<?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 05:54:33"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C06HBa0055E14-RbHud/GenomeThreader_SGN_markers/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C06HBa0055E14-RbHud/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" type="ESTcDNA"/>
    </reference_files>
    <splice_site_parameters parameter_type="Bayesian" species="arabidopsis"/>
    <parameters>
      <parameter name="bssmfile" value="arabidopsis"/>
      <parameter name="scorematrixfile" value="BLOSUM62"/>
      <parameter name="searchmode" value="forward=True,reverse=True)"/>
      <parameter name="translationtable" value="1"/>
      <parameter name="frompos" value="0"/>
      <parameter name="topos" value="0"/>
      <parameter name="width" value="0"/>
      <parameter name="verbose" value="False"/>
      <parameter name="skipalignmentout" value="False"/>
      <parameter name="showintronmaxlen" value="120"/>
      <parameter name="minorflen" value="64"/>
      <parameter name="showseqnums" value="False"/>
      <parameter name="gs2out" value="False"/>
      <parameter name="maskpolyatails" value="False"/>
      <parameter name="noautoindex" value="False"/>
      <parameter name="minmatchlen" value="20"/>
      <parameter name="seedlength" value="16"/>
      <parameter name="exdrop" value="2"/>
      <parameter name="online" value="False"/>
      <parameter name="inverse" value="False"/>
      <parameter name="exact" value="False"/>
      <parameter name="chainwf" value="0.500000"/>
      <parameter name="gcmaxgapwidth" value="1000000"/>
      <parameter name="gcmincoverage" value="50"/>
      <parameter name="introncutout" value="False"/>
      <parameter name="autointroncutout" value="0"/>
      <parameter name="icinitialdelta" value="50"/>
      <parameter name="iciterations" value="2"/>
      <parameter name="icdeltaincrease" value="50"/>
      <parameter name="icminremintronlen" value="10"/>
      <parameter name="nou12intronmodel" value="False"/>
      <parameter name="u12donorprob" value="0.990000"/>
      <parameter name="u12donorprob1mism" value="0.900000"/>
      <parameter name="probies" value="0.500000"/>
      <parameter name="probdelgen" value="0.030000"/>
      <parameter name="identityweight" value="2.000000"/>
      <parameter name="mismatchweight" value="-2.000000"/>
      <parameter name="undetcharweight" value="0.000000"/>
      <parameter name="deletionweight" value="-4.000000"/>
      <parameter name="dpminexonlen" value="5"/>
      <parameter name="dpminintronlen" value="50"/>
      <parameter name="shortexonpenal" value="100"/>
      <parameter name="shortintronpenal" value="100"/>
      <parameter name="wzerotransition" value="80"/>
      <parameter name="wdecreasedoutput" value="80"/>
      <parameter name="leadcutoffsmode" value="RELAXED"/>
      <parameter name="termcutoffsmode" value="STRICT"/>
      <parameter name="cutoffsminexonlen" value="5"/>
      <parameter name="scoreminexonlen" value="50"/>
      <parameter name="minaveragessp" value="0.500000"/>
      <parameter name="minalignmentscore" value="0.900000"/>
      <parameter name="maxalignmentscore" value="1.000000"/>
      <parameter name="mincoverage" value="0.900000"/>
      <parameter name="maxcoverage" value="100.000000"/>
      <parameter name="intermediate" value="False"/>
      <parameter name="sortags" value="False"/>
      <parameter name="sortagswf" value="1.000000"/>
      <parameter name="first" value="0"/>
      <parameter name="exondistri" value="False"/>
      <parameter name="introndistri" value="False"/>
      <parameter name="refseqcovdistri" value="False"/>
    </parameters>
    <overall_reference_type>ESTcDNA</overall_reference_type>
  </header>
  <alignment_module>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C06HBa0055E14-RbHud/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M7320" ref_strand="+" ref_description="SGN-M7320 C2_At2g27170 [cosii_markers]">
      <seq>ctccaaagaaggcaagctgaactggatgctggggatgagaaaatcaaggaacttatatctgttttggatatgaggaaggatgaatcaattgagcgcacgttcaagggtgtggctaaacatttccgtgaagtattctctcagcttgtacaaggaggtcacgggttcttagttatgatgaagaaaaaggatggtgaggaagatgacaatgatcctgatgatgatgagccgcgtgctgatgcagagggaagagttgagaaatatattggtgtgaaagtgaaggtgtcgttcactggacaaggagaaacacagtcaatgaaacagttatcagggggccagaaaactgtggtagcactggcacttatatttgccatacaaagatgtgatcctgccccattttatctttttgatgagatagatgcagcactagatcctcagtacagaacagccgtggggaatatggttcgtgatttggcagacaggggtagcacgcaatttatcacgacgacatttcgcccggagctcgtgaaggtggctgataagatatatagtgtgagccacaaaaatatagttagcaaggtcactgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C06HBa0055E14-RbHud/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C06HBa0055E14.1" temp_strand="-" temp_description="C06HBa0055E14.1  AC232857.1 htgs_phase:3 submitted_to_sgn_as:C06HBa0055E14 sequenced_by:cbsg upload_account_name:netherlands [organism=Solanum lycopersicum]">
        <position start="4461" stop="864"/>
      </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="4161" g_stop="4123" g_length="39"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="39" r_length="39" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="4122" i_stop="4022" i_length="101">
            <donor d_prob="0.997" d_score="0.00"/>
            <acceptor a_prob="0.782" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="4021" g_stop="3875" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="40" r_stop="186" r_length="147" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="3874" i_stop="1856" i_length="2019">
            <donor d_prob="0.946" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="1855" g_stop="1763" g_length="93"/>
          <reference_exon_boundary r_type="cDNA" r_start="187" r_stop="279" r_length="93" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="1762" i_stop="1551" i_length="212">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="1550" g_stop="1376" g_length="175"/>
          <reference_exon_boundary r_type="cDNA" r_start="280" r_stop="454" r_length="175" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="1375" i_stop="1294" i_length="82">
            <donor d_prob="0.900" d_score="1.00"/>
            <acceptor a_prob="0.987" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="1293" g_stop="1164" g_length="130"/>
          <reference_exon_boundary r_type="cDNA" r_start="455" r_stop="584" r_length="130" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C06HBa0055E14.1" gen_strand="-" ref_id="SGN-M7320" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>584</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C06HBa0055E14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M7320" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="4161" e_stop="4123"/>
