaagttgcgatcggatctattcattaaaaagaatcgattcaatacatttcttatgtacccataggtactatattggatttgaatcagatttcggatcaatctatattgagtgactgcctccattatgttgttgctagcaaataccactatttttggttttggatcttccaaatcattcccgcaggagatcctgacccatttttttctgatccttcgagaaaaagattcattctcttcataaaaaataggaggtagaaccaataaagatttctttttcgattcatccctggcctcattcaagaattgtttttgatccaatccgcaggaatcaatagaaaaggcaaatcccttatgatacaccagatccggctcggttattgatagagtgaatagatctgccatttcttgaaatctctcttctgatgcaaaatcgtagtgtaacgtgtatcctcccctgttccggtcatggaatagatgaaataatcaaaaatggatttttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0128G23-Xblyo/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0128G23.1" temp_strand="-" temp_description="C04HBa0128G23.1  CU302229.6 htgs_phase:3 submitted_to_sgn_as:C04HBa0128G23 sequenced_by:sanger upload_account_name:uk">
        <position start="41061" stop="39171"/>
      </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="40761" g_stop="39483" g_length="1279"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="1280" r_length="1280" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0128G23.1" gen_strand="-" ref_id="SGN-U322548" ref_strand="+">
        <total_alignment_score>0.969</total_alignment_score>
        <cumulative_length_of_scored_exons>1279</cumulative_length_of_scored_exons>
        <coverage percentage="0.952" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0128G23.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U322548" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40761" e_stop="39483"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAGTGATGTGGATTATTCAAGAATCAAAGTCGATTTGCTTTATAAAAAGAAGATATCAATGATCTTCTATGAAATGGTTTCACGGGATTCAACCAATTGTCTTGATCGTGGAATATCATTGAGAAATAGGAATCCGGGTTATCAAAGGATTTCCTACCATTATTTCTAGTACGGAATGAGTCAATCATCCACTTTGGTATCTTATTGAACAAAAATGGTGATATTGTTCCTCCATTGATCAAGAATTTCAATTTTTGGGAAGTATCATGATCGTCCAATAAGAAGGGTTTCAATTATTTCAAATGAACATATTTGAAGACCTATTGATTCTAACAACTGATTGCAGAGTTGATCATTCGGACCTTTCAATTCTTCATAGATGTCGATCTCGGACCTATGAATGGGGATATTTCAGAAACTCACACAGAAAAAAGGAAGTGAGTTAGAC-AAAA-AAAAGCAACTTGGACAAAAAAAGAAGTGACTTGGACAAAAAGAAACGAAGTGACTTAGACAAATCTTTTTTTGTCGATAACCTCAGACCAATCAATCAAATATTGATTAATACGTAATCGATCGAACAATACTTGAAAACGACTCTTCTTCTTCGAAACGGACTGTTCCAAATGTTCCTGGAAACCCTTACTCCCATTGGACCATTTGTATCTATATGCATCAGGATCCCGATTCATAGATCTCTCGGTTCGAGAAATCAAAATGAGAGGCTCAAACCATTTCTTGTGACTCTTTTTCAAATTCGATAAATATTGGTTGATCTTATATTTCATTATAGTTCTATGATTCAGAGTATCCTTTCCTATTTGATCCCTTTGAATTCCATATTCGAAGTTGCG-T-GGATCTATTCATTAAAAAGAATCGATTCCATACATTTCTTATGTACCCATAGGTACTATATTGGATTTGAATCAGATTTCGGATCAATCTATATTGAGTGACTGCCTCCATTATGTTGTTGCTAGCAAATACCACTATTTTTGGCTTTGGATCTTCCAAATCATTCCCGCTGGAGATCCTGACCCATTTTTTTTATGATCCTTCCAGAAAAAGATTCATTCTCTTCACAAAAAATAGGAGGTAGAACCAATAAAGATTTCTTTTTCGATTCATCCCTGGCCTCATTCAAGAATTGTTTTTGATCCAATCCGCAGGAATCAATAGAAAAGGCAAATCCCTTATGATACACCAGATCCGGCTCGGTTATTCATAGAGTGAATAAATCTGCCATTTCTTGAAATCTCTCTTCTGATGCAAAATCGTAGT</genome_strand>
        <mrna_strand>GAAGTGATGTGGATTATTCAAGAATCGAAGTCGATTTGCTTTATAAAAAGAAGATATCAATGAACTTCTATGAAATGGTTTCACGGGATTCAGCCAATTGTCTTGATCGTGGAATATCATTGAGAAATAGGAATCCGGGTTATCAAAGGATTTCCTGCGATTATTTCTAGTATGGAATGAGTCAATCATCCACTTTGGTATCTTATTGAACAAAAATGGTGATATTGTTCCTCCATTGATCAAGAATTTCGATTTTTGGGAAGTATCATGATCGTCCAATAAGAAGGGTTTCAATTTTTTCAAATGAACA-ATTTGAAGACCTATTGATTCTAACAACTGATTGCAGAGTTGATCATTCGGACCTTTCAATTCTTCATAGATGTAGATCTCGGACCTATGAATGGGGATATTTCCGAAACTCACACAGAAAAAAGGAAGTGAGTTAGACAAAAATAAAAGCAACTTGGACAAAAAAAGAAGTGACTTGGACAAAAAGAAACGAAGTGACTTAGACAAATC-TTTTTTGTCGATAACCTCAGACCAATCAATCGAATATTGATTAATACGTAATCGATCGAACACTACTTGAAAACGGCTCTTCTGCTTCGAAACGGACTGTTCCAAATGTTCCTGGAAACTCTTGCTCCCATTGGACCATTTGTATCTATATGCATCAGGATCCCGATTCATGGATCTCTCGGTTCGAGAAATCAAAATAAGAGGCTCGAACCATTTCTTCTGACTCTTTTTCAAATTCGATAAATATTGGTTGATCGTATATTTCATTATAGTTCTATGATTCAGAGTATCCTTTCCTATTTGATCCCTTTGAATTCCATATTCGAAGTTGCGATCGGATCTATTCATTAAAAAGAATCGATTCAATACATTTCTTATGTACCCATAGGTACTATATTGGATTTGAATCAGATTTCGGATCAATCTATATTGAGTGACTGCCTCCATTATGTTGTTGCTAGCAAATACCACTATTTTTGGTTTTGGATCTTCCAAATCATTCCCGCAGGAGATCCTGACCCA-TTTTTTTCTGATCCTTCGAGAAAAAGATTCATTCTCTTCATAAAAAATAGGAGGTAGAACCAATAAAGATTTCTTTTTCGATTCATCCCTGGCCTCATTCAAGAATTGTTTTTGATCCAATCCGCAGGAATCAATAGAAAAGGCAAATCCCTTATGATACACCAGATCCGGCTCGGTTATTGATAGAGTGAATAGATCTGCCATTTCTTGAAATCTCTCTTCTGATGCAAAATCGTAGT</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/cxgn-bacpublish-resources-s69unG/lycopersicum_combined_unigene_seqs" ref_id="SGN-U332394" ref_strand="+" ref_description="SGN-U332394        Tomato 200607 #1 [2 ESTs aligned] arabidopsis/peptide: | Symbol: YCF2.1 | hypothetical protein | chrC:86474-93358 FORWARD | Aliases: YCF2.1(evalue: 4e-104, score=374) genbank/nr: Ycf2(evalue: 6e-123, score=442)">
      <seq>ctattttctgtcgttaaggtggagaactgaaccaagaattctctttcttcatcatcaatcgaatcactgttcgcgacccaggattctattttctcatcaatccaatccccgttcacgttttttctttttcttatcaatgaatagatctctttacttgtatgacttagatgtctcgtatttctcgaaaaagtgattcgattgatgggatttggtatgagatcgatgatctcgatgagattgatattccaatctttcttcttagaacgtattgatttgaccccataagcgggaccaagcatgttgccgccagaagcagaaccccgtatttcttctagagaatctcctaattgttccagagcaactagaaagagattctttaaccagaaagaattcggttcagatgtaggatacctatccagaagttttcgcaactcaatcatagatgatggagtcatcaaagattttaccctttcgaactctgtctgtaactcactagaggcccgggaaacaaagagaagatgtgtacgaacgagatatccagcaacaagaagaaggaaaaggattgaatagaggaactcccgagcatttggcgatctcagatgtgtcgatatcaatggtgactcattatttcgatgaatcatttcttcggacagaagaagattatgtaaacattactcgaggggggccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0128G23-Xblyo/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0128G23.1" temp_strand="-" temp_description="C04HBa0128G23.1  CU302229.6 htgs_phase:3 submitted_to_sgn_as:C04HBa0128G23 sequenced_by:sanger upload_account_name:uk">
        <position start="42551" stop="41272"/>
      </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="42251" g_stop="41572" g_length="680"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="680" r_length="680" r_score="0.956"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0128G23.1" gen_strand="-" ref_id="SGN-U332394" ref_strand="+">
        <total_alignment_score>0.956</total_alignment_score>
        <cumulative_length_of_scored_exons>680</cumulative_length_of_scored_exons>
        <coverage percentage="0.988" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0128G23.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U332394" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42251" e_stop="41572"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTATTTTCTGTCGTTAAGGTGGAGAACTGAACCAAGAATTCTCTTTCCTCATCATCAATCGAATCACTGTTCGCGACCCAAGATTCTATTTTCTCATCAATCCAATCCCTATTCACATTTTTTCTTTTTCTTATCAATG-ATAGATCTTTTTACTTGTATGACTTAGATGTCTCGTATTTCTCAAAAAAGTGATTCGATTTATGGGATTCGGTATGAGATCGATGATCTCGATGAGATTAATATTTCAATGTTTCTTCTTAGAACGTATTGATTTGACCCCATAAGCGGGACCAAGCATGTTGCCGCCAGAAGCAGAACCCCGTATTTATTCTAGAGAATTTCCTAATTGTTCCAGAGCAGCTAGAAAGAGATTCTTTAACCAAAAAAAATTCGGTTCAGTTGTAGGATACCTATCTAGAAGTTTTCGCAACTCAATCATAGATGAAGGAGTCATCAAACATTTTACCCTTTCGAACTCTGTCTGTAACTCACTAGAGGCCCGGGAAACAAAGAGAAGACGTGTACGAACAAGATATCTAGCAACAAGGAGAAGGAAAAGGATTGAATAGAGGAACTCCCGAGCATTTGGCGATCTCAGATGTGTCGATATCAATGGTGACTCATTATTTCGATGAATCATTTCTTCGAACAGAAGAAGATTATGTAAACACTTACTCAAG</genome_strand>
        <mrna_strand>CTATTTTCTGTCGTTAAGGTGGAGAACTGAACCAAGAATTCTCTTTCTTCATCATCAATCGAATCACTGTTCGCGACCCAGGATTCTATTTTCTCATCAATCCAATCCCCGTTCACGTTTTTTCTTTTTCTTATCAATGAATAGATCTCTTTACTTGTATGACTTAGATGTCTCGTATTTCTCGAAAAAGTGATTCGATTGATGGGATTTGGTATGAGATCGATGATCTCGATGAGATTGATATTCCAATCTTTCTTCTTAGAACGTATTGATTTGACCCCATAAGCGGGACCAAGCATGTTGCCGCCAGAAGCAGAACCCCGTATTTCTTCTAGAGAATCTCCTAATTGTTCCAGAGCAACTAGAAAGAGATTCTTTAACCAGAAAGAATTCGGTTCAGATGTAGGATACCTATCCAGAAGTTTTCGCAACTCAATCATAGATGATGGAGTCATCAAAGATTTTACCCTTTCGAACTCTGTCTGTAACTCACTAGAGGCCCGGGAAACAAAGAGAAGATGTGTACGAACGAGATATCCAGCAACAAGAAGAAGGAAAAGGATTGAATAGAGGAACTCCCGAGCATTTGGCGATCTCAGATGTGTCGATATCAATGGTGACTCATTATTTCGATGAATCATTTCTTCGGACAGAAGAAGATTATGTAAACA-TTACTCGAG</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/cxgn-bacpublish-resources-s69unG/lycopersicum_combined_unigene_seqs" ref_id="SGN-U338087" ref_strand="+" ref_description="SGN-U338087        Tomato 200607 #1 [1 ESTs aligned]">
      <seq>atttttcagagagagtttttcagcagctaaaagagagaaaaaagagagaaattcgcagtcaaaaatccagccataacaaccaacttcaaattgcgattcccgcttcgtttcttgtccgattgagctgatttttggacagcatattatcttcatctcaatctttgattaggaactgacagagttggatttggtggtctgcagcttcagttttgctgtcgtgaacagtagctgcgaaattggtgattttgctcctttaattctctagatttggagcaatcttattttgttgttgctcgttgtttgacactttgttttgtggccaattttggagaacaatattgtaactcttggtgattatagtggagcttttggacccgtggttttttactcttcacatcgaaggggtttccacgtaaatcttgatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0128G23-Xblyo/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0128G23.1" temp_strand="-" temp_description="C04HBa0128G23.1  CU302229.6 htgs_phase:3 submitted_to_sgn_as:C04HBa0128G23 sequenced_by:sanger upload_account_name:uk">
        <position start="54717" stop="53701"/>
      </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="54422" g_stop="54001" g_length="422"/>
          <reference_exon_boundary r_type="cDNA" r_start="2" r_stop="425" r_length="424" r_score="0.950"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0128G23.1" gen_strand="-" ref_id="SGN-U338087" ref_strand="+">
        <total_alignment_score>0.950</total_alignment_score>
        <cumulative_length_of_scored_exons>422</cumulative_length_of_scored_exons>
        <coverage percentage="0.993" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0128G23.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U338087" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="54422" e_stop="54001"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATACACACAGAGAGTTTTTCAGCAGCCAAAAGAGAG-AAAAAGAGAGAAATTCGCAGTCAAAAATCCAGCCATAACAACCAACTTCAAATTGTGATTCGCGCTTCGTTTCTTGTCCGATTGAGCTGATTTTTGGACAGCATATTATCTTCATCTCAATCTTTGATTAGGAACTGATAGAGTTGGATTTGGTGGCCTGCAGCTTCAGTTTTGCTGTCATGAACAGTAGCTGCGAAATTGGTGATTTTGCTCCTTTAATTCTCTAGATTTGGTGCAATCTTATTTTGTTGTTGCTCGTTGTTTGGCAC-TTGTTTTGTGGCCAATTTTGGAGAACAATATTGTAACTCTTGGTGATTATAGTGGAGCTTTTGGTCCCGTGGTTTTTTACTCTTCACATCGAAGGATTTTCCACGTAAATCTTGGTG</genome_strand>
        <mrna_strand>TTTTTCAGAGAGAGTTTTTCAGCAGCTAAAAGAGAGAAAAAAGAGAGAAATTCGCAGTCAAAAATCCAGCCATAACAACCAACTTCAAATTGCGATTCCCGCTTCGTTTCTTGTCCGATTGAGCTGATTTTTGGACAGCATATTATCTTCATCTCAATCTTTGATTAGGAACTGACAGAGTTGGATTTGGTGGTCTGCAGCTTCAGTTTTGCTGTCGTGAACAGTAGCTGCGAAATTGGTGATTTTGCTCCTTTAATTCTCTAGATTTGGAGCAATCTTATTTTGTTGTTGCTCGTTGTTTGACACTTTGTTTTGTGGCCAATTTTGGAGAACAATATTGTAACTCTTGGTGATTATAGTGGAGCTTTTGGACCCGTGGTTTTTTACTCTTCACATCGAAGGGGTTTCCACGTAAATCTTGATG</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/cxgn-bacpublish-resources-s69unG/lycopersicum_combined_unigene_seqs" ref_id="SGN-U338087" ref_strand="+" ref_description="SGN-U338087        Tomato 200607 #1 [1 ESTs aligned]">
      <seq>atttttcagagagagtttttcagcagctaaaagagagaaaaaagagagaaattcgcagtcaaaaatccagccataacaaccaacttcaaattgcgattcccgcttcgtttcttgtccgattgagctgatttttggacagcatattatcttcatctcaatctttgattaggaactgacagagttggatttggtggtctgcagcttcagttttgctgtcgtgaacagtagctgcgaaattggtgattttgctcctttaattctctagatttggagcaatcttattttgttgttgctcgttgtttgacactttgttttgtggccaattttggagaacaatattgtaactcttggtgattatagtggagcttttggacccgtggttttttactcttcacatcgaaggggtttccacgtaaatcttgatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0128G23-Xblyo/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0128G23.1" temp_strand="-" temp_description="C04HBa0128G23.1  CU302229.6 htgs_phase:3 submitted_to_sgn_as:C04HBa0128G23 sequenced_by:sanger upload_account_name:uk">
        <position start="59435" stop="58419"/>
      </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="59432" g_stop="59432" g_length="1"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="1" r_length="1" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="59431" i_stop="59141" i_length="291">
            <donor d_prob="0.900" d_score="0.00"/>
            <acceptor a_prob="0.985" a_score="0.86"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="59140" g_stop="58719" g_length="422"/>
          <reference_exon_boundary r_type="cDNA" r_start="2" r_stop="425" r_length="424" r_score="0.950"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0128G23.1" gen_strand="-" ref_id="SGN-U338087" ref_strand="+">
        <total_alignment_score>0.950</total_alignment_score>
        <cumulative_length_of_scored_exons>423</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0128G23.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U338087" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="59432" e_stop="59432"/>
          <exon e_start="59140" e_stop="58719"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATATACTTTTAATGGTTATGAGCATTTTTCACAATGCGCAAAGATATTATTTCGTGCCTATGATACTCGCCGAGGTATGCCGTTCGTTGACAACCTACACAAGGGGGCACGACTTTTTCGGAGGATGCAATGAGTTGTTACGAGACTGAATGAGAGAACATTGTTGGGTTATGGGTCTTTTTTTTCCCTTCCTATGTGGATAAATAAAAGCCCAATTTGGACCAACCCATTTTTGTCCATAAGCCCATTCTTATGAGGCAAATATAAACATATTTAGGGTCTTATTTTCAGATACACAGAGAGAGTTTTTCAGCAGCCAAAAGAGAG-AAAAAGAGAGAAATTCGCAGTCAAAAATCCAGCCATAACAACAAAATTCAAATTGCGATTCCTGCTTCGTTTCTTGTCCGATTGAGCCGATTTTTGGACAGCATATTATCTTCATCTCAATCTTTGATTAGGAACTGACAGAGTCGGATTTGGTGGTCTGCAGCTTCAGTTTTGCTGTCGTTAACAGTAGCTGCGAAATTGGTGATTTTGCTCCTTTAATTCTCTAGATTTGGTGCAATCTTATTTTGTTGTTGCTCGTTGTTTGGCAC-TTGTTTTGTGGCCAATTTTGGAGAACAATATTGTAACTCTTGGTGATTATAGTGGAGCTTTTGGTCCCGTGGTTTTTTACTCTTCACATCGAAGGGTTTTCCACGTAAATTTTGGTG</genome_strand>
        <mrna_strand>A...................................................................................................................................................................................................................................................................................................TTTTTCAGAGAGAGTTTTTCAGCAGCTAAAAGAGAGAAAAAAGAGAGAAATTCGCAGTCAAAAATCCAGCCATAACAACCAACTTCAAATTGCGATTCCCGCTTCGTTTCTTGTCCGATTGAGCTGATTTTTGGACAGCATATTATCTTCATCTCAATCTTTGATTAGGAACTGACAGAGTTGGATTTGGTGGTCTGCAGCTTCAGTTTTGCTGTCGTGAACAGTAGCTGCGAAATTGGTGATTTTGCTCCTTTAATTCTCTAGATTTGGAGCAATCTTATTTTGTTGTTGCTCGTTGTTTGACACTTTGTTTTGTGGCCAATTTTGGAGAACAATATTGTAACTCTTGGTGATTATAGTGGAGCTTTTGGACCCGTGGTTTTTTACTCTTCACATCGAAGGGGTTTCCACGTAAATCTTGATG</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/cxgn-bacpublish-resources-s69unG/lycopersicum_combined_unigene_seqs" ref_id="SGN-U345909" ref_strand="+" ref_description="SGN-U345909        Tomato 200607 #1 [1 ESTs aligned] genbank/nr: beta-galactosidase(evalue: 1e-29, score=133)">
      <seq>ctacatctcctaccatacaatgcttcaaatggagccatatcaatgcttgattgatagctattattgtatgaaaactccgctaagggtaggaagctatcccaatgaccaccaaactctatcacacacgcacgaagcatattctccaacacttgaatcgttcgctcagactgaccatcgggagaactagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0128G23-Xblyo/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0128G23.1" temp_strand="+" temp_description="C04HBa0128G23.1  CU302229.6 htgs_phase:3 submitted_to_sgn_as:C04HBa0128G23 sequenced_by:sanger upload_account_name:uk">
        <position start="91655" stop="92432"/>
      </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="91955" g_stop="92131" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="177" r_length="177" r_score="0.915"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0128G23.1" gen_strand="+" ref_id="SGN-U345909" ref_strand="+">
        <total_alignment_score>0.915</total_alignment_score>
        <cumulative_length_of_scored_exons>177</cumulative_length_of_scored_exons>