          <exon e_start="4021" e_stop="3875"/>
          <exon e_start="1855" e_stop="1763"/>
          <exon e_start="1550" e_stop="1376"/>
          <exon e_start="1293" e_stop="1164"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCCAAAGAAGGCAAGCTGAACTGGATGCTGGGGATGAGGTATATAAAGCATGTATTTTGTGGATTTGAACTTGTGATGTTTATCTTTTGATACCAGTTGAGTTTGGCTCCCTTCATTTGTCTTGCATCAATCTTGGCAGAAAATCAAGGAACTTATATCTGTTTTGGATATGAGGAAGGATGAATCAATTGAGCGCACGTTCAAGGGTGTGGCTAAACATTTCCGTGAAGTATTCTCTCAGCTTGTACAAGGAGGTCACGGGTTCTTAGTTATGATGAAGAAAAAGGTTTGTTTTGTTTGTCACATAGCACATTATGTGTCTTTCTGTTGGGCTACCTCTTGCTCATTTTCGTACTTCCTCTAGTTCTGTTCGAAGTTCTCATTATGGTGCACTTGCAATAAACAGATCCTGTGATGTTAGAATATGAATAGGTTTGTACAATCCTATTAGAATAGGAATAGGTTTATATATTCCTATTTAGAATAGAATAGGAATAGAAATAAAAATAGGAATAGTAAATAGTATCCTACTTGGTAAAGGATTGTATTCTGGTGTCTATAAATAGTGTTTCCATGTTATAATGTATACAATAACAATTCAATAATATTCTTTTCCTATATTTGTCACAGGGTATATGAGAAGTCTCATGGAAATTAAACCATAATTTATACAAATGAGTTATTATATAAGTCATGTAGATATGTTCAAACAAAGTGCAAATATAGACTTTAAGAGATATAAATTTTGGAAATAAAAATGTCTTAATGAGAGTAATCAATATGGTTACATATGGCCAAGTACCTCTCCACAGTGGAAGGTAAGAAACAGAAACTCAACAGATGGTGCTCAACAAATTATTTGAAGAGGAAATACTTGAAAAACAATAAACTTATAGAATTGGCAATATAAGAAAGTGAAAGCATATCGATTACTGAACTTTCTGAATGCTTAGCTGGCTTAGAGAATCAAAATATCTCACTCATGGAGTATTCATTAGATTACATACAGCTAGAACTTAAACTTCAAAGGAAGAATTCAATAAATTCTCCAATGAAAAATGGAGAGATTAAGAGCCTAATAAATGGAGTAGCACTTAAACACAGCGACAGACATAACTGTATAGCATATTAGTTATACGAGTGGTCCTCTGAGCATAAAAAAAAGTTGCATGAGTGGTATCCGGATTGTTAACCTTCTTGTTGTAATTTCTAAGTATTAATGCCAGTGCCAGATAATATACAGTTATTCACTTAGGGATTACATACCTGTGGCTAGCTTTTTTTTAACTTAGTAACTTGGTATTATATCACAACCAGTACATGGGTTGTACTGTAACCTTGTATACATATGTACTGCAAATTTTACTGCCCTGAACCTAAATTGAGTCTAGATCATCAACTATAGAGGCAGTTTCATTTGAGTATATCTTGTTACTCCAAAAACATAACACAACGGAGTTTAGTTTAACCTTGCTCACTATTCTCTATGCTCTCAAAACACCTAGAACTCCTCTATTTCCAAGTTGACCACCATATAGCAGCAGGGATAGTTCTCCATCTCTCTGTTTTTAGCATGTACTGCTGCTTACTCTAGCTCTTCAGAGCCTCTGAGACTTTCCTGGGCATGTCCAGGAGATGTCTTGGAGACTTAGAAATATTCTCTGTAGCTAAAGGGTGTAAGTGCAGTGTAGAAACAGATGGTTCACTGTCTCATATGTTTCCTCACAAAGAAAATATCTCGAGCATAAGGTTATCCCTTTCTTCATCACATTGTCCTGAGTCAAAGCTGCTTCTTAGGCCAATAACCAGATGAAAACAGGATATTTTGTAAGGCATACTATTTTTTCCAAATTTGCTTTCATGGCCAGTTTAGATTATGATTGCTAGGTCGGCTAATATATTCCTTATTTGCAATATGACTTCCTAGGGCTAATGGTATTTCTTTGGTTCTCGCTTTCTAATTTCTCCTTAAAATCATTAGATTCCACCATTATAACATGGGTGATGGAATAATTGTTGCCGCCTCTTCATTTCCTGTCAAGAAAACACAATTGATGGTCCCAGAAACATCTGTGTATTATTACCTCTGTAGGTGTCCTTTAATTGTGTATTGCATGTAACATTGTCAACAAGCATTACTAAGCTGATGCATACTTGGCTAGTTATCATCATCAGAATTTGCCTGTATAAAATGGTAGTTTTCACATTTATTTTGTATGGATGAACTTCTGGAAGTACATGGGTCTGTGTAAGCTGGCTTTCTTAAGTGATGAGGATCACTAGAGTCTTGTGTTGTTGCTTCTAGGATGGTGAGGAAGATGACAATGATCCTGATGATGATGAGCCGCGTGCTGATGCAGAGGGAAGAGTTGAGAAATATATTGGTGTGAAAGTGAAGGCATGTATTTCTTACCATTTTATCTTCTGCTGTTTGTGATCATCTCATCAAGTCATCATTATTGAATTCTATTTTGGAGCAGTAGTTCCGATAATCATACAAAAAAAACTAGTCATCGTATTCTTGTGCTGTTTACACAATTATTTTGAAATCTGTATCTTTGAGCTAATTTTCAATTGGTACTTCAATTGAATTTAATGTTCTTATGATAGGTGTCGTTCACTGGACAAGGAGAAACACAGTCAATGAAACAGTTATCAGGGGGCCAGAAAACTGTGGTAGCACTGGCACTTATATTTGCCATACAAAGATGTGATCCTGCCCCATTTTATCTTTTTGATGAGATAGATGCAGCACTAGATCCTCAGTACAGAACAGCCGTGGGGAGTATCCTAGAGTTGAAATGATTTTCTGTGTTTTTTCTTCTCTCTCTACTGTCTCCTCGTTTCCTTTGACTGTAATTTGCTAGATATGGTTCGTGATTTGGCAGACAGGGGTAGCACGCAATTTATCACGACGACATTTCGCCCGGAGCTCGTGAAGGTGGCTGATAAGATATATAGTGTGAGCCACAAAAATAGAGTTAGCAAGGTCACTGT</genome_strand>
        <mrna_strand>CTCCAAAGAAGGCAAGCTGAACTGGATGCTGGGGATGAG.....................................................................................................AAAATCAAGGAACTTATATCTGTTTTGGATATGAGGAAGGATGAATCAATTGAGCGCACGTTCAAGGGTGTGGCTAAACATTTCCGTGAAGTATTCTCTCAGCTTGTACAAGGAGGTCACGGGTTCTTAGTTATGATGAAGAAAAAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGGTGAGGAAGATGACAATGATCCTGATGATGATGAGCCGCGTGCTGATGCAGAGGGAAGAGTTGAGAAATATATTGGTGTGAAAGTGAAG....................................................................................................................................................................................................................GTGTCGTTCACTGGACAAGGAGAAACACAGTCAATGAAACAGTTATCAGGGGGCCAGAAAACTGTGGTAGCACTGGCACTTATATTTGCCATACAAAGATGTGATCCTGCCCCATTTTATCTTTTTGATGAGATAGATGCAGCACTAGATCCTCAGTACAGAACAGCCGTGGGGA..................................................................................ATATGGTTCGTGATTTGGCAGACAGGGGTAGCACGCAATTTATCACGACGACATTTCGCCCGGAGCTCGTGAAGGTGGCTGATAAGATATATAGTGTGAGCCACAAAAATATAGTTAGCAAGGTCACTGT</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-C06HBa0055E14-RbHud/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M1425" ref_strand="+" ref_description="SGN-M1425 T0405 [cos_markers]">
      <seq>gatggtgaggaagatgacaatgatcctgatgatgatgagccgcgcgctgatgcagagggaagagttgagaaatatattggtgtgaaagtgaaggtgtcgttcactggacaaggagaaacacagccaatgaaacagttatcagggggccagaaaactgtggtagcactggcacttatatttgccatacaaagatgtgatcctgccccattttatctttttgatgagatagatgcagcactagatcctcagtacagaacagccgtggggaatatggttcgtgatttggcagacaggggtagcacgcaatttatcacgacgacatttcgcccggagctcgtgaaggtggctgataagatatatagtgtgagccacaaaaatatagttagcaaggtcactgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C06HBa0055E14-RbHud/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C06HBa0055E14.1" temp_strand="-" temp_description="C06HBa0055E14.1  AC232857.1 htgs_phase:3 submitted_to_sgn_as:C06HBa0055E14 sequenced_by:cbsg upload_account_name:netherlands [organism=Solanum lycopersicum]">
        <position start="2155" stop="864"/>
      </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="1855" g_stop="1763" g_length="93"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="93" r_length="93" r_score="0.989"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="1762" i_stop="1551" i_length="212">
            <donor d_prob="0.996" d_score="0.98"/>
            <acceptor a_prob="0.997" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="1550" g_stop="1376" g_length="175"/>
          <reference_exon_boundary r_type="cDNA" r_start="94" r_stop="268" r_length="175" r_score="0.994"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="1375" i_stop="1294" i_length="82">
            <donor d_prob="0.900" d_score="1.00"/>
            <acceptor a_prob="0.987" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="1293" g_stop="1164" g_length="130"/>
          <reference_exon_boundary r_type="cDNA" r_start="269" r_stop="398" r_length="130" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C06HBa0055E14.1" gen_strand="-" ref_id="SGN-M1425" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>398</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C06HBa0055E14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M1425" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="1855" e_stop="1763"/>