        <coverage percentage="0.941" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0128G23.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U345909" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="91955" e_stop="92131"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTACATCTCCTCCCATACATTGCCTCAAATGGAGCCATATCAATACTTGAGTGATAGCTATTATTGTATGAAAACTCTGCCAAGGGTAAGAAGTTATCCCAATGACCACCAAATTCTATCACACATGCACGAAGCATATCCTCCAATACCTGAATCGTTCGCTCAGACTAACCATCG</genome_strand>
        <mrna_strand>CTACATCTCCTACCATACAATGCTTCAAATGGAGCCATATCAATGCTTGATTGATAGCTATTATTGTATGAAAACTCCGCTAAGGGTAGGAAGCTATCCCAATGACCACCAAACTCTATCACACACGCACGAAGCATATTCTCCAACACTTGAATCGTTCGCTCAGACTGACCATCG</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/cxgn-bacpublish-resources-s69unG/lycopersicum_combined_unigene_seqs" ref_id="SGN-U346572" ref_strand="+" ref_description="SGN-U346572        Tomato 200607 #1 [1 ESTs aligned] genbank/nr: gi|47824972|gb|AAT38745.1| putative polyprotein, 3'-partial [Solanum demissum] (evalue: 2e-31, score=89.7)">
      <seq>agatgatcaaccaggttctttctcatcttagcgggttatctgatcagggccagacacctccagtgtttcctgtaccagcacctcaggttccgggagtacaacatgcagctgttgtggctctccgcatggatgcctcattggaaataggcacatttcctcgattgactacagggcctataatgacgagtgatcaacatgaacttttcactaaattcttgaagttgaaacctctagtcttcaagggtgctgaatctgaggatgcctatgattttcttgttgattgtcatgagctgctacataagatggacatagtagaacggttcggggttgagtttgtgacctatcaatttcagggaaatgtcaaaatgtggtggcggtcgtatgttgagtgtcaaccagcacagcaccacctatgacttgggcatcattctctagcttatttatggaaaagtgtataccccggacgttgagggataggaggagagatgagttcctgagtctatagcaaggcaggatgtctgttactgcttatgaggctaaattttgtgcactatccaggtatgccacccagctttgcttcagtccacaagagcggattcaccgttttgtgaaaggattgaggtcagatttgcagatcccagccctacaggtagct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0128G23-Xblyo/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0128G23.1" temp_strand="-" temp_description="C04HBa0128G23.1  CU302229.6 htgs_phase:3 submitted_to_sgn_as:C04HBa0128G23 sequenced_by:sanger upload_account_name:uk">
        <position start="96291" stop="95036"/>
      </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="95991" g_stop="95336" g_length="656"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="655" r_length="655" r_score="0.909"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0128G23.1" gen_strand="-" ref_id="SGN-U346572" ref_strand="+">
        <total_alignment_score>0.909</total_alignment_score>
        <cumulative_length_of_scored_exons>656</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0128G23.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U346572" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95991" e_stop="95336"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGATGATTAACCAGGTTCTTTCTTATCTTAGCGGATTATCTGATCAAGGCCAGACACCTCCAGTGTTTTCTACACCAGCACCTCAGGTTCCGAGAGTACAACATGCAACTGCTATGGCTTCCCGCGTGGATGCCTCATTGGAAATGGGCACGTTTGTTCAATTGACTACAGGGATTATAATGACGAGTGATCAGCATGAACTTTTCACTAAGTTCTTGAAGTTGAAACCTCCAGTATTCAAGGGTGGTGAATCTGAGGACGCCTATGATTTTCTGGTTGATTGTCATGAGCTGCTAAATAAGATGGACATAGTGGAACGATTCGGTGTTGAGTTTGTGACCTATCAGTTTCAGGGAAATGCCAAAATGTGGTGGCAGTCGTATGTTGACTGTCAACCGGCACAGGAACCAACTATGAGTTGGGCATCATTCTCTAGCCTATTTATGGAAAAGTATATACCCCGGACTTTGAGAGATAGGAGGAGAGATGAGTTCTTTAGCCTAGAGCAAGGCAGGATGTCGGTTACTACTTATGAGGCTAAGTTTCATGCATTATCCAGGTATGCCACCCAGCTTTGCTTCAGTTCACAAGAGCGGATTCACCGTTTTGTGAAGGGATTGAGGTCAGATTTGCAGATTCCAGTCTTACAGGTAGCT</genome_strand>
        <mrna_strand>AGATGATCAACCAGGTTCTTTCTCATCTTAGCGGGTTATCTGATCAGGGCCAGACACCTCCAGTGTTTCCTGTACCAGCACCTCAGGTTCCGGGAGTACAACATGCAGCTGTTGTGGCTCTCCGCATGGATGCCTCATTGGAAATAGGCACATTTCCTCGATTGACTACAGGGCCTATAATGACGAGTGATCAACATGAACTTTTCACTAAATTCTTGAAGTTGAAACCTCTAGTCTTCAAGGGTGCTGAATCTGAGGATGCCTATGATTTTCTTGTTGATTGTCATGAGCTGCTACATAAGATGGACATAGTAGAACGGTTCGGGGTTGAGTTTGTGACCTATCAATTTCAGGGAAATGTCAAAATGTGGTGGCGGTCGTATGTTGAGTGTCAACCAGCACA-GCACCACCTATGACTTGGGCATCATTCTCTAGCTTATTTATGGAAAAGTGTATACCCCGGACGTTGAGGGATAGGAGGAGAGATGAGTTCCTGAGTCTATAGCAAGGCAGGATGTCTGTTACTGCTTATGAGGCTAAATTTTGTGCACTATCCAGGTATGCCACCCAGCTTTGCTTCAGTCCACAAGAGCGGATTCACCGTTTTGTGAAAGGATTGAGGTCAGATTTGCAGATCCCAGCCCTACAGGTAGCT</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/cxgn-bacpublish-resources-s69unG/lycopersicum_combined_unigene_seqs" ref_id="SGN-U324842" ref_strand="+" ref_description="SGN-U324842        Tomato 200607 #1 [5 ESTs aligned] arabidopsis/peptide: | Symbol: None | zinc knuckle (CCHC-type) family protein, contains Pfam domain, PF00098: Zinc knuckle | chr2:3820372-3820734 REVERSE | Aliases: F7B19.19, F7B19_19(evalue: 4e-09, score=58.5) genbank/nr: gi|53689765|gb|AAU89775.1| pol polyprotein-like [Solanum tuberosum] (evalue: 2e-102, score=374)">
      <seq>taaggttgagaatcgaagaggataataaggctgcagaaaagaggtcacgtggtaattcagcaatatctggagtaaattttgttgaagaagattccacaaaattcaagaaaagaaagaaagcatctggtccaaaacgcaatcctcctaagaagaaattcaatggaaactgctttaattgtggtaaacatggtcatagggctaatgaatgccggggtcctaagaaggacaagaaaaagaaggatcaagcaaacttggctgaatccaaaggagaaatggacgatctctgtgcaatgctttcagaatgtaacttggttggaaatccaagagaatggtggatagattctggtgcctcatgccatgtttgtgccaacaaagaattattttcatcatatactctagcacttacagatgaaaaattatttatggcaaactccgctgttgcaaaggtggaaggaactggcaaagtcctattaaagatgacatcaggcaaggtagtgactttgaatatggtctcatatgttccagaattgagaaataatttagtttcaattccaattctgaccaagaatggatttaaatgtgtatttgtttttgataaagtagtagtaagcaaaaatgatatgtatgtaggaaaagactaccttagtgatggccttttcaaactcaatgtaattgcagttgatatgaataaagattttgcttctttttaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0128G23-Xblyo/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0128G23.1" temp_strand="-" temp_description="C04HBa0128G23.1  CU302229.6 htgs_phase:3 submitted_to_sgn_as:C04HBa0128G23 sequenced_by:sanger upload_account_name:uk">
        <position start="101285" stop="99977"/>
      </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="100985" g_stop="100277" g_length="709"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="709" r_length="709" r_score="0.959"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="710" polyA_stop="744"/>
      <MATCH_line gen_id="C04HBa0128G23.1" gen_strand="-" ref_id="SGN-U324842" ref_strand="+">
        <total_alignment_score>0.959</total_alignment_score>
        <cumulative_length_of_scored_exons>709</cumulative_length_of_scored_exons>
        <coverage percentage="0.953" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0128G23.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U324842" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="100985" e_stop="100277"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAGGTTGAGAATCGAACAGGATAATAAGGCTGCAGAAAAGAGGTCACGTGGTAATTCAGCAATCTCTGGAGTAAATTTTGTTGAAGAAGATTCCACAAAATTAAAGAAAAGAAAGAAACCATTTGGTCCAAAAAGCAATCCTCCTAAGAAGAAATTCAATGGAAACAACTTTAATTGTGGTAAACATGGTCATAGGGCTAATGAATGTCGGGGTCCTAAGAAGGACAAGAAAAAGAAAGATCAAGCAAACTTGGCTGAATCCAAAGGAGATATGGATGATCTCTGTGCAATGCTTTCAGAATGTAACTTGGTTGGAAATCCAAGAGAATGGTGGATAGATTCTAGTGCCTCATGTCATGTTTGTGCCAACAAAGAATTATTTTCATCATATACTCCAGCACTTACAGATGAAAAATTGTTTATGGCAAACTCCGTTGTTGCAAAGGTGGAAAGAACTGGCAAAGTCCTATTAAAGATGACATCAGGCAAGGTGGTGACTTTGAATAGGGTCTCATATGTTCCAGAATTGAGAAAGAATTTAGTTTCAATTCCAGTTCTGACCAAGAATGGATTTAAATGTGTATTTGTTTCTGATAAAGTAGTAGTAAGCAAAAATGATATGTATGTAGGAAAAGGCTACCTTAATGATGGCCTTTTCAAACTAAATGTAATTGTAGTTGATATGAATAAACATTTTGCTTCTTCTTA</genome_strand>