          <exon e_start="1550" e_stop="1376"/>
          <exon e_start="1293" e_stop="1164"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATGGTGAGGAAGATGACAATGATCCTGATGATGATGAGCCGCGTGCTGATGCAGAGGGAAGAGTTGAGAAATATATTGGTGTGAAAGTGAAGGCATGTATTTCTTACCATTTTATCTTCTGCTGTTTGTGATCATCTCATCAAGTCATCATTATTGAATTCTATTTTGGAGCAGTAGTTCCGATAATCATACAAAAAAAACTAGTCATCGTATTCTTGTGCTGTTTACACAATTATTTTGAAATCTGTATCTTTGAGCTAATTTTCAATTGGTACTTCAATTGAATTTAATGTTCTTATGATAGGTGTCGTTCACTGGACAAGGAGAAACACAGTCAATGAAACAGTTATCAGGGGGCCAGAAAACTGTGGTAGCACTGGCACTTATATTTGCCATACAAAGATGTGATCCTGCCCCATTTTATCTTTTTGATGAGATAGATGCAGCACTAGATCCTCAGTACAGAACAGCCGTGGGGAGTATCCTAGAGTTGAAATGATTTTCTGTGTTTTTTCTTCTCTCTCTACTGTCTCCTCGTTTCCTTTGACTGTAATTTGCTAGATATGGTTCGTGATTTGGCAGACAGGGGTAGCACGCAATTTATCACGACGACATTTCGCCCGGAGCTCGTGAAGGTGGCTGATAAGATATATAGTGTGAGCCACAAAAATAGAGTTAGCAAGGTCACTGT</genome_strand>
        <mrna_strand>GATGGTGAGGAAGATGACAATGATCCTGATGATGATGAGCCGCGCGCTGATGCAGAGGGAAGAGTTGAGAAATATATTGGTGTGAAAGTGAAG....................................................................................................................................................................................................................GTGTCGTTCACTGGACAAGGAGAAACACAGCCAATGAAACAGTTATCAGGGGGCCAGAAAACTGTGGTAGCACTGGCACTTATATTTGCCATACAAAGATGTGATCCTGCCCCATTTTATCTTTTTGATGAGATAGATGCAGCACTAGATCCTCAGTACAGAACAGCCGTGGGGA..................................................................................ATATGGTTCGTGATTTGGCAGACAGGGGTAGCACGCAATTTATCACGACGACATTTCGCCCGGAGCTCGTGAAGGTGGCTGATAAGATATATAGTGTGAGCCACAAAAATATAGTTAGCAAGGTCACTGT</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-C06HBa0055E14-RbHud/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M419-R" ref_strand="+" ref_description="SGN-M419-R TG579-R [rflp_markers_reverse]">
      <seq>agatactcttgccagcatcgatgatatatggtgcgcatcttactgggtgtggtgaaacattaatcctttgaagtgcaacactgaatgttaagatatagagggatggatgtcgtcattttgtccaaaccatgtatatgtatgattatatagatgtaaattgacccattctgggtagtagtactgatgacttcaactgttctctttaatcttacatgaaaccccccttcataatcttcatagacattgctggacagttaattgaccaaggttttcttgggattcactagcaccacatgttcatctttaacatacatcaattttgagttaacgttgaatttatatattgattagtcgttttcctggtgccttctatattgtttagttgtatgatttgtgatcgtataggtagtctttaccttatcaatgcttaaaaatgaattcattctctcttgctatgtttttattcggagttgtgtattggcctgcaagtgaccacacacacaccccaaaaaaaaagatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C06HBa0055E14-RbHud/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C06HBa0055E14.1" temp_strand="+" temp_description="C06HBa0055E14.1  AC232857.1 htgs_phase:3 submitted_to_sgn_as:C06HBa0055E14 sequenced_by:cbsg upload_account_name:netherlands [organism=Solanum lycopersicum]">
        <position start="86226" stop="87345"/>
      </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="86526" g_stop="87045" g_length="520"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="520" r_length="520" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C06HBa0055E14.1" gen_strand="+" ref_id="SGN-M419-R" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>520</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C06HBa0055E14.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-M419-R" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="86526" e_stop="87045"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGATACTCTTGCCAGCATCGATGATATATGGTGCGCATCTTACTGGGTGTGGTGAAACATTAATCCTTTGAAGTGCAACACTGAATGTTAAGATATAGAGGGATGGATGTCGTCATTTTGTCCAAACCATGTATATGTATGATTATATAGATGTAAATTGACCCATTCTGGGTAGTAGTACTGATGACTTCAACTGTTCTCTTTAATCTTACATGAAACCCCCCTTCATAATCTTCATAGACATTGCTGGACAGTTAATTGACCAAGGTTTTCTTGGGATTCACTAGCACCACATGTTCATCTTTAACATACATCAATTTTGAGTTAACGTTGAATTTATATATTGATTAGTCGTTTTCCTGGTGCCTTCTATATTGTTTAGTTGTATGATTTGTGATCGTATAGGTAGTCTTTACCTTATCAATGCTTAAAAATGAATTCATTCTCTCTTGCTATGTTTTTATTCGGAGTTGTGTATTGGCCTGCAAGTGACCACACACACACCCCAAAAAAAAAGATG</genome_strand>
        <mrna_strand>AGATACTCTTGCCAGCATCGATGATATATGGTGCGCATCTTACTGGGTGTGGTGAAACATTAATCCTTTGAAGTGCAACACTGAATGTTAAGATATAGAGGGATGGATGTCGTCATTTTGTCCAAACCATGTATATGTATGATTATATAGATGTAAATTGACCCATTCTGGGTAGTAGTACTGATGACTTCAACTGTTCTCTTTAATCTTACATGAAACCCCCCTTCATAATCTTCATAGACATTGCTGGACAGTTAATTGACCAAGGTTTTCTTGGGATTCACTAGCACCACATGTTCATCTTTAACATACATCAATTTTGAGTTAACGTTGAATTTATATATTGATTAGTCGTTTTCCTGGTGCCTTCTATATTGTTTAGTTGTATGATTTGTGATCGTATAGGTAGTCTTTACCTTATCAATGCTTAAAAATGAATTCATTCTCTCTTGCTATGTTTTTATTCGGAGTTGTGTATTGGCCTGCAAGTGACCACACACACACCCCAAAAAAAAAGATG</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-C06HBa0055E14-RbHud/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M419-F" ref_strand="+" ref_description="SGN-M419-F TG579-F [rflp_markers_forward]">
      <seq>cagtctctgcttccgaacctgtacctccatatgtttattagtagcagctctgtaatgctaattgggctctggcattatgttgaaaactttatctgttgattgaagaagaaaactctctctggacccttttttttctttttggtagctggttgtaaccacaatcctttggtgcacgggctaaatcattgtaatgacatacatggtttgtcgtttcgcttttgtgaaagacaaataagagcataccttgatcggaatattagctatgggtcctgagggtcttttttctctgtcaagaggtgacctcgagaatcaatctatggaaaatttgtagtactggtgactaataagcttcctctttgcccaaataaatgcgatgggatcactcaataagtgaaccttttgagtgattcataacacaacacaaccacattcaatcactactcgacgtactataatagctgccttggttggaacattcagtgtcctaatgta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C06HBa0055E14-RbHud/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C06HBa0055E14.1" temp_strand="-" temp_description="C06HBa0055E14.1  AC232857.1 htgs_phase:3 submitted_to_sgn_as:C06HBa0055E14 sequenced_by:cbsg upload_account_name:netherlands [organism=Solanum lycopersicum]">
        <position start="87981" stop="86890"/>
      </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="87681" g_stop="87190" g_length="492"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="492" r_length="492" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C06HBa0055E14.1" gen_strand="-" ref_id="SGN-M419-F" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>492</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C06HBa0055E14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M419-F" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="87681" e_stop="87190"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGTCTCTGCTTCCGAACCTGTACCTCCATATGTTTATTAGTAGCAGCTCTGTAATGCTAATTGGGCTCTGGCATTATGTTGAAAACTTTATCTGTTGATTGAAGAAGAAAACTCTCTCTGGACCCTTTTTTTTCTTTTTGGTAGCTGGTTGTAACCACAATCCTTTGGTGCACGGGCTAAATCATTGTAATGACATACCTGGTTTGTCGTTTCGCTTTTGTGAAAGACAAATAAGAGCATACCTTGATCGGAATATTAGCTATGGGTCCTGAGGGTCTTTTTTCTCTGTCAAGAGGTGACCTCGAGAATCAATCTATGGAAAATTTGTAGTACTGGTGACTAATAAGCTTCCTCTTTGCCCAAATAAATGCGATGGGATCACTCAATAAGTGAACCTTTTGAGTGATTCATAACACAACACAACCACATTCAATCACTACTCGACGTACTATAATAGCTGCCTTGGTTGGAACATTCAGTGTCCTAATGTA</genome_strand>