        <mrna_strand>TAAGGTTGAGAATCGAAGAGGATAATAAGGCTGCAGAAAAGAGGTCACGTGGTAATTCAGCAATATCTGGAGTAAATTTTGTTGAAGAAGATTCCACAAAATTCAAGAAAAGAAAGAAAGCATCTGGTCCAAAACGCAATCCTCCTAAGAAGAAATTCAATGGAAACTGCTTTAATTGTGGTAAACATGGTCATAGGGCTAATGAATGCCGGGGTCCTAAGAAGGACAAGAAAAAGAAGGATCAAGCAAACTTGGCTGAATCCAAAGGAGAAATGGACGATCTCTGTGCAATGCTTTCAGAATGTAACTTGGTTGGAAATCCAAGAGAATGGTGGATAGATTCTGGTGCCTCATGCCATGTTTGTGCCAACAAAGAATTATTTTCATCATATACTCTAGCACTTACAGATGAAAAATTATTTATGGCAAACTCCGCTGTTGCAAAGGTGGAAGGAACTGGCAAAGTCCTATTAAAGATGACATCAGGCAAGGTAGTGACTTTGAATATGGTCTCATATGTTCCAGAATTGAGAAATAATTTAGTTTCAATTCCAATTCTGACCAAGAATGGATTTAAATGTGTATTTGTTTTTGATAAAGTAGTAGTAAGCAAAAATGATATGTATGTAGGAAAAGACTACCTTAGTGATGGCCTTTTCAAACTCAATGTAATTGCAGTTGATATGAATAAAGATTTTGCTTCTTTTTA</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/cxgn-bacpublish-resources-s69unG/lycopersicum_combined_unigene_seqs" ref_id="SGN-U312594" ref_strand="+" ref_description="SGN-U312594        Tomato 200607 #1 [17 ESTs aligned] arabidopsis/peptide: | Symbol: None | expressed protein | chr2:3830613-3830972 REVERSE | Aliases: F7B19.23, F7B19_23(evalue: 2e-31, score=133) genbank/nr: gi|14586969|gb|AAK70407.1| pol polyprotein [Citrus x paradisi](evalue: 2e-61, score=239)">
      <seq>ggacatgttccttgctgaaaatggctataaaaggaagtcaaattttgattttttaaacactgaaaatttttctttctctgcatttatttttctctcaaataaaatcaaagtgtcgatcgactgagtctgtgtgacttgttgttgttcttaagttcgttgaagttaaagaagtttgaggtaccgctatttctttaacaggtttaatccgttttatcttgagagaaattaatccataaccttgggtacagtgagggaattaaatttcttaaggacacatagtagtttctgtggactcggattaattcttgtattctatattattttctgcttcatcttatttctgtttctgtttattaactttataaataaaagttattataagagtaacaatcttaagaaaatttatacagtttctgtgtttgaggtttctggagattaaaacctttatggttttctactctacttgaatttttaaaatcattcgattaacgattaaaaaaacataaaaactttatcgttaaatcagaaacaggttgtgtaaagatttgctctttactgttagtattttaaatacttaatttatctgccaattgtgacagaaaaaaaagactaattcaagtcaaacaaatgctggaacagtaagtgctgcaacaacaatggttgcacataatcgttcacatgctgccttagcaccggctgagaaacctgcaaagttttctggagtcgactttaagagatggcagcaaaagatgttcttctatctcactacgttgagtctgcagaagttcatcaatgagaatgttcctgttatgtcagatgaaacttcggctgatgaacgattcttggtaacagaagcatggacacactcagattttttgtgtaaaaattatattttgagtggtctgcaagatgatctgtacaatgtgtacagcaatgcaaaaacctcaaaagaactctgggatgctttagaaaagaagtacaaaacagaagatgccggaatgaagaaattcattgtggcaaaatttctagactttaagatgatagacagtaagactgtcgtcacccaagttcaagaattgcaggttataatccatgatctccttgctgaaggattgattgtgaatgatgcttttcaagtggctgcaattattgaaaagttacctctattgtggaaggactttaaaaactacttgaaacacaaacgcaaggagatgattgttga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0128G23-Xblyo/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0128G23.1" temp_strand="-" temp_description="C04HBa0128G23.1  CU302229.6 htgs_phase:3 submitted_to_sgn_as:C04HBa0128G23 sequenced_by:sanger upload_account_name:uk">
        <position start="152373" stop="100697"/>
      </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="102284" g_stop="101181" g_length="1104"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="1110" r_length="1110" r_score="0.918"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="101180" i_stop="101109" i_length="72">
            <donor d_prob="0.997" d_score="0.98"/>
            <acceptor a_prob="0.977" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="101108" g_stop="100997" g_length="112"/>
          <reference_exon_boundary r_type="cDNA" r_start="1111" r_stop="1222" r_length="112" r_score="0.938"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0128G23.1" gen_strand="-" ref_id="SGN-U312594" ref_strand="+">
        <total_alignment_score>0.919</total_alignment_score>
        <cumulative_length_of_scored_exons>1216</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0128G23.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U312594" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="102284" e_stop="101181"/>
          <exon e_start="101108" e_stop="100997"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGACATGTTCCTTGTTGAAAATGGCTATAAAAGGAAGTCAATTTTTGATTTTTTCAAACACTGAAATTTTTTGTTTCTCTTCATTTATT-TTCTCTCAAATAAAAATTAAAGTGTCGATCGACTGAGCATGTGTGACTTGTTACTGTTCTTAAGTTCGTTGAAGTTAAAGAAATTTGAAGTACCGCTATTTCTTTAATGGGTTTAATCCGTGTTATCTTGGAAGAAATTAATCCATAACCTTCGGTACAGTGAGGGGATTAAATTCCTTAAGAACACACAGTAGTTTCTGTGGACTCGGATTATTTCTTG-----TAT-TT-TTTTCTGCTTCATCTTATTTCTGTTTCTGTTTATTAACCTTATAAATAAAGGTTATTGTAAGAAAAACAATCTTAAG-AAATTT-CACAGTTTTTGTATTTGAGGTTTCTGGAGATTAAAACCTTTATGGTTTTCTACTCTGCTTGAATTATTAAAATTTATTCGATTAACGATTAAAAGAACATAAAAACTTTATCGTTAAATCAGAAACAGTTTGTGTAAAGATTTGGTCTTTACTGTTAGTATTTTAAATACTTAATTTATCTGCCATTTGTGACAGAAAAAAAATGACTAATTCAAGTCAAACAAATGCTGGGACAGTAAGTGCTGCAACAACAACGGTTGCACATAATCGTTCAAATGTTGCCTTAGCACCGGCTAAGAAACCTGCAAAAATTTCTGGAGTCAACATTAAGAGATGGTAGCAAAAGATGTTCTTCTATCTCACTACGTTGAGTCTGCAGAAGTTCATCAATGAGAATGTTCCTGTTATGTTAGATCAATCTCCTGCTGATGAATGATTCTTGGTAACAGAAGCATGGACGCACTCAGATTTTTTGTGTAAAAATTATATTTTGAGTGGTCTGCAAGATGATCTGTACAATGTGTACGGCACTGCTAAAACCTCAAAAGAACTCTGGGGTGCTTTAGAAAAGAAGTACAAAACAGAAGATGCGGGAATGAAGAAATTCATTGTGGCAAAATTTCTGGACTATATGATGATAGACAGTAAGACTGTTATCACCCAAGTTCAAGAATTGCAGGTCATAATCCATGATCTCCTTGCTGAAGGTATAAATTTATTTAATGCCTATGTTAGAAATGTTAAGTTTTTCCTTAATACTCACATAACCTTTAATGTAGGATTGATTGTGAATGATGCTTTTCTAGTGGCTGCAATTATTGAAAAGTTACCTCCATTGTGGAAGGACTTTAAAAACTACTTGAAACACAAATGCAAAGAGTTCACTGTTGA</genome_strand>
        <mrna_strand>GGACATGTTCCTTGCTGAAAATGGCTATAAAAGGAAGTCAAATTTTGATTTTTT-AAACACTGAAAATTTTTCTTTCTCTGCATTTATTTTTCTCTCAAAT-AAAATCAAAGTGTCGATCGACTGAGTCTGTGTGACTTGTTGTTGTTCTTAAGTTCGTTGAAGTTAAAGAAGTTTGAGGTACCGCTATTTCTTTAACAGGTTTAATCCGTTTTATCTTGAGAGAAATTAATCCATAACCTTGGGTACAGTGAGGGAATTAAATTTCTTAAGGACACATAGTAGTTTCTGTGGACTCGGATTAATTCTTGTATTCTATATTATTTTCTGCTTCATCTTATTTCTGTTTCTGTTTATTAACTTTATAAATAAAAGTTATTATAAGAGTAACAATCTTAAGAAAATTTATACAGTTTCTGTGTTTGAGGTTTCTGGAGATTAAAACCTTTATGGTTTTCTACTCTACTTGAATTTTTAAAA-TCATTCGATTAACGATTAAAAAAACATAAAAACTTTATCGTTAAATCAGAAACAGGTTGTGTAAAGATTTGCTCTTTACTGTTAGTATTTTAAATACTTAATTTATCTGCCAATTGTGACAGAAAAAAAA-GACTAATTCAAGTCAAACAAATGCTGGAACAGTAAGTGCTGCAACAACAATGGTTGCACATAATCGTTCACATGCTGCCTTAGCACCGGCTGAGAAACCTGCAAAGTTTTCTGGAGTCGACTTTAAGAGATGGCAGCAAAAGATGTTCTTCTATCTCACTACGTTGAGTCTGCAGAAGTTCATCAATGAGAATGTTCCTGTTATGTCAGATGAAACTTCGGCTGATGAACGATTCTTGGTAACAGAAGCATGGACACACTCAGATTTTTTGTGTAAAAATTATATTTTGAGTGGTCTGCAAGATGATCTGTACAATGTGTACAGCAATGCAAAAACCTCAAAAGAACTCTGGGATGCTTTAGAAAAGAAGTACAAAACAGAAGATGCCGGAATGAAGAAATTCATTGTGGCAAAATTTCTAGACTTTAAGATGATAGACAGTAAGACTGTCGTCACCCAAGTTCAAGAATTGCAGGTTATAATCCATGATCTCCTTGCTGAAG........................................................................GATTGATTGTGAATGATGCTTTTCAAGTGGCTGCAATTATTGAAAAGTTACCTCTATTGTGGAAGGACTTTAAAAACTACTTGAAACACAAACGCAAGGAGATGATTGTTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>8</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="40761" PGL_stop="39483"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="40761" e_stop="39483"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.969"/>
        </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="0.969">
            <gDNA_exon_boundary e_start="40761" e_stop="39483" e_length="1279"/>
          </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="40761" stop="39483"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U322548" 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>GAAGTGATGTGGATTATTCAAGAATCAAAGTCGATTTGCTTTATAAAAAGAAGATATCAATGATCTTCTATGAAATGGTTTCACGGGATTCAACCAATTGTCTTGATCGTGGAATATCATTGAGAAATAGGAATCCGGGTTATCAAAGGATTTCCTACCATTATTTCTAGTACGGAATGAGTCAATCATCCACTTTGGTATCTTATTGAACAAAAATGGTGATATTGTTCCTCCATTGATCAAGAATTTCAATTTTTGGGAAGTATCATGATCGTCCAATAAGAAGGGTTTCAATTATTTCAAATGAACATATTTGAAGACCTATTGATTCTAACAACTGATTGCAGAGTTGATCATTCGGACCTTTCAATTCTTCATAGATGTCGATCTCGGACCTATGAATGGGGATATTTCAGAAACTCACACAGAAAAAAGGAAGTGAGTTAGACAAAAAAAAGCAACTTGGACAAAAAAAGAAGTGACTTGGACAAAAAGAAACGAAGTGACTTAGACAAATCTTTTTTTGTCGATAACCTCAGACCAATCAATCAAATATTGATTAATACGTAATCGATCGAACAATACTTGAAAACGACTCTTCTTCTTCGAAACGGACTGTTCCAAATGTTCCTGGAAACCCTTACTCCCATTGGACCATTTGTATCTATATGCATCAGGATCCCGATTCATAGATCTCTCGGTTCGAGAAATCAAAATGAGAGGCTCAAACCATTTCTTGTGACTCTTTTTCAAATTCGATAAATATTGGTTGATCTTATATTTCATTATAGTTCTATGATTCAGAGTATCCTTTCCTATTTGATCCCTTTGAATTCCATATTCGAAGTTGCGTGGATCTATTCATTAAAAAGAATCGATTCCATACATTTCTTATGTACCCATAGGTACTATATTGGATTTGAATCAGATTTCGGATCAATCTATATTGAGTGACTGCCTCCATTATGTTGTTGCTAGCAAATACCACTATTTTTGGCTTTGGATCTTCCAAATCATTCCCGCTGGAGATCCTGACCCATTTTTTTTATGATCCTTCCAGAAAAAGATTCATTCTCTTCACAAAAAATAGGAGGTAGAACCAATAAAGATTTCTTTTTCGATTCATCCCTGGCCTCATTCAAGAATTGTTTTTGATCCAATCCGCAGGAATCAATAGAAAAGGCAAATCCCTTATGATACACCAGATCCGGCTCGGTTATTCATAGAGTGAATAAATCTGCCATTTCTTGAAATCTCTCTTCTGATGCAAAATCGTAGT</gDNA_template>