        <mrna_strand>CAGTCTCTGCTTCCGAACCTGTACCTCCATATGTTTATTAGTAGCAGCTCTGTAATGCTAATTGGGCTCTGGCATTATGTTGAAAACTTTATCTGTTGATTGAAGAAGAAAACTCTCTCTGGACCCTTTTTTTTCTTTTTGGTAGCTGGTTGTAACCACAATCCTTTGGTGCACGGGCTAAATCATTGTAATGACATACATGGTTTGTCGTTTCGCTTTTGTGAAAGACAAATAAGAGCATACCTTGATCGGAATATTAGCTATGGGTCCTGAGGGTCTTTTTTCTCTGTCAAGAGGTGACCTCGAGAATCAATCTATGGAAAATTTGTAGTACTGGTGACTAATAAGCTTCCTCTTTGCCCAAATAAATGCGATGGGATCACTCAATAAGTGAACCTTTTGAGTGATTCATAACACAACACAACCACATTCAATCACTACTCGACGTACTATAATAGCTGCCTTGGTTGGAACATTCAGTGTCCTAATGTA</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-C06HBa0055E14-RbHud/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M8633-2" ref_strand="+" ref_description="SGN-M8633-2 C2_At5g09920-2 [cosii_markers]">
      <seq>gaagaagaagaaaacgccgctgagctcaaaattggcgatgagtttttgaaggccaaatgtctaatgaactgtgaagtcgcattgattcttgaacacaagtatgagcagatccagcagatgtctgatgatccaacaaatcagatttcgcaggtatttgaaaagtcgctgcaatatgtgaagcgtttcagtcggtacaagaaccctgatgctgttagacaagctcgagaaattcttagtaggtatccacttgctgaattcgagctctgtgttcttgggaatctttgccccgaaactgttgaggaaggtattgccatggtcccatccatcaagaatagaggacgtgcacttgacgaggaagcaattgagaaaatgctaactgacctttccctaataaagaaattcgagtagtcctattatagtgcttgtcttgctatgctgcagcagtctctgcttccgaacctgtacctccatatgtttattagtagcagctctgtaatgctaattgggctctggcattatgttgaaaactttatctgttgattgaagaagaaaactctctctggacccttttttttctttttggtagctggttgtaaccacaatcctttggtgcacgggctaaatcattgtaatgacatacctggtttgtcgtttcgcttttgtgaaagacaaataagagcataccttgatcggaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C06HBa0055E14-RbHud/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C06HBa0055E14.1" temp_strand="-" temp_description="C06HBa0055E14.1  AC232857.1 htgs_phase:3 submitted_to_sgn_as:C06HBa0055E14 sequenced_by:cbsg upload_account_name:netherlands [organism=Solanum lycopersicum]">
        <position start="90380" stop="87126"/>
      </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="90080" g_stop="90041" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="40" r_length="40" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="90040" i_stop="89105" i_length="936">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.976" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="89104" g_stop="88996" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="41" r_stop="149" r_length="109" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="88995" i_stop="88692" i_length="304">
            <donor d_prob="0.987" d_score="1.00"/>
            <acceptor a_prob="0.890" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="88691" g_stop="88614" g_length="78"/>
          <reference_exon_boundary r_type="cDNA" r_start="150" r_stop="227" r_length="78" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="88613" i_stop="88503" i_length="111">
            <donor d_prob="0.900" d_score="1.00"/>
            <acceptor a_prob="0.623" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="88502" g_stop="88469" g_length="34"/>
          <reference_exon_boundary r_type="cDNA" r_start="228" r_stop="261" r_length="34" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="88468" i_stop="88369" i_length="100">
            <donor d_prob="0.980" d_score="0.00"/>
            <acceptor a_prob="0.969" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="88368" g_stop="88300" g_length="69"/>
          <reference_exon_boundary r_type="cDNA" r_start="262" r_stop="330" r_length="69" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="88299" i_stop="87793" i_length="507">
            <donor d_prob="0.968" d_score="1.00"/>
            <acceptor a_prob="0.984" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="87792" g_stop="87429" g_length="364"/>
          <reference_exon_boundary r_type="cDNA" r_start="331" r_stop="694" r_length="364" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="695" polyA_stop="715"/>
      <MATCH_line gen_id="C06HBa0055E14.1" gen_strand="-" ref_id="SGN-M8633-2" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>694</cumulative_length_of_scored_exons>
        <coverage percentage="0.971" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C06HBa0055E14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M8633-2" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="90080" e_stop="90041"/>
          <exon e_start="89104" e_stop="88996"/>
          <exon e_start="88691" e_stop="88614"/>
          <exon e_start="88502" e_stop="88469"/>
          <exon e_start="88368" e_stop="88300"/>
          <exon e_start="87792" e_stop="87429"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAGAAGAAGAAAACGCCGCTGAGCTCAAAATTGGCGATGGTAAATAAGTTTACTCTCTAATACACTTGATGAATCGGTTTCTTTGTTATATGAATTGCTTAACGTTCTGGAAATTGAGTTTTATACTTAAAAAAATCTTTTTTTTTCTTTAATGTACTCATAAAAATAGGTTTTTTCTTTCTTTTTTTAACCATGAAGGCAAGGGGGAGTCAAGTTTTTTCATCAAGATTTTGTTTTTTCCTATAATGGGTTGTGTAGTATTGGGTTTTTTTTTTTCTCAATTTGTTGGGATTGGTTCTAGGGTCTCTTTTTTAATAATGTAATGCAGGATAAGATAGTTAACTGGCTGATGCTACTATATGGTGCATATGGTTCTTCTTATTGATTTAATGTCTATGAGAATAGACTTGATATTACATTTTGATTTTTTCTGGATCAAGAAAAAGACTGTTTTTTGTTCATATGTAGTGATCATTAATAGACTTTAGTCACTTCAAACTGCCTAGCTTCACTGTATGGCTAACTTAACTATTTAGCATATGTATCGCGATGAGCATCTTTTTTTTTTTTTTTATCTTTGGTTAGTTACTTCAGAATTGTTTTCAGCTGTCCATATAAGTTTCTCGATGGATTGTTGAGGGCTTCGGGCAATAGAGGTTATTGCTGAGGCATGAAGTGGAGGGAGATTGGATTAGTGGTGTTGCATTCATCGTTCTCCTTGAGATATGAAATTTAGGAAGAATTTACAGATTGGTGTTCTATAGGTAGTCTGTCTATAATAAAACTCCCTATTTGAGAACATACAATTTCCTACCCAGACAATATTGGGTCTCCCTCCCTTGTCATCCCTCCAGCTTATCTCTATTACTCATGGTGAAAGCTTGTGCAAAGTCTCTAGTCTTTTAACTGTTTGTATGCATACAAACATCTTCTCTTGATGAAGTTCATTAACATCTTTTGGTACTTTGGTTTCAGAGTTTTTGAAGGCCAAATGTCTAATGAACTGTGAAGTCGCATTGATTCTTGAACACAAGTATGAGCAGATCCAGCAGATGTCTGATGATCCAACAAATCAGATTTCGCAGTATGTATATAAATCTAGATGCTCCTTTTATGTCATTAAATGCTCAGATATTAAGTACAAGCTGGATTACCTGTACAAAATAAGTTGTCTTCCTCCATATCAACTTTTCAATTCATGCCAACCACTTTGTGAAATTTCCATGTTCATATATAGGCAAAATGCTAAGAAATATTCTTAAGGAAAATTATGCCAAACTGATATGGTTCTACTCTTTCAACATCTAAATATGTTATTTTGAAGAGATAACCTGTGCATAGGCGTCACGTTCTCAAGTTTGGTTAATTTGGTTACCTTTGACTTCCAGGGTATTTGAAAAGTCGCTGCAATATGTGAAGCGTTTCAGTCGGTACAAGAACCCTGATGCTGTTAGACAAGCTCGAGAGTATCCTCCTGCCTGTGGCTTAGATTGAAAAACTTCTGTATTTCTTTTTGATATTTATGAATTTACAATGAATAGTCCTTTTATAGAATGTAAACCTTAACTTTGATTCAGAATTCTTAGTAGGTATCCACTTGCTGAATTCGAGGTAGGAATCTGTTCTTTGAATTTCCTAATTTGTTTCATACTTGTAACCACCATCAATATCTTCGTGGAAACTGCAGTTTATAAGTTTGAATATTTTGCAGCTCTGTGTTCTTGGGAATCTTTGCCCCGAAACTGTTGAGGAAGGTATTGCCATGGTCCCATCCATCAAGGTACTCATGCATGCTATTCAACCCTACATAAGAACGGATTGTATGCAGATATCTAGAGTTGTAGTTTTCTGGACTTCATAATTTCAAACAACACACCCAAAATGCTTCAAATAGGCATCCTAAACAATTTCTTTACTTGTTAGGGAGCTTTTCTTTGTCTTACTTGGTCCTTCTAGGGATTTGACATCCAGAGGTGGCTGGTTTGGAAAGTCTAATATTTTGCCAAAAAAGTCTTGGTACTTTGGAGGTGTATGAAATTGACCCTCATCTTTTCACCATGTTGTCTCATTTGTTTAAGGCATAACACCAATCTAATCAGAGTTGCTTGTACATCAGTGTGTGATTGTAATATCTCACCATAAGGCTAAAGGAAGTCTATAGAAAATGCACCGACAGTTTGAATCTTCAAAGTTTCCCTAAATGTACAGTCTAATCATCCAGCTATATATATTCCTGTTACTCTTTTTCATAAACTCCGGCTAACTGACACCCCTTCCATGCTTGCAGAATAGAGGACGTGCACTTGACGAGGAAGCAATTGAGAAAATGCTAACTGACCTTTCCCTAATAAAGAAATTCGAGTAGTCCTATTATAGTGCTTGTCTTGCTATGCTGCAGCAGTCTCTGCTTCCGAACCTGTACCTCCATATGTTTATTAGTAGCAGCTCTGTAATGCTAATTGGGCTCTGGCATTATGTTGAAAACTTTATCTGTTGATTGAAGAAGAAAACTCTCTCTGGACCCTTTTTTTTCTTTTTGGTAGCTGGTTGTAACCACAATCCTTTGGTGCACGGGCTAAATCATTGTAATGACATACCTGGTTTGTCGTTTCGCTTTTGTGAAAGACAAATAAGAGCATACCTTGATCGGA</genome_strand>