            <first_frame> E  V  M  W  I  I  Q  E  S  K  S  I  C  F  I  K  R  R  Y  Q  *  S  S  M  K  W  F  H  G  I  Q  P  I  V  L  I  V  E  Y  H  *  E  I  G  I  R  V  I  K  G  F  P  T  I  I  S  S  T  E  *  V  N  H  P  L  W  Y  L  I  E  Q  K  W  *  Y  C  S  S  I  D  Q  E  F  Q  F  L  G  S  I  M  I  V  Q  *  E  G  F  Q  L  F  Q  M  N  I  F  E  D  L  L  I  L  T  T  D  C  R  V  D  H  S  D  L  S  I  L  H  R  C  R  S  R  T  Y  E  W  G  Y  F  R  N  S  H  R  K  K  E  V  S  *  T  K  K  S  N  L  D  K  K  R  S  D  L  D  K  K  K  R  S  D  L  D  K  S  F  F  V  D  N  L  R  P  I  N  Q  I  L  I  N  T  *  S  I  E  Q  Y  L  K  T  T  L  L  L  R  N  G  L  F  Q  M  F  L  E  T  L  T  P  I  G  P  F  V  S  I  C  I  R  I  P  I  H  R  S  L  G  S  R  N  Q  N  E  R  L  K  P  F  L  V  T  L  F  Q  I  R  *  I  L  V  D  L  I  F  H  Y  S  S  M  I  Q  S  I  L  S  Y  L  I  P  L  N  S  I  F  E  V  A  W  I  Y  S  L  K  R  I  D  S  I  H  F  L  C  T  H  R  Y  Y  I  G  F  E  S  D  F  G  S  I  Y  I  E  *  L  P  P  L  C  C  C  *  Q  I  P  L  F  L  A  L  D  L  P  N  H  S  R  W  R  S  *  P  I  F  F  M  I  L  P  E  K  D  S  F  S  S  Q  K  I  G  G  R  T  N  K  D  F  F  F  D  S  S  L  A  S  F  K  N  C  F  *  S  N  P  Q  E  S  I  E  K  A  N  P  L  *  Y  T  R  S  G  S  V  I  H  R  V  N  K  S  A  I  S  *  N  L  S  S  D  A  K  S  *  </first_frame>
            <second_frame>  K  *  C  G  L  F  K  N  Q  S  R  F  A  L  *  K  E  D  I  N  D  L  L  *  N  G  F  T  G  F  N  Q  L  S  *  S  W  N  I  I  E  K  *  E  S  G  L  S  K  D  F  L  P  L  F  L  V  R  N  E  S  I  I  H  F  G  I  L  L  N  K  N  G  D  I  V  P  P  L  I  K  N  F  N  F  W  E  V  S  *  S  S  N  K  K  G  F  N  Y  F  K  *  T  Y  L  K  T  Y  *  F  *  Q  L  I  A  E  L  I  I  R  T  F  Q  F  F  I  D  V  D  L  G  P  M  N  G  D  I  S  E  T  H  T  E  K  R  K  *  V  R  Q  K  K  A  T  W  T  K  K  E  V  T  W  T  K  R  N  E  V  T  *  T  N  L  F  L  S  I  T  S  D  Q  S  I  K  Y  *  L  I  R  N  R  S  N  N  T  *  K  R  L  F  F  F  E  T  D  C  S  K  C  S  W  K  P  L  L  P  L  D  H  L  Y  L  Y  A  S  G  S  R  F  I  D  L  S  V  R  E  I  K  M  R  G  S  N  H  F  L  *  L  F  F  K  F  D  K  Y  W  L  I  L  Y  F  I  I  V  L  *  F  R  V  S  F  P  I  *  S  L  *  I  P  Y  S  K  L  R  G  S  I  H  *  K  E  S  I  P  Y  I  S  Y  V  P  I  G  T  I  L  D  L  N  Q  I  S  D  Q  S  I  L  S  D  C  L  H  Y  V  V  A  S  K  Y  H  Y  F  W  L  W  I  F  Q  I  I  P  A  G  D  P  D  P  F  F  L  *  S  F  Q  K  K  I  H  S  L  H  K  K  *  E  V  E  P  I  K  I  S  F  S  I  H  P  W  P  H  S  R  I  V  F  D  P  I  R  R  N  Q  *  K  R  Q  I  P  Y  D  T  P  D  P  A  R  L  F  I  E  *  I  N  L  P  F  L  E  I  S  L  L  M  Q  N  R  S </second_frame>
            <third_frame>   S  D  V  D  Y  S  R  I  K  V  D  L  L  Y  K  K  K  I  S  M  I  F  Y  E  M  V  S  R  D  S  T  N  C  L  D  R  G  I  S  L  R  N  R  N  P  G  Y  Q  R  I  S  Y  H  Y  F  *  Y  G  M  S  Q  S  S  T  L  V  S  Y  *  T  K  M  V  I  L  F  L  H  *  S  R  I  S  I  F  G  K  Y  H  D  R  P  I  R  R  V  S  I  I  S  N  E  H  I  *  R  P  I  D  S  N  N  *  L  Q  S  *  S  F  G  P  F  N  S  S  *  M  S  I  S  D  L  *  M  G  I  F  Q  K  L  T  Q  K  K  G  S  E  L  D  K  K  K  Q  L  G  Q  K  K  K  *  L  G  Q  K  E  T  K  *  L  R  Q  I  F  F  C  R  *  P  Q  T  N  Q  S  N  I  D  *  Y  V  I  D  R  T  I  L  E  N  D  S  S  S  S  K  R  T  V  P  N  V  P  G  N  P  Y  S  H  W  T  I  C  I  Y  M  H  Q  D  P  D  S  *  I  S  R  F  E  K  S  K  *  E  A  Q  T  I  S  C  D  S  F  S  N  S  I  N  I  G  *  S  Y  I  S  L  *  F  Y  D  S  E  Y  P  F  L  F  D  P  F  E  F  H  I  R  S  C  V  D  L  F  I  K  K  N  R  F  H  T  F  L  M  Y  P  *  V  L  Y  W  I  *  I  R  F  R  I  N  L  Y  *  V  T  A  S  I  M  L  L  L  A  N  T  T  I  F  G  F  G  S  S  K  S  F  P  L  E  I  L  T  H  F  F  Y  D  P  S  R  K  R  F  I  L  F  T  K  N  R  R  *  N  Q  *  R  F  L  F  R  F  I  P  G  L  I  Q  E  L  F  L  I  Q  S  A  G  I  N  R  K  G  K  S  L  M  I  H  Q  I  R  L  G  Y  S  *  S  E  *  I  C  H  F  L  K  S  L  F  *  C  K  I  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="C04HBa0128G23.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="2" PGL_strand="-" PGL_start="42251" PGL_stop="41572"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="42251" e_stop="41572"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.956"/>
        </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="0.956">
            <gDNA_exon_boundary e_start="42251" e_stop="41572" e_length="680"/>
          </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="42251" stop="41572"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U332394" 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>CTATTTTCTGTCGTTAAGGTGGAGAACTGAACCAAGAATTCTCTTTCCTCATCATCAATCGAATCACTGTTCGCGACCCAAGATTCTATTTTCTCATCAATCCAATCCCTATTCACATTTTTTCTTTTTCTTATCAATGATAGATCTTTTTACTTGTATGACTTAGATGTCTCGTATTTCTCAAAAAAGTGATTCGATTTATGGGATTCGGTATGAGATCGATGATCTCGATGAGATTAATATTTCAATGTTTCTTCTTAGAACGTATTGATTTGACCCCATAAGCGGGACCAAGCATGTTGCCGCCAGAAGCAGAACCCCGTATTTATTCTAGAGAATTTCCTAATTGTTCCAGAGCAGCTAGAAAGAGATTCTTTAACCAAAAAAAATTCGGTTCAGTTGTAGGATACCTATCTAGAAGTTTTCGCAACTCAATCATAGATGAAGGAGTCATCAAACATTTTACCCTTTCGAACTCTGTCTGTAACTCACTAGAGGCCCGGGAAACAAAGAGAAGACGTGTACGAACAAGATATCTAGCAACAAGGAGAAGGAAAAGGATTGAATAGAGGAACTCCCGAGCATTTGGCGATCTCAGATGTGTCGATATCAATGGTGACTCATTATTTCGATGAATCATTTCTTCGAACAGAAGAAGATTATGTAAACACTTACTCAAG</gDNA_template>
            <first_frame> L  F  S  V  V  K  V  E  N  *  T  K  N  S  L  S  S  S  S  I  E  S  L  F  A  T  Q  D  S  I  F  S  S  I  Q  S  L  F  T  F  F  L  F  L  I  N  D  R  S  F  Y  L  Y  D  L  D  V  S  Y  F  S  K  K  *  F  D  L  W  D  S  V  *  D  R  *  S  R  *  D  *  Y  F  N  V  S  S  *  N  V  L  I  *  P  H  K  R  D  Q  A  C  C  R  Q  K  Q  N  P  V  F  I  L  E  N  F  L  I  V  P  E  Q  L  E  R  D  S  L  T  K  K  N  S  V  Q  L  *  D  T  Y  L  E  V  F  A  T  Q  S  *  M  K  E  S  S  N  I  L  P  F  R  T  L  S  V  T  H  *  R  P  G  K  Q  R  E  D  V  Y  E  Q  D  I  *  Q  Q  G  E  G  K  G  L  N  R  G  T  P  E  H  L  A  I  S  D  V  S  I  S  M  V  T  H  Y  F  D  E  S  F  L  R  T  E  E  D  Y  V  N  T  Y  S   </first_frame>
            <second_frame>  Y  F  L  S  L  R  W  R  T  E  P  R  I  L  F  P  H  H  Q  S  N  H  C  S  R  P  K  I  L  F  S  H  Q  S  N  P  Y  S  H  F  F  F  F  L  S  M  I  D  L  F  T  C  M  T  *  M  S  R  I  S  Q  K  S  D  S  I  Y  G  I  R  Y  E  I  D  D  L  D  E  I  N  I  S  M  F  L  L  R  T  Y  *  F  D  P  I  S  G  T  K  H  V  A  A  R  S  R  T  P  Y  L  F  *  R  I  S  *  L  F  Q  S  S  *  K  E  I  L  *  P  K  K  I  R  F  S  C  R  I  P  I  *  K  F  S  Q  L  N  H  R  *  R  S  H  Q  T  F  Y  P  F  E  L  C  L  *  L  T  R  G  P  G  N  K  E  K  T  C  T  N  K  I  S  S  N  K  E  K  E  K  D  *  I  E  E  L  P  S  I  W  R  S  Q  M  C  R  Y  Q  W  *  L  I  I  S  M  N  H  F  F  E  Q  K  K  I  M  *  T  L  T  Q  </second_frame>
            <third_frame>   I  F  C  R  *  G  G  E  L  N  Q  E  F  S  F  L  I  I  N  R  I  T  V  R  D  P  R  F  Y  F  L  I  N  P  I  P  I  H  I  F  S  F  S  Y  Q  *  *  I  F  L  L  V  *  L  R  C  L  V  F  L  K  K  V  I  R  F  M  G  F  G  M  R  S  M  I  S  M  R  L  I  F  Q  C  F  F  L  E  R  I  D  L  T  P  *  A  G  P  S  M  L  P  P  E  A  E  P  R  I  Y  S  R  E  F  P  N  C  S  R  A  A  R  K  R  F  F  N  Q  K  K  F  G  S  V  V  G  Y  L  S  R  S  F  R  N  S  I  I  D  E  G  V  I  K  H  F  T  L  S  N  S  V  C  N  S  L  E  A  R  E  T  K  R  R  R  V  R  T  R  Y  L  A  T  R  R  R  K  R  I  E  *  R  N  S  R  A  F  G  D  L  R  C  V  D  I  N  G  D  S  L  F  R  *  I  I  S  S  N  R  R  R  L  C  K  H  L  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="C04HBa0128G23.1" strand="-"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="41967" stop="41683"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>282</number_coding_nucleotides>