        <mrna_strand>GAAGAAGAAGAAAACGCCGCTGAGCTCAAAATTGGCGATG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGTTTTTGAAGGCCAAATGTCTAATGAACTGTGAAGTCGCATTGATTCTTGAACACAAGTATGAGCAGATCCAGCAGATGTCTGATGATCCAACAAATCAGATTTCGCA................................................................................................................................................................................................................................................................................................................GGTATTTGAAAAGTCGCTGCAATATGTGAAGCGTTTCAGTCGGTACAAGAACCCTGATGCTGTTAGACAAGCTCGAGA...............................................................................................................AATTCTTAGTAGGTATCCACTTGCTGAATTCGAG....................................................................................................CTCTGTGTTCTTGGGAATCTTTGCCCCGAAACTGTTGAGGAAGGTATTGCCATGGTCCCATCCATCAAG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATAGAGGACGTGCACTTGACGAGGAAGCAATTGAGAAAATGCTAACTGACCTTTCCCTAATAAAGAAATTCGAGTAGTCCTATTATAGTGCTTGTCTTGCTATGCTGCAGCAGTCTCTGCTTCCGAACCTGTACCTCCATATGTTTATTAGTAGCAGCTCTGTAATGCTAATTGGGCTCTGGCATTATGTTGAAAACTTTATCTGTTGATTGAAGAAGAAAACTCTCTCTGGACCCTTTTTTTTCTTTTTGGTAGCTGGTTGTAACCACAATCCTTTGGTGCACGGGCTAAATCATTGTAATGACATACCTGGTTTGTCGTTTCGCTTTTGTGAAAGACAAATAAGAGCATACCTTGATCGGA</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-C06HBa0055E14-RbHud/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_markers" ref_id="SGN-M8633" ref_strand="+" ref_description="SGN-M8633 C2_At5g09920 [cosii_markers]">
      <seq>aaaggatgtcgggggaagaagaagaaaacgccgctgaactcaaaattggtgatgagtttttgaaggccaaatgtctaatgaattgtgaagtcgctttgattcttgagcacaagtatgagcagctccagcagatgtctgatgatccaactactcagatttcgcaggtatttgaaaagtcactgcaatatgtgaagcgtttcagccggtacaagaaccctgatgctgttagacaagctcgagagatccttagtaggtatccacttgctgaattcgagctctgtgttcttgggaatctttgccccgaaaccgttgaagaagctattgccatggtcccatccatcaagaatagagtacgtgcacttgacgaggaagcaattgagaaaatgctaaacgacctttctctgataaagaagttcgagtagtgtcatcattgtgctcgtcttgctatgctgcagccgtctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C06HBa0055E14-RbHud/GenomeThreader_SGN_markers/un_xed_seqs" temp_id="C06HBa0055E14.1" temp_strand="-" temp_description="C06HBa0055E14.1  AC232857.1 htgs_phase:3 submitted_to_sgn_as:C06HBa0055E14 sequenced_by:cbsg upload_account_name:netherlands [organism=Solanum lycopersicum]">
        <position start="90393" stop="87376"/>
      </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="90094" g_stop="90041" g_length="54"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="54" r_length="54" r_score="0.907"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="90040" i_stop="89105" i_length="936">
            <donor d_prob="1.000" d_score="0.94"/>
            <acceptor a_prob="0.976" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="89104" g_stop="88996" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="55" r_stop="163" r_length="109" r_score="0.945"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="88995" i_stop="88692" i_length="304">
            <donor d_prob="0.987" d_score="0.94"/>
            <acceptor a_prob="0.890" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="88691" g_stop="88614" g_length="78"/>
          <reference_exon_boundary r_type="cDNA" r_start="164" r_stop="241" r_length="78" r_score="0.974"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="88613" i_stop="88503" i_length="111">
            <donor d_prob="0.900" d_score="0.98"/>
            <acceptor a_prob="0.623" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="88502" g_stop="88469" g_length="34"/>
          <reference_exon_boundary r_type="cDNA" r_start="242" r_stop="275" r_length="34" r_score="0.941"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="88468" i_stop="88369" i_length="100">
            <donor d_prob="0.980" d_score="0.00"/>
            <acceptor a_prob="0.969" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="88368" g_stop="88300" g_length="69"/>
          <reference_exon_boundary r_type="cDNA" r_start="276" r_stop="344" r_length="69" r_score="0.957"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="88299" i_stop="87793" i_length="507">
            <donor d_prob="0.968" d_score="0.94"/>
            <acceptor a_prob="0.984" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="87792" g_stop="87675" g_length="118"/>
          <reference_exon_boundary r_type="cDNA" r_start="345" r_stop="462" r_length="118" r_score="0.881"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C06HBa0055E14.1" gen_strand="-" ref_id="SGN-M8633" ref_strand="+">
        <total_alignment_score>0.930</total_alignment_score>
        <cumulative_length_of_scored_exons>462</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C06HBa0055E14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-M8633" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="90094" e_stop="90041"/>
          <exon e_start="89104" e_stop="88996"/>
          <exon e_start="88691" e_stop="88614"/>
          <exon e_start="88502" e_stop="88469"/>
          <exon e_start="88368" e_stop="88300"/>