                  <number_encoded_amino_acids>94</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>AGPSMLPPEAEPRIYSREFPNCSRAARKRFFNQKKFGSVVGYLSRSFRNSIIDEGVIKHFTLSNSVCNSLEARETKRRRVRTRYLATRRRKRIE*</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="54422" PGL_stop="54001"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="54422" e_stop="54001"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.950"/>
        </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="0.950">
            <gDNA_exon_boundary e_start="54422" e_stop="54001" e_length="422"/>
          </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="54422" stop="54001"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U338087" 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>ATACACACAGAGAGTTTTTCAGCAGCCAAAAGAGAGAAAAAGAGAGAAATTCGCAGTCAAAAATCCAGCCATAACAACCAACTTCAAATTGTGATTCGCGCTTCGTTTCTTGTCCGATTGAGCTGATTTTTGGACAGCATATTATCTTCATCTCAATCTTTGATTAGGAACTGATAGAGTTGGATTTGGTGGCCTGCAGCTTCAGTTTTGCTGTCATGAACAGTAGCTGCGAAATTGGTGATTTTGCTCCTTTAATTCTCTAGATTTGGTGCAATCTTATTTTGTTGTTGCTCGTTGTTTGGCACTTGTTTTGTGGCCAATTTTGGAGAACAATATTGTAACTCTTGGTGATTATAGTGGAGCTTTTGGTCCCGTGGTTTTTTACTCTTCACATCGAAGGATTTTCCACGTAAATCTTGGTG</gDNA_template>
            <first_frame> I  H  T  E  S  F  S  A  A  K  R  E  K  K  R  E  I  R  S  Q  K  S  S  H  N  N  Q  L  Q  I  V  I  R  A  S  F  L  V  R  L  S  *  F  L  D  S  I  L  S  S  S  Q  S  L  I  R  N  *  *  S  W  I  W  W  P  A  A  S  V  L  L  S  *  T  V  A  A  K  L  V  I  L  L  L  *  F  S  R  F  G  A  I  L  F  C  C  C  S  L  F  G  T  C  F  V  A  N  F  G  E  Q  Y  C  N  S  W  *  L  *  W  S  F  W  S  R  G  F  L  L  F  T  S  K  D  F  P  R  K  S  W   </first_frame>
            <second_frame>  Y  T  Q  R  V  F  Q  Q  P  K  E  R  K  R  E  K  F  A  V  K  N  P  A  I  T  T  N  F  K  L  *  F  A  L  R  F  L  S  D  *  A  D  F  W  T  A  Y  Y  L  H  L  N  L  *  L  G  T  D  R  V  G  F  G  G  L  Q  L  Q  F  C  C  H  E  Q  *  L  R  N  W  *  F  C  S  F  N  S  L  D  L  V  Q  S  Y  F  V  V  A  R  C  L  A  L  V  L  W  P  I  L  E  N  N  I  V  T  L  G  D  Y  S  G  A  F  G  P  V  V  F  Y  S  S  H  R  R  I  F  H  V  N  L  G  </second_frame>
            <third_frame>   T  H  R  E  F  F  S  S  Q  K  R  E  K  E  R  N  S  Q  S  K  I  Q  P  *  Q  P  T  S  N  C  D  S  R  F  V  S  C  P  I  E  L  I  F  G  Q  H  I  I  F  I  S  I  F  D  *  E  L  I  E  L  D  L  V  A  C  S  F  S  F  A  V  M  N  S  S  C  E  I  G  D  F  A  P  L  I  L  *  I  W  C  N  L  I  L  L  L  L  V  V  W  H  L  F  C  G  Q  F  W  R  T  I  L  *  L  L  V  I  I  V  E  L  L  V  P  W  F  F  T  L  H  I  E  G  F  S  T  *  I  L  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="C04HBa0128G23.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="4" PGL_strand="-" PGL_start="59432" PGL_stop="58719"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="59432" e_stop="59432"/>
            <exon e_start="59140" e_stop="58719"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.900" acc_prob="0.985" e_score="1.000"/>
          <exon-only e_score="0.950"/>
        </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="59432" e_stop="59432" e_length="1"/>
          </exon>
          <intron i_serial="1" don_prob="0.900" acc_prob="0.985">
            <gDNA_intron_boundary i_start="59431" i_stop="59141" i_length="291"/>
          </intron>
          <exon e_serial="2" e_score="0.950">
            <gDNA_exon_boundary e_start="59140" e_stop="58719" e_length="422"/>
          </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="59432" stop="59432"/>
              <exon start="59140" stop="58719"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U338087" 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>A : ATACACAGAGAGAGTTTTTCAGCAGCCAAAAGAGAGAAAAAGAGAGAAATTCGCAGTCAAAAATCCAGCCATAACAACAAAATTCAAATTGCGATTCCTGCTTCGTTTCTTGTCCGATTGAGCCGATTTTTGGACAGCATATTATCTTCATCTCAATCTTTGATTAGGAACTGACAGAGTCGGATTTGGTGGTCTGCAGCTTCAGTTTTGCTGTCGTTAACAGTAGCTGCGAAATTGGTGATTTTGCTCCTTTAATTCTCTAGATTTGGTGCAATCTTATTTTGTTGTTGCTCGTTGTTTGGCACTTGTTTTGTGGCCAATTTTGGAGAACAATATTGTAACTCTTGGTGATTATAGTGGAGCTTTTGGTCCCGTGGTTTTTTACTCTTCACATCGAAGGGTTTTCCACGTAAATTTTGGTG</gDNA_template>
            <first_frame>  : N  T  Q  R  E  F  F  S  S  Q  K  R  E  K  E  R  N  S  Q  S  K  I  Q  P  *  Q  Q  N  S  N  C  D  S  C  F  V  S  C  P  I  E  P  I  F  G  Q  H  I  I  F  I  S  I  F  D  *  E  L  T  E  S  D  L  V  V  C  S  F  S  F  A  V  V  N  S  S  C  E  I  G  D  F  A  P  L  I  L  *  I  W  C  N  L  I  L  L  L  L  V  V  W  H  L  F  C  G  Q  F  W  R  T  I  L  *  L  L  V  I  I  V  E  L  L  V  P  W  F  F  T  L  H  I  E  G  F  S  T  *  I  L  V </first_frame>
            <second_frame>  :  I  H  R  E  S  F  S  A  A  K  R  E  K  K  R  E  I  R  S  Q  K  S  S  H  N  N  K  I  Q  I  A  I  P  A  S  F  L  V  R  L  S  R  F  L  D  S  I  L  S  S  S  Q  S  L  I  R  N  *  Q  S  R  I  W  W  S  A  A  S  V  L  L  S  L  T  V  A  A  K  L  V  I  L  L  L  *  F  S  R  F  G  A  I  L  F  C  C  C  S  L  F  G  T  C  F  V  A  N  F  G  E  Q  Y  C  N  S  W  *  L  *  W  S  F  W  S  R  G  F  L  L  F  T  S  K  G  F  P  R  K  F  W   </second_frame>
            <third_frame>  :   Y  T  E  R  V  F  Q  Q  P  K  E  R  K  R  E  K  F  A  V  K  N  P  A  I  T  T  K  F  K  L  R  F  L  L  R  F  L  S  D  *  A  D  F  W  T  A  Y  Y  L  H  L  N  L  *  L  G  T  D  R  V  G  F  G  G  L  Q  L  Q  F  C  C  R  *  Q  *  L  R  N  W  *  F  C  S  F  N  S  L  D  L  V  Q  S  Y  F  V  V  A  R  C  L  A  L  V  L  W  P  I  L  E  N  N  I  V  T  L  G  D  Y  S  G  A  F  G  P  V  V  F  Y  S  S  H  R  R  V  F  H  V  N  F  G  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C04HBa0128G23.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="5" PGL_strand="+" PGL_start="91955" PGL_stop="92131"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="91955" e_stop="92131"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.915"/>
        </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="0.915">
            <gDNA_exon_boundary e_start="91955" e_stop="92131" e_length="177"/>
          </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="91955" stop="92131"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U345909" 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>CTACATCTCCTCCCATACATTGCCTCAAATGGAGCCATATCAATACTTGAGTGATAGCTATTATTGTATGAAAACTCTGCCAAGGGTAAGAAGTTATCCCAATGACCACCAAATTCTATCACACATGCACGAAGCATATCCTCCAATACCTGAATCGTTCGCTCAGACTAACCATCG</gDNA_template>
            <first_frame> L  H  L  L  P  Y  I  A  S  N  G  A  I  S  I  L  E  *  *  L  L  L  Y  E  N  S  A  K  G  K  K  L  S  Q  *  P  P  N  S  I  T  H  A  R  S  I  S  S  N  T  *  I  V  R  S  D  *  P  S </first_frame>
            <second_frame>  Y  I  S  S  H  T  L  P  Q  M  E  P  Y  Q  Y  L  S  D  S  Y  Y  C  M  K  T  L  P  R  V  R  S  Y  P  N  D  H  Q  I  L  S  H  M  H  E  A  Y  P  P  I  P  E  S  F  A  Q  T  N  H   </second_frame>
            <third_frame>   T  S  P  P  I  H  C  L  K  W  S  H  I  N  T  *  V  I  A  I  I  V  *  K  L  C  Q  G  *  E  V  I  P  M  T  T  K  F  Y  H  T  C  T  K  H  I  L  Q  Y  L  N  R  S  L  R  L  T  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/">
            <none gDNA_id="C04HBa0128G23.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="6" PGL_strand="-" PGL_start="95991" PGL_stop="95336"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="95991" e_stop="95336"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.909"/>