          <exon e_start="87792" e_stop="87675"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAGATGTCTGGGGAAGAAGAAGAAAACGCCGCTGAGCTCAAAATTGGCGATGGTAAATAAGTTTACTCTCTAATACACTTGATGAATCGGTTTCTTTGTTATATGAATTGCTTAACGTTCTGGAAATTGAGTTTTATACTTAAAAAAATCTTTTTTTTTCTTTAATGTACTCATAAAAATAGGTTTTTTCTTTCTTTTTTTAACCATGAAGGCAAGGGGGAGTCAAGTTTTTTCATCAAGATTTTGTTTTTTCCTATAATGGGTTGTGTAGTATTGGGTTTTTTTTTTTCTCAATTTGTTGGGATTGGTTCTAGGGTCTCTTTTTTAATAATGTAATGCAGGATAAGATAGTTAACTGGCTGATGCTACTATATGGTGCATATGGTTCTTCTTATTGATTTAATGTCTATGAGAATAGACTTGATATTACATTTTGATTTTTTCTGGATCAAGAAAAAGACTGTTTTTTGTTCATATGTAGTGATCATTAATAGACTTTAGTCACTTCAAACTGCCTAGCTTCACTGTATGGCTAACTTAACTATTTAGCATATGTATCGCGATGAGCATCTTTTTTTTTTTTTTTATCTTTGGTTAGTTACTTCAGAATTGTTTTCAGCTGTCCATATAAGTTTCTCGATGGATTGTTGAGGGCTTCGGGCAATAGAGGTTATTGCTGAGGCATGAAGTGGAGGGAGATTGGATTAGTGGTGTTGCATTCATCGTTCTCCTTGAGATATGAAATTTAGGAAGAATTTACAGATTGGTGTTCTATAGGTAGTCTGTCTATAATAAAACTCCCTATTTGAGAACATACAATTTCCTACCCAGACAATATTGGGTCTCCCTCCCTTGTCATCCCTCCAGCTTATCTCTATTACTCATGGTGAAAGCTTGTGCAAAGTCTCTAGTCTTTTAACTGTTTGTATGCATACAAACATCTTCTCTTGATGAAGTTCATTAACATCTTTTGGTACTTTGGTTTCAGAGTTTTTGAAGGCCAAATGTCTAATGAACTGTGAAGTCGCATTGATTCTTGAACACAAGTATGAGCAGATCCAGCAGATGTCTGATGATCCAACAAATCAGATTTCGCAGTATGTATATAAATCTAGATGCTCCTTTTATGTCATTAAATGCTCAGATATTAAGTACAAGCTGGATTACCTGTACAAAATAAGTTGTCTTCCTCCATATCAACTTTTCAATTCATGCCAACCACTTTGTGAAATTTCCATGTTCATATATAGGCAAAATGCTAAGAAATATTCTTAAGGAAAATTATGCCAAACTGATATGGTTCTACTCTTTCAACATCTAAATATGTTATTTTGAAGAGATAACCTGTGCATAGGCGTCACGTTCTCAAGTTTGGTTAATTTGGTTACCTTTGACTTCCAGGGTATTTGAAAAGTCGCTGCAATATGTGAAGCGTTTCAGTCGGTACAAGAACCCTGATGCTGTTAGACAAGCTCGAGAGTATCCTCCTGCCTGTGGCTTAGATTGAAAAACTTCTGTATTTCTTTTTGATATTTATGAATTTACAATGAATAGTCCTTTTATAGAATGTAAACCTTAACTTTGATTCAGAATTCTTAGTAGGTATCCACTTGCTGAATTCGAGGTAGGAATCTGTTCTTTGAATTTCCTAATTTGTTTCATACTTGTAACCACCATCAATATCTTCGTGGAAACTGCAGTTTATAAGTTTGAATATTTTGCAGCTCTGTGTTCTTGGGAATCTTTGCCCCGAAACTGTTGAGGAAGGTATTGCCATGGTCCCATCCATCAAGGTACTCATGCATGCTATTCAACCCTACATAAGAACGGATTGTATGCAGATATCTAGAGTTGTAGTTTTCTGGACTTCATAATTTCAAACAACACACCCAAAATGCTTCAAATAGGCATCCTAAACAATTTCTTTACTTGTTAGGGAGCTTTTCTTTGTCTTACTTGGTCCTTCTAGGGATTTGACATCCAGAGGTGGCTGGTTTGGAAAGTCTAATATTTTGCCAAAAAAGTCTTGGTACTTTGGAGGTGTATGAAATTGACCCTCATCTTTTCACCATGTTGTCTCATTTGTTTAAGGCATAACACCAATCTAATCAGAGTTGCTTGTACATCAGTGTGTGATTGTAATATCTCACCATAAGGCTAAAGGAAGTCTATAGAAAATGCACCGACAGTTTGAATCTTCAAAGTTTCCCTAAATGTACAGTCTAATCATCCAGCTATATATATTCCTGTTACTCTTTTTCATAAACTCCGGCTAACTGACACCCCTTCCATGCTTGCAGAATAGAGGACGTGCACTTGACGAGGAAGCAATTGAGAAAATGCTAACTGACCTTTCCCTAATAAAGAAATTCGAGTAGTCCTATTATAGTGCTTGTCTTGCTATGCTGCAGCAGTCTC</genome_strand>
        <mrna_strand>AAAGGATGTCGGGGGAAGAAGAAGAAAACGCCGCTGAACTCAAAATTGGTGATG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGTTTTTGAAGGCCAAATGTCTAATGAATTGTGAAGTCGCTTTGATTCTTGAGCACAAGTATGAGCAGCTCCAGCAGATGTCTGATGATCCAACTACTCAGATTTCGCA................................................................................................................................................................................................................................................................................................................GGTATTTGAAAAGTCACTGCAATATGTGAAGCGTTTCAGCCGGTACAAGAACCCTGATGCTGTTAGACAAGCTCGAGA...............................................................................................................GATCCTTAGTAGGTATCCACTTGCTGAATTCGAG....................................................................................................CTCTGTGTTCTTGGGAATCTTTGCCCCGAAACCGTTGAAGAAGCTATTGCCATGGTCCCATCCATCAAG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATAGAGTACGTGCACTTGACGAGGAAGCAATTGAGAAAATGCTAAACGACCTTTCTCTGATAAAGAAGTTCGAGTAGTGTCATCATTGTGCTCGTCTTGCTATGCTGCAGCCGTCTG</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="4161" PGL_stop="1164"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="4161" e_stop="4123"/>
            <exon e_start="4021" e_stop="3875"/>
            <exon e_start="1855" e_stop="1763"/>
            <exon e_start="1550" e_stop="1376"/>
            <exon e_start="1293" e_stop="1164"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.997" acc_prob="0.782" e_score="1.000"/>
          <exon-intron don_prob="0.946" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.996" acc_prob="0.997" e_score="1.000"/>
          <exon-intron don_prob="0.900" acc_prob="0.987" e_score="1.000"/>
          <exon-only e_score="0.992"/>
        </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="4161" e_stop="4123" e_length="39"/>
          </exon>
          <intron i_serial="1" don_prob="0.997" acc_prob="0.782">
            <gDNA_intron_boundary i_start="4122" i_stop="4022" i_length="101"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="4021" e_stop="3875" e_length="147"/>
          </exon>
          <intron i_serial="2" don_prob="0.946" acc_prob="1.000">
            <gDNA_intron_boundary i_start="3874" i_stop="1856" i_length="2019"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="1855" e_stop="1763" e_length="93"/>
          </exon>
          <intron i_serial="3" don_prob="0.996" acc_prob="0.997">
            <gDNA_intron_boundary i_start="1762" i_stop="1551" i_length="212"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="1550" e_stop="1376" e_length="175"/>
          </exon>
          <intron i_serial="4" don_prob="0.900" acc_prob="0.987">
            <gDNA_intron_boundary i_start="1375" i_stop="1294" i_length="82"/>
          </intron>
          <exon e_serial="5" e_score="0.992">
            <gDNA_exon_boundary e_start="1293" e_stop="1164" e_length="130"/>
          </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="4161" stop="4123"/>
              <exon start="4021" stop="3875"/>
              <exon start="1855" stop="1763"/>
              <exon start="1550" stop="1376"/>
              <exon start="1293" stop="1164"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M7320" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="1855" stop="1763"/>
              <exon start="1550" stop="1376"/>
              <exon start="1293" stop="1164"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M1425" 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>CTCCAAAGAAGGCAAGCTGAACTGGATGCTGGGGATGAG : AAAATCAAGGAACTTATATCTGTTTTGGATATGAGGAAGGATGAATCAATTGAGCGCACGTTCAAGGGTGTGGCTAAACATTTCCGTGAAGTATTCTCTCAGCTTGTACAAGGAGGTCACGGGTTCTTAGTTATGATGAAGAAAAAG : GATGGTGAGGAAGATGACAATGATCCTGATGATGATGAGCCGCGTGCTGATGCAGAGGGAAGAGTTGAGAAATATATTGGTGTGAAAGTGAAG : GTGTCGTTCACTGGACAAGGAGAAACACAGTCAATGAAACAGTTATCAGGGGGCCAGAAAACTGTGGTAGCACTGGCACTTATATTTGCCATACAAAGATGTGATCCTGCCCCATTTTATCTTTTTGATGAGATAGATGCAGCACTAGATCCTCAGTACAGAACAGCCGTGGGGA : ATATGGTTCGTGATTTGGCAGACAGGGGTAGCACGCAATTTATCACGACGACATTTCGCCCGGAGCTCGTGAAGGTGGCTGATAAGATATATAGTGTGAGCCACAAAAATAGAGTTAGCAAGGTCACTGT</gDNA_template>
            <first_frame> L  Q  R  R  Q  A  E  L  D  A  G  D  E  :  K  I  K  E  L  I  S  V  L  D  M  R  K  D  E  S  I  E  R  T  F  K  G  V  A  K  H  F  R  E  V  F  S  Q  L  V  Q  G  G  H  G  F  L  V  M  M  K  K  K  :  D  G  E  E  D  D  N  D  P  D  D  D  E  P  R  A  D  A  E  G  R  V  E  K  Y  I  G  V  K  V  K  :  V  S  F  T  G  Q  G  E  T  Q  S  M  K  Q  L  S  G  G  Q  K  T  V  V  A  L  A  L  I  F  A  I  Q  R  C  D  P  A  P  F  Y  L  F  D  E  I  D  A  A  L  D  P  Q  Y  R  T  A  V  G   : N  M  V  R  D  L  A  D  R  G  S  T  Q  F  I  T  T  T  F  R  P  E  L  V  K  V  A  D  K  I  Y  S  V  S  H  K  N  R  V  S  K  V  T   </first_frame>
            <second_frame>  S  K  E  G  K  L  N  W  M  L  G  M  R :   K  S  R  N  L  Y  L  F  W  I  *  G  R  M  N  Q  L  S  A  R  S  R  V  W  L  N  I  S  V  K  Y  S  L  S  L  Y  K  E  V  T  G  S  *  L  *  *  R  K  R :   M  V  R  K  M  T  M  I  L  M  M  M  S  R  V  L  M  Q  R  E  E  L  R  N  I  L  V  *  K  *  R :   C  R  S  L  D  K  E  K  H  S  Q  *  N  S  Y  Q  G  A  R  K  L  W  *  H  W  H  L  Y  L  P  Y  K  D  V  I  L  P  H  F  I  F  L  M  R  *  M  Q  H  *  I  L  S  T  E  Q  P  W  G  :  I  W  F  V  I  W  Q  T  G  V  A  R  N  L  S  R  R  H  F  A  R  S  S  *  R  W  L  I  R  Y  I  V  *  A  T  K  I  E  L  A  R  S  L  </second_frame>
            <third_frame>   P  K  K  A  S  *  T  G  C  W  G  *   : E  N  Q  G  T  Y  I  C  F  G  Y  E  E  G  *  I  N  *  A  H  V  Q  G  C  G  *  T  F  P  *  S  I  L  S  A  C  T  R  R  S  R  V  L  S  Y  D  E  E  K   : G  W  *  G  R  *  Q  *  S  *  *  *  *  A  A  C  *  C  R  G  K  S  *  E  I  Y  W  C  E  S  E   : G  V  V  H  W  T  R  R  N  T  V  N  E  T  V  I  R  G  P  E  N  C  G  S  T  G  T  Y  I  C  H  T  K  M  *  S  C  P  I  L  S  F  *  *  D  R  C  S  T  R  S  S  V  Q  N  S  R  G  E :   Y  G  S  *  F  G  R  Q  G  *  H  A  I  Y  H  D  D  I  S  P  G  A  R  E  G  G  *  *  D  I  *  C  E  P  Q  K  *  S  *  Q  G  H  C </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="C06HBa0055E14.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="4161" stop="4123"/>
                    <exon start="4021" stop="3875"/>
                    <exon start="1855" stop="1763"/>
                    <exon start="1550" stop="1376"/>
                    <exon start="1293" stop="1166"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>582</number_coding_nucleotides>
                  <number_encoded_amino_acids>194</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LQRRQAELDAGDEKIKELISVLDMRKDESIERTFKGVAKHFREVFSQLVQGGHGFLVMMKKKDGEEDDNDPDDDEPRADAEGRVEKYIGVKVKVSFTGQGETQSMKQLSGGQKTVVALALIFAIQRCDPAPFYLFDEIDAALDPQYRTAVGNMVRDLADRGSTQFITTTFRPELVKVADKIYSVSHKNRVSKVT</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="2" PGL_strand="+" PGL_start="86526" PGL_stop="87045"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="86526" e_stop="87045"/>
          </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="86526" e_stop="87045" e_length="520"/>
          </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="86526" stop="87045"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M419-R" 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>AGATACTCTTGCCAGCATCGATGATATATGGTGCGCATCTTACTGGGTGTGGTGAAACATTAATCCTTTGAAGTGCAACACTGAATGTTAAGATATAGAGGGATGGATGTCGTCATTTTGTCCAAACCATGTATATGTATGATTATATAGATGTAAATTGACCCATTCTGGGTAGTAGTACTGATGACTTCAACTGTTCTCTTTAATCTTACATGAAACCCCCCTTCATAATCTTCATAGACATTGCTGGACAGTTAATTGACCAAGGTTTTCTTGGGATTCACTAGCACCACATGTTCATCTTTAACATACATCAATTTTGAGTTAACGTTGAATTTATATATTGATTAGTCGTTTTCCTGGTGCCTTCTATATTGTTTAGTTGTATGATTTGTGATCGTATAGGTAGTCTTTACCTTATCAATGCTTAAAAATGAATTCATTCTCTCTTGCTATGTTTTTATTCGGAGTTGTGTATTGGCCTGCAAGTGACCACACACACACCCCAAAAAAAAAGATG</gDNA_template>
            <first_frame> R  Y  S  C  Q  H  R  *  Y  M  V  R  I  L  L  G  V  V  K  H  *  S  F  E  V  Q  H  *  M  L  R  Y  R  G  M  D  V  V  I  L  S  K  P  C  I  C  M  I  I  *  M  *  I  D  P  F  W  V  V  V  L  M  T  S  T  V  L  F  N  L  T  *  N  P  P  S  *  S  S  *  T  L  L  D  S  *  L  T  K  V  F  L  G  F  T  S  T  T  C  S  S  L  T  Y  I  N  F  E  L  T  L  N  L  Y  I  D  *  S  F  S  W  C  L  L  Y  C  L  V  V  *  F  V  I  V  *  V  V  F  T  L  S  M  L  K  N  E  F  I  L  S  C  Y  V  F  I  R  S  C  V  L  A  C  K  *  P  H  T  H  P  K  K  K  D  </first_frame>
            <second_frame>  D  T  L  A  S  I  D  D  I  W  C  A  S  Y  W  V  W  *  N  I  N  P  L  K  C  N  T  E  C  *  D  I  E  G  W  M  S  S  F  C  P  N  H  V  Y  V  *  L  Y  R  C  K  L  T  H  S  G  *  *  Y  *  *  L  Q  L  F  S  L  I  L  H  E  T  P  L  H  N  L  H  R  H  C  W  T  V  N  *  P  R  F  S  W  D  S  L  A  P  H  V  H  L  *  H  T  S  I  L  S  *  R  *  I  Y  I  L  I  S  R  F  P  G  A  F  Y  I  V  *  L  Y  D  L  *  S  Y  R  *  S  L  P  Y  Q  C  L  K  M  N  S  F  S  L  A  M  F  L  F  G  V  V  Y  W  P  A  S  D  H  T  H  T  P  K  K  K  M </second_frame>
            <third_frame>   I  L  L  P  A  S  M  I  Y  G  A  H  L  T  G  C  G  E  T  L  I  L  *  S  A  T  L  N  V  K  I  *  R  D  G  C  R  H  F  V  Q  T  M  Y  M  Y  D  Y  I  D  V  N  *  P  I  L  G  S  S  T  D  D  F  N  C  S  L  *  S  Y  M  K  P  P  F  I  I  F  I  D  I  A  G  Q  L  I  D  Q  G  F  L  G  I  H  *  H  H  M  F  I  F  N  I  H  Q  F  *  V  N  V  E  F  I  Y  *  L  V  V  F  L  V  P  S  I  L  F  S  C  M  I  C  D  R  I  G  S  L  Y  L  I  N  A  *  K  *  I  H  S  L  L  L  C  F  Y  S  E  L  C  I  G  L  Q  V  T  T  H  T  P  Q  K  K  R   </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="C06HBa0055E14.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="3" PGL_strand="-" PGL_start="90094" PGL_stop="87190"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="90094" e_stop="90041"/>
            <exon e_start="89104" e_stop="88996"/>
            <exon e_start="88691" e_stop="88614"/>
            <exon e_start="88502" e_stop="88469"/>
            <exon e_start="88368" e_stop="88300"/>
            <exon e_start="87792" e_stop="87190"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.976" e_score="1.000"/>
          <exon-intron don_prob="0.987" acc_prob="0.890" e_score="1.000"/>
          <exon-intron don_prob="0.900" acc_prob="0.623" e_score="1.000"/>
          <exon-intron don_prob="0.980" acc_prob="0.969" e_score="1.000"/>
          <exon-intron don_prob="0.968" acc_prob="0.984" e_score="1.000"/>
          <exon-only e_score="0.998"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="90094" e_stop="90041" e_length="54"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.976">
            <gDNA_intron_boundary i_start="90040" i_stop="89105" i_length="936"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="89104" e_stop="88996" e_length="109"/>
          </exon>
          <intron i_serial="2" don_prob="0.987" acc_prob="0.890">
            <gDNA_intron_boundary i_start="88995" i_stop="88692" i_length="304"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="88691" e_stop="88614" e_length="78"/>
          </exon>
          <intron i_serial="3" don_prob="0.900" acc_prob="0.623">
            <gDNA_intron_boundary i_start="88613" i_stop="88503" i_length="111"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="88502" e_stop="88469" e_length="34"/>
          </exon>
          <intron i_serial="4" don_prob="0.980" acc_prob="0.969">
            <gDNA_intron_boundary i_start="88468" i_stop="88369" i_length="100"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="88368" e_stop="88300" e_length="69"/>