        </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="0.909">
            <gDNA_exon_boundary e_start="95991" e_stop="95336" e_length="656"/>
          </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="95991" stop="95336"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U346572" 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>AGATGATTAACCAGGTTCTTTCTTATCTTAGCGGATTATCTGATCAAGGCCAGACACCTCCAGTGTTTTCTACACCAGCACCTCAGGTTCCGAGAGTACAACATGCAACTGCTATGGCTTCCCGCGTGGATGCCTCATTGGAAATGGGCACGTTTGTTCAATTGACTACAGGGATTATAATGACGAGTGATCAGCATGAACTTTTCACTAAGTTCTTGAAGTTGAAACCTCCAGTATTCAAGGGTGGTGAATCTGAGGACGCCTATGATTTTCTGGTTGATTGTCATGAGCTGCTAAATAAGATGGACATAGTGGAACGATTCGGTGTTGAGTTTGTGACCTATCAGTTTCAGGGAAATGCCAAAATGTGGTGGCAGTCGTATGTTGACTGTCAACCGGCACAGGAACCAACTATGAGTTGGGCATCATTCTCTAGCCTATTTATGGAAAAGTATATACCCCGGACTTTGAGAGATAGGAGGAGAGATGAGTTCTTTAGCCTAGAGCAAGGCAGGATGTCGGTTACTACTTATGAGGCTAAGTTTCATGCATTATCCAGGTATGCCACCCAGCTTTGCTTCAGTTCACAAGAGCGGATTCACCGTTTTGTGAAGGGATTGAGGTCAGATTTGCAGATTCCAGTCTTACAGGTAGCT</gDNA_template>
            <first_frame> R  *  L  T  R  F  F  L  I  L  A  D  Y  L  I  K  A  R  H  L  Q  C  F  L  H  Q  H  L  R  F  R  E  Y  N  M  Q  L  L  W  L  P  A  W  M  P  H  W  K  W  A  R  L  F  N  *  L  Q  G  L  *  *  R  V  I  S  M  N  F  S  L  S  S  *  S  *  N  L  Q  Y  S  R  V  V  N  L  R  T  P  M  I  F  W  L  I  V  M  S  C  *  I  R  W  T  *  W  N  D  S  V  L  S  L  *  P  I  S  F  R  E  M  P  K  C  G  G  S  R  M  L  T  V  N  R  H  R  N  Q  L  *  V  G  H  H  S  L  A  Y  L  W  K  S  I  Y  P  G  L  *  E  I  G  G  E  M  S  S  L  A  *  S  K  A  G  C  R  L  L  L  M  R  L  S  F  M  H  Y  P  G  M  P  P  S  F  A  S  V  H  K  S  G  F  T  V  L  *  R  D  *  G  Q  I  C  R  F  Q  S  Y  R  *   </first_frame>
            <second_frame>  D  D  *  P  G  S  F  L  S  *  R  I  I  *  S  R  P  D  T  S  S  V  F  Y  T  S  T  S  G  S  E  S  T  T  C  N  C  Y  G  F  P  R  G  C  L  I  G  N  G  H  V  C  S  I  D  Y  R  D  Y  N  D  E  *  S  A  *  T  F  H  *  V  L  E  V  E  T  S  S  I  Q  G  W  *  I  *  G  R  L  *  F  S  G  *  L  S  *  A  A  K  *  D  G  H  S  G  T  I  R  C  *  V  C  D  L  S  V  S  G  K  C  Q  N  V  V  A  V  V  C  *  L  S  T  G  T  G  T  N  Y  E  L  G  I  I  L  *  P  I  Y  G  K  V  Y  T  P  D  F  E  R  *  E  E  R  *  V  L  *  P  R  A  R  Q  D  V  G  Y  Y  L  *  G  *  V  S  C  I  I  Q  V  C  H  P  A  L  L  Q  F  T  R  A  D  S  P  F  C  E  G  I  E  V  R  F  A  D  S  S  L  T  G  S  </second_frame>
            <third_frame>   M  I  N  Q  V  L  S  Y  L  S  G  L  S  D  Q  G  Q  T  P  P  V  F  S  T  P  A  P  Q  V  P  R  V  Q  H  A  T  A  M  A  S  R  V  D  A  S  L  E  M  G  T  F  V  Q  L  T  T  G  I  I  M  T  S  D  Q  H  E  L  F  T  K  F  L  K  L  K  P  P  V  F  K  G  G  E  S  E  D  A  Y  D  F  L  V  D  C  H  E  L  L  N  K  M  D  I  V  E  R  F  G  V  E  F  V  T  Y  Q  F  Q  G  N  A  K  M  W  W  Q  S  Y  V  D  C  Q  P  A  Q  E  P  T  M  S  W  A  S  F  S  S  L  F  M  E  K  Y  I  P  R  T  L  R  D  R  R  R  D  E  F  F  S  L  E  Q  G  R  M  S  V  T  T  Y  E  A  K  F  H  A  L  S  R  Y  A  T  Q  L  C  F  S  S  Q  E  R  I  H  R  F  V  K  G  L  R  S  D  L  Q  I  P  V  L  Q  V  A </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0128G23.1" strand="-"/>
                <serials PGL_serial="6" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="95989" stop="95336"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>654</number_coding_nucleotides>
                  <number_encoded_amino_acids>218</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>MINQVLSYLSGLSDQGQTPPVFSTPAPQVPRVQHATAMASRVDASLEMGTFVQLTTGIIMTSDQHELFTKFLKLKPPVFKGGESEDAYDFLVDCHELLNKMDIVERFGVEFVTYQFQGNAKMWWQSYVDCQPAQEPTMSWASFSSLFMEKYIPRTLRDRRRDEFFSLEQGRMSVTTYEAKFHALSRYATQLCFSSQERIHRFVKGLRSDLQIPVLQVA</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="100985" PGL_stop="100277"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="100985" e_stop="100277"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.959"/>
        </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="0.959">
            <gDNA_exon_boundary e_start="100985" e_stop="100277" e_length="709"/>
          </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="100985" stop="100277"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U324842" 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>TAAGGTTGAGAATCGAACAGGATAATAAGGCTGCAGAAAAGAGGTCACGTGGTAATTCAGCAATCTCTGGAGTAAATTTTGTTGAAGAAGATTCCACAAAATTAAAGAAAAGAAAGAAACCATTTGGTCCAAAAAGCAATCCTCCTAAGAAGAAATTCAATGGAAACAACTTTAATTGTGGTAAACATGGTCATAGGGCTAATGAATGTCGGGGTCCTAAGAAGGACAAGAAAAAGAAAGATCAAGCAAACTTGGCTGAATCCAAAGGAGATATGGATGATCTCTGTGCAATGCTTTCAGAATGTAACTTGGTTGGAAATCCAAGAGAATGGTGGATAGATTCTAGTGCCTCATGTCATGTTTGTGCCAACAAAGAATTATTTTCATCATATACTCCAGCACTTACAGATGAAAAATTGTTTATGGCAAACTCCGTTGTTGCAAAGGTGGAAAGAACTGGCAAAGTCCTATTAAAGATGACATCAGGCAAGGTGGTGACTTTGAATAGGGTCTCATATGTTCCAGAATTGAGAAAGAATTTAGTTTCAATTCCAGTTCTGACCAAGAATGGATTTAAATGTGTATTTGTTTCTGATAAAGTAGTAGTAAGCAAAAATGATATGTATGTAGGAAAAGGCTACCTTAATGATGGCCTTTTCAAACTAAATGTAATTGTAGTTGATATGAATAAACATTTTGCTTCTTCTTA</gDNA_template>
            <first_frame> *  G  *  E  S  N  R  I  I  R  L  Q  K  R  G  H  V  V  I  Q  Q  S  L  E  *  I  L  L  K  K  I  P  Q  N  *  R  K  E  R  N  H  L  V  Q  K  A  I  L  L  R  R  N  S  M  E  T  T  L  I  V  V  N  M  V  I  G  L  M  N  V  G  V  L  R  R  T  R  K  R  K  I  K  Q  T  W  L  N  P  K  E  I  W  M  I  S  V  Q  C  F  Q  N  V  T  W  L  E  I  Q  E  N  G  G  *  I  L  V  P  H  V  M  F  V  P  T  K  N  Y  F  H  H  I  L  Q  H  L  Q  M  K  N  C  L  W  Q  T  P  L  L  Q  R  W  K  E  L  A  K  S  Y  *  R  *  H  Q  A  R  W  *  L  *  I  G  S  H  M  F  Q  N  *  E  R  I  *  F  Q  F  Q  F  *  P  R  M  D  L  N  V  Y  L  F  L  I  K  *  *  *  A  K  M  I  C  M  *  E  K  A  T  L  M  M  A  F  S  N  *  M  *  L  *  L  I  *  I  N  I  L  L  L  L  </first_frame>
            <second_frame>  K  V  E  N  R  T  G  *  *  G  C  R  K  E  V  T  W  *  F  S  N  L  W  S  K  F  C  *  R  R  F  H  K  I  K  E  K  K  E  T  I  W  S  K  K  Q  S  S  *  E  E  I  Q  W  K  Q  L  *  L  W  *  T  W  S  *  G  *  *  M  S  G  S  *  E  G  Q  E  K  E  R  S  S  K  L  G  *  I  Q  R  R  Y  G  *  S  L  C  N  A  F  R  M  *  L  G  W  K  S  K  R  M  V  D  R  F  *  C  L  M  S  C  L  C  Q  Q  R  I  I  F  I  I  Y  S  S  T  Y  R  *  K  I  V  Y  G  K  L  R  C  C  K  G  G  K  N  W  Q  S  P  I  K  D  D  I  R  Q  G  G  D  F  E  *  G  L  I  C  S  R  I  E  K  E  F  S  F  N  S  S  S  D  Q  E  W  I  *  M  C  I  C  F  *  *  S  S  S  K  Q  K  *  Y  V  C  R  K  R  L  P  *  *  W  P  F  Q  T  K  C  N  C  S  *  Y  E  *  T  F  C  F  F  L </second_frame>
            <third_frame>   R  L  R  I  E  Q  D  N  K  A  A  E  K  R  S  R  G  N  S  A  I  S  G  V  N  F  V  E  E  D  S  T  K  L  K  K  R  K  K  P  F  G  P  K  S  N  P  P  K  K  K  F  N  G  N  N  F  N  C  G  K  H  G  H  R  A  N  E  C  R  G  P  K  K  D  K  K  K  K  D  Q  A  N  L  A  E  S  K  G  D  M  D  D  L  C  A  M  L  S  E  C  N  L  V  G  N  P  R  E  W  W  I  D  S  S  A  S  C  H  V  C  A  N  K  E  L  F  S  S  Y  T  P  A  L  T  D  E  K  L  F  M  A  N  S  V  V  A  K  V  E  R  T  G  K  V  L  L  K  M  T  S  G  K  V  V  T  L  N  R  V  S  Y  V  P  E  L  R  K  N  L  V  S  I  P  V  L  T  K  N  G  F  K  C  V  F  V  S  D  K  V  V  V  S  K  N  D  M  Y  V  G  K  G  Y  L  N  D  G  L  F  K  L  N  V  I  V  V  D  M  N  K  H  F  A  S  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="C04HBa0128G23.1" strand="-"/>
                <serials PGL_serial="7" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="100983" stop="100279"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>705</number_coding_nucleotides>