          </exon>
          <intron i_serial="5" don_prob="0.968" acc_prob="0.984">
            <gDNA_intron_boundary i_start="88299" i_stop="87793" i_length="507"/>
          </intron>
          <exon e_serial="6" e_score="0.998">
            <gDNA_exon_boundary e_start="87792" e_stop="87190" e_length="603"/>
          </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="90094" stop="90041"/>
              <exon start="89104" stop="88996"/>
              <exon start="88691" stop="88614"/>
              <exon start="88502" stop="88469"/>
              <exon start="88368" stop="88300"/>
              <exon start="87792" stop="87675"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M8633" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="90080" stop="90041"/>
              <exon start="89104" stop="88996"/>
              <exon start="88691" stop="88614"/>
              <exon start="88502" stop="88469"/>
              <exon start="88368" stop="88300"/>
              <exon start="87792" stop="87429"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M8633-2" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="87681" stop="87190"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-M419-F" 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>CAAAGATGTCTGGGGAAGAAGAAGAAAACGCCGCTGAGCTCAAAATTGGCGATG : AGTTTTTGAAGGCCAAATGTCTAATGAACTGTGAAGTCGCATTGATTCTTGAACACAAGTATGAGCAGATCCAGCAGATGTCTGATGATCCAACAAATCAGATTTCGCA : GGTATTTGAAAAGTCGCTGCAATATGTGAAGCGTTTCAGTCGGTACAAGAACCCTGATGCTGTTAGACAAGCTCGAGA : AATTCTTAGTAGGTATCCACTTGCTGAATTCGAG : CTCTGTGTTCTTGGGAATCTTTGCCCCGAAACTGTTGAGGAAGGTATTGCCATGGTCCCATCCATCAAG : AATAGAGGACGTGCACTTGACGAGGAAGCAATTGAGAAAATGCTAACTGACCTTTCCCTAATAAAGAAATTCGAGTAGTCCTATTATAGTGCTTGTCTTGCTATGCTGCAGCAGTCTCTGCTTCCGAACCTGTACCTCCATATGTTTATTAGTAGCAGCTCTGTAATGCTAATTGGGCTCTGGCATTATGTTGAAAACTTTATCTGTTGATTGAAGAAGAAAACTCTCTCTGGACCCTTTTTTTTCTTTTTGGTAGCTGGTTGTAACCACAATCCTTTGGTGCACGGGCTAAATCATTGTAATGACATACCTGGTTTGTCGTTTCGCTTTTGTGAAAGACAAATAAGAGCATACCTTGATCGGAATATTAGCTATGGGTCCTGAGGGTCTTTTTTCTCTGTCAAGAGGTGACCTCGAGAATCAATCTATGGAAAATTTGTAGTACTGGTGACTAATAAGCTTCCTCTTTGCCCAAATAAATGCGATGGGATCACTCAATAAGTGAACCTTTTGAGTGATTCATAACACAACACAACCACATTCAATCACTACTCGACGTACTATAATAGCTGCCTTGGTTGGAACATTCAGTGTCCTAATGTA</gDNA_template>
            <first_frame> Q  R  C  L  G  K  K  K  K  T  P  L  S  S  K  L  A  M  :  S  F  *  R  P  N  V  *  *  T  V  K  S  H  *  F  L  N  T  S  M  S  R  S  S  R  C  L  M  I  Q  Q  I  R  F  R   : R  Y  L  K  S  R  C  N  M  *  S  V  S  V  G  T  R  T  L  M  L  L  D  K  L  E   : K  F  L  V  G  I  H  L  L  N  S  S :   S  V  F  L  G  I  F  A  P  K  L  L  R  K  V  L  P  W  S  H  P  S  R :   I  E  D  V  H  L  T  R  K  Q  L  R  K  C  *  L  T  F  P  *  *  R  N  S  S  S  P  I  I  V  L  V  L  L  C  C  S  S  L  C  F  R  T  C  T  S  I  C  L  L  V  A  A  L  *  C  *  L  G  S  G  I  M  L  K  T  L  S  V  D  *  R  R  K  L  S  L  D  P  F  F  S  F  W  *  L  V  V  T  T  I  L  W  C  T  G  *  I  I  V  M  T  Y  L  V  C  R  F  A  F  V  K  D  K  *  E  H  T  L  I  G  I  L  A  M  G  P  E  G  L  F  S  L  S  R  G  D  L  E  N  Q  S  M  E  N  L  *  Y  W  *  L  I  S  F  L  F  A  Q  I  N  A  M  G  S  L  N  K  *  T  F  *  V  I  H  N  T  T  Q  P  H  S  I  T  T  R  R  T  I  I  A  A  L  V  G  T  F  S  V  L  M   </first_frame>
            <second_frame>  K  D  V  W  G  R  R  R  K  R  R  *  A  Q  N  W  R  * :   V  F  E  G  Q  M  S  N  E  L  *  S  R  I  D  S  *  T  Q  V  *  A  D  P  A  D  V  *  *  S  N  K  S  D  F  A  :  G  I  *  K  V  A  A  I  C  E  A  F  Q  S  V  Q  E  P  *  C  C  *  T  S  S  R  :  N  S  *  *  V  S  T  C  *  I  R   : A  L  C  S  W  E  S  L  P  R  N  C  *  G  R  Y  C  H  G  P  I  H  Q   : E  *  R  T  C  T  *  R  G  S  N  *  E  N  A  N  *  P  F  P  N  K  E  I  R  V  V  L  L  *  C  L  S  C  Y  A  A  A  V  S  A  S  E  P  V  P  P  Y  V  Y  *  *  Q  L  C  N  A  N  W  A  L  A  L  C  *  K  L  Y  L  L  I  E  E  E  N  S  L  W  T  L  F  F  L  F  G  S  W  L  *  P  Q  S  F  G  A  R  A  K  S  L  *  *  H  T  W  F  V  V  S  L  L  *  K  T  N  K  S  I  P  *  S  E  Y  *  L  W  V  L  R  V  F  F  L  C  Q  E  V  T  S  R  I  N  L  W  K  I  C  S  T  G  D  *  *  A  S  S  L  P  K  *  M  R  W  D  H  S  I  S  E  P  F  E  *  F  I  T  Q  H  N  H  I  Q  S  L  L  D  V  L  *  *  L  P  W  L  E  H  S  V  S  *  C  </second_frame>
            <third_frame>   K  M  S  G  E  E  E  E  N  A  A  E  L  K  I  G  D   : E  F  L  K  A  K  C  L  M  N  C  E  V  A  L  I  L  E  H  K  Y  E  Q  I  Q  Q  M  S  D  D  P  T  N  Q  I  S  Q :   V  F  E  K  S  L  Q  Y  V  K  R  F  S  R  Y  K  N  P  D  A  V  R  Q  A  R  E :   I  L  S  R  Y  P  L  A  E  F  E  :  L  C  V  L  G  N  L  C  P  E  T  V  E  E  G  I  A  M  V  P  S  I  K  :  N  R  G  R  A  L  D  E  E  A  I  E  K  M  L  T  D  L  S  L  I  K  K  F  E  *  S  Y  Y  S  A  C  L  A  M  L  Q  Q  S  L  L  P  N  L  Y  L  H  M  F  I  S  S  S  S  V  M  L  I  G  L  W  H  Y  V  E  N  F  I  C  *  L  K  K  K  T  L  S  G  P  F  F  F  F  L  V  A  G  C  N  H  N  P  L  V  H  G  L  N  H  C  N  D  I  P  G  L  S  F  R  F  C  E  R  Q  I  R  A  Y  L  D  R  N  I  S  Y  G  S  *  G  S  F  F  S  V  K  R  *  P  R  E  S  I  Y  G  K  F  V  V  L  V  T  N  K  L  P  L  C  P  N  K  C  D  G  I  T  Q  *  V  N  L  L  S  D  S  *  H  N  T  T  T  F  N  H  Y  S  T  Y  Y  N  S  C  L  G  W  N  I  Q  C  P  N  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="C06HBa0055E14.1" strand="-"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="90092" stop="90041"/>
                    <exon start="89104" stop="88996"/>
                    <exon start="88691" stop="88614"/>
                    <exon start="88502" stop="88469"/>
                    <exon start="88368" stop="88300"/>
                    <exon start="87792" stop="87715"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>417</number_coding_nucleotides>
                  <number_encoded_amino_acids>139</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>KMSGEEEENAAELKIGDEFLKAKCLMNCEVALILEHKYEQIQQMSDDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQAREILSRYPLAEFELCVLGNLCPETVEEGIAMVPSIKNRGRALDEEAIEKMLTDLSLIKKFE*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 11 chains have been computed
$ 
$ memory statistics:
$ 12944 bytes spliced alignments in total
$ 6 spliced alignments have been stored
$ 2157 bytes was the average size of a spliced alignment
$ 8168 bytes predicted gene locations in total
$ 3 predicted gene locations have been stored
$ 2722 bytes was the average size of a predicted gene location
$ 4 megabytes was the average size of the backtrace matrix
$ 13 backtrace matrices have been allocated
$ 
$ date finished: 2009-01-16 05:54:47
-->