                  <number_encoded_amino_acids>235</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RLRIEQDNKAAEKRSRGNSAISGVNFVEEDSTKLKKRKKPFGPKSNPPKKKFNGNNFNCGKHGHRANECRGPKKDKKKKDQANLAESKGDMDDLCAMLSECNLVGNPREWWIDSSASCHVCANKELFSSYTPALTDEKLFMANSVVAKVERTGKVLLKMTSGKVVTLNRVSYVPELRKNLVSIPVLTKNGFKCVFVSDKVVVSKNDMYVGKGYLNDGLFKLNVIVVDMNKHFASS</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="8" PGL_strand="-" PGL_start="102284" PGL_stop="100997"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="102284" e_stop="101181"/>
            <exon e_start="101108" e_stop="100997"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.997" acc_prob="0.977" e_score="0.918"/>
          <exon-only e_score="0.938"/>
        </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="0.918">
            <gDNA_exon_boundary e_start="102284" e_stop="101181" e_length="1104"/>
          </exon>
          <intron i_serial="1" don_prob="0.997" acc_prob="0.977">
            <gDNA_intron_boundary i_start="101180" i_stop="101109" i_length="72"/>
          </intron>
          <exon e_serial="2" e_score="0.938">
            <gDNA_exon_boundary e_start="101108" e_stop="100997" e_length="112"/>
          </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="102284" stop="101181"/>
              <exon start="101108" stop="100997"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U312594" 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="8" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>AGACATGTTCCTTGTTGAAAATGGCTATAAAAGGAAGTCAATTTTTGATTTTTTCAAACACTGAAATTTTTTGTTTCTCTTCATTTATTTTCTCTCAAATAAAAATTAAAGTGTCGATCGACTGAGCATGTGTGACTTGTTACTGTTCTTAAGTTCGTTGAAGTTAAAGAAATTTGAAGTACCGCTATTTCTTTAATGGGTTTAATCCGTGTTATCTTGGAAGAAATTAATCCATAACCTTCGGTACAGTGAGGGGATTAAATTCCTTAAGAACACACAGTAGTTTCTGTGGACTCGGATTATTTCTTGTATTTTTTTCTGCTTCATCTTATTTCTGTTTCTGTTTATTAACCTTATAAATAAAGGTTATTGTAAGAAAAACAATCTTAAGAAATTTCACAGTTTTTGTATTTGAGGTTTCTGGAGATTAAAACCTTTATGGTTTTCTACTCTGCTTGAATTATTAAAATTTATTCGATTAACGATTAAAAGAACATAAAAACTTTATCGTTAAATCAGAAACAGTTTGTGTAAAGATTTGGTCTTTACTGTTAGTATTTTAAATACTTAATTTATCTGCCATTTGTGACAGAAAAAAAATGACTAATTCAAGTCAAACAAATGCTGGGACAGTAAGTGCTGCAACAACAACGGTTGCACATAATCGTTCAAATGTTGCCTTAGCACCGGCTAAGAAACCTGCAAAAATTTCTGGAGTCAACATTAAGAGATGGTAGCAAAAGATGTTCTTCTATCTCACTACGTTGAGTCTGCAGAAGTTCATCAATGAGAATGTTCCTGTTATGTTAGATCAATCTCCTGCTGATGAATGATTCTTGGTAACAGAAGCATGGACGCACTCAGATTTTTTGTGTAAAAATTATATTTTGAGTGGTCTGCAAGATGATCTGTACAATGTGTACGGCACTGCTAAAACCTCAAAAGAACTCTGGGGTGCTTTAGAAAAGAAGTACAAAACAGAAGATGCGGGAATGAAGAAATTCATTGTGGCAAAATTTCTGGACTATATGATGATAGACAGTAAGACTGTTATCACCCAAGTTCAAGAATTGCAGGTCATAATCCATGATCTCCTTGCTGAAG : GATTGATTGTGAATGATGCTTTTCTAGTGGCTGCAATTATTGAAAAGTTACCTCCATTGTGGAAGGACTTTAAAAACTACTTGAAACACAAATGCAAAGAGTTCACTGTTGA</gDNA_template>
            <first_frame> R  H  V  P  C  *  K  W  L  *  K  E  V  N  F  *  F  F  Q  T  L  K  F  F  V  S  L  H  L  F  S  L  K  *  K  L  K  C  R  S  T  E  H  V  *  L  V  T  V  L  K  F  V  E  V  K  E  I  *  S  T  A  I  S  L  M  G  L  I  R  V  I  L  E  E  I  N  P  *  P  S  V  Q  *  G  D  *  I  P  *  E  H  T  V  V  S  V  D  S  D  Y  F  L  Y  F  F  L  L  H  L  I  S  V  S  V  Y  *  P  Y  K  *  R  L  L  *  E  K  Q  S  *  E  I  S  Q  F  L  Y  L  R  F  L  E  I  K  T  F  M  V  F  Y  S  A  *  I  I  K  I  Y  S  I  N  D  *  K  N  I  K  T  L  S  L  N  Q  K  Q  F  V  *  R  F  G  L  Y  C  *  Y  F  K  Y  L  I  Y  L  P  F  V  T  E  K  K  *  L  I  Q  V  K  Q  M  L  G  Q  *  V  L  Q  Q  Q  R  L  H  I  I  V  Q  M  L  P  *  H  R  L  R  N  L  Q  K  F  L  E  S  T  L  R  D  G  S  K  R  C  S  S  I  S  L  R  *  V  C  R  S  S  S  M  R  M  F  L  L  C  *  I  N  L  L  L  M  N  D  S  W  *  Q  K  H  G  R  T  Q  I  F  C  V  K  I  I  F  *  V  V  C  K  M  I  C  T  M  C  T  A  L  L  K  P  Q  K  N  S  G  V  L  *  K  R  S  T  K  Q  K  M  R  E  *  R  N  S  L  W  Q  N  F  W  T  I  *  *  *  T  V  R  L  L  S  P  K  F  K  N  C  R  S  *  S  M  I  S  L  L  K  :  D  *  L  *  M  M  L  F  *  W  L  Q  L  L  K  S  Y  L  H  C  G  R  T  L  K  T  T  *  N  T  N  A  K  S  S  L  L  </first_frame>
            <second_frame>  D  M  F  L  V  E  N  G  Y  K  R  K  S  I  F  D  F  F  K  H  *  N  F  L  F  L  F  I  Y  F  L  S  N  K  N  *  S  V  D  R  L  S  M  C  D  L  L  L  F  L  S  S  L  K  L  K  K  F  E  V  P  L  F  L  *  W  V  *  S  V  L  S  W  K  K  L  I  H  N  L  R  Y  S  E  G  I  K  F  L  K  N  T  Q  *  F  L  W  T  R  I  I  S  C  I  F  F  C  F  I  L  F  L  F  L  F  I  N  L  I  N  K  G  Y  C  K  K  N  N  L  K  K  F  H  S  F  C  I  *  G  F  W  R  L  K  P  L  W  F  S  T  L  L  E  L  L  K  F  I  R  L  T  I  K  R  T  *  K  L  Y  R  *  I  R  N  S  L  C  K  D  L  V  F  T  V  S  I  L  N  T  *  F  I  C  H  L  *  Q  K  K  N  D  *  F  K  S  N  K  C  W  D  S  K  C  C  N  N  N  G  C  T  *  S  F  K  C  C  L  S  T  G  *  E  T  C  K  N  F  W  S  Q  H  *  E  M  V  A  K  D  V  L  L  S  H  Y  V  E  S  A  E  V  H  Q  *  E  C  S  C  Y  V  R  S  I  S  C  *  *  M  I  L  G  N  R  S  M  D  A  L  R  F  F  V  *  K  L  Y  F  E  W  S  A  R  *  S  V  Q  C  V  R  H  C  *  N  L  K  R  T  L  G  C  F  R  K  E  V  Q  N  R  R  C  G  N  E  E  I  H  C  G  K  I  S  G  L  Y  D  D  R  Q  *  D  C  Y  H  P  S  S  R  I  A  G  H  N  P  *  S  P  C  *  R :   I  D  C  E  *  C  F  S  S  G  C  N  Y  *  K  V  T  S  I  V  E  G  L  *  K  L  L  E  T  Q  M  Q  R  V  H  C  * </second_frame>
            <third_frame>   T  C  S  L  L  K  M  A  I  K  G  S  Q  F  L  I  F  S  N  T  E  I  F  C  F  S  S  F  I  F  S  Q  I  K  I  K  V  S  I  D  *  A  C  V  T  C  Y  C  S  *  V  R  *  S  *  R  N  L  K  Y  R  Y  F  F  N  G  F  N  P  C  Y  L  G  R  N  *  S  I  T  F  G  T  V  R  G  L  N  S  L  R  T  H  S  S  F  C  G  L  G  L  F  L  V  F  F  S  A  S  S  Y  F  C  F  C  L  L  T  L  *  I  K  V  I  V  R  K  T  I  L  R  N  F  T  V  F  V  F  E  V  S  G  D  *  N  L  Y  G  F  L  L  C  L  N  Y  *  N  L  F  D  *  R  L  K  E  H  K  N  F  I  V  K  S  E  T  V  C  V  K  I  W  S  L  L  L  V  F  *  I  L  N  L  S  A  I  C  D  R  K  K  M  T  N  S  S  Q  T  N  A  G  T  V  S  A  A  T  T  T  V  A  H  N  R  S  N  V  A  L  A  P  A  K  K  P  A  K  I  S  G  V  N  I  K  R  W  *  Q  K  M  F  F  Y  L  T  T  L  S  L  Q  K  F  I  N  E  N  V  P  V  M  L  D  Q  S  P  A  D  E  *  F  L  V  T  E  A  W  T  H  S  D  F  L  C  K  N  Y  I  L  S  G  L  Q  D  D  L  Y  N  V  Y  G  T  A  K  T  S  K  E  L  W  G  A  L  E  K  K  Y  K  T  E  D  A  G  M  K  K  F  I  V  A  K  F  L  D  Y  M  M  I  D  S  K  T  V  I  T  Q  V  Q  E  L  Q  V  I  I  H  D  L  L  A  E   : G  L  I  V  N  D  A  F  L  V  A  A  I  I  E  K  L  P  P  L  W  K  D  F  K  N  Y  L  K  H  K  C  K  E  F  T  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/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0128G23.1" strand="-"/>
                <serials PGL_serial="8" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="101451" stop="101181"/>
                    <exon start="101108" stop="100999"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>381</number_coding_nucleotides>
                  <number_encoded_amino_acids>127</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FLVTEAWTHSDFLCKNYILSGLQDDLYNVYGTAKTSKELWGALEKKYKTEDAGMKKFIVAKFLDYMMIDSKTVITQVQELQVIIHDLLAEGLIVNDAFLVAAIIEKLPPLWKDFKNYLKHKCKEFTV</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 65 chains have been computed
$ 
$ memory statistics:
$ 114336 bytes spliced alignments in total
$ 8 spliced alignments have been stored
$ 14292 bytes was the average size of a spliced alignment
$ 13824 bytes predicted gene locations in total
$ 8 predicted gene locations have been stored
$ 1728 bytes was the average size of a predicted gene location
$ 1 megabytes was the average size of the backtrace matrix
$ 77 backtrace matrices have been allocated
$ 
$ date finished: 2008-02-20 05:13:38
-->
