annotate test-data/meme_output_xml_2.xml @ 3:798018a73e3f draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 4bbfca6f0e9cae9a8f263aad4eab7304c96358c4

<?xml version='1.0' encoding='UTF-8' standalone='yes'?>
<!-- Document definition -->
<!DOCTYPE MEME[
<!ELEMENT MEME (
  training_set,
  model, 
  motifs, 
  scanned_sites_summary?
)>
<!ATTLIST MEME 
  version CDATA #REQUIRED
  release CDATA #REQUIRED
>
<!-- Training-set elements -->
<!ELEMENT training_set (alphabet, ambigs, sequence*, letter_frequencies)>
<!ATTLIST training_set datafile CDATA #REQUIRED length CDATA #REQUIRED>
<!ELEMENT alphabet (letter*)>
<!ATTLIST alphabet name CDATA #REQUIRED>
<!ELEMENT ambigs (letter*)>
<!ELEMENT letter EMPTY>
<!ATTLIST letter id ID #REQUIRED>
<!ATTLIST letter symbol CDATA #REQUIRED>
<!ATTLIST letter equals CDATA #IMPLIED>
<!ATTLIST letter aliases CDATA #IMPLIED>
<!ATTLIST letter complement CDATA #IMPLIED>
<!ATTLIST letter name CDATA #IMPLIED>
<!ATTLIST letter colour CDATA #IMPLIED>
<!ELEMENT sequence EMPTY>
<!ATTLIST sequence id ID #REQUIRED
                   name CDATA #REQUIRED
                   length CDATA #REQUIRED
                   weight CDATA #REQUIRED
>
<!ELEMENT letter_frequencies (alphabet_array)>

<!-- Model elements -->
<!ELEMENT model (
  command_line,
  host,
  type,
  nmotifs,
  evalue_threshold,
  object_function,
  min_width,
  max_width,
  minic,
  wg,
  ws,
  endgaps,
  minsites,
  maxsites,
  wnsites,
  prob,
  spmap,
  spfuzz,
  prior,
  beta,
  maxiter,
  distance,
  num_sequences,
  num_positions,
  seed,
  seqfrac,
  strands,
  priors_file,
  reason_for_stopping,
  background_frequencies
)>
<!ELEMENT command_line (#PCDATA)*>
<!ELEMENT host (#PCDATA)*>
<!ELEMENT type (#PCDATA)*>
<!ELEMENT nmotifs (#PCDATA)*>
<!ELEMENT evalue_threshold (#PCDATA)*>
<!ELEMENT object_function (#PCDATA)*>
<!ELEMENT min_width (#PCDATA)*>
<!ELEMENT max_width (#PCDATA)*>
<!ELEMENT minic (#PCDATA)*>
<!ELEMENT wg (#PCDATA)*>
<!ELEMENT ws (#PCDATA)*>
<!ELEMENT endgaps (#PCDATA)*>
<!ELEMENT minsites (#PCDATA)*>
<!ELEMENT maxsites (#PCDATA)*>
<!ELEMENT wnsites (#PCDATA)*>
<!ELEMENT prob (#PCDATA)*>
<!ELEMENT spmap (#PCDATA)*>
<!ELEMENT spfuzz (#PCDATA)*>
<!ELEMENT prior (#PCDATA)*>
<!ELEMENT beta (#PCDATA)*>
<!ELEMENT maxiter (#PCDATA)*>
<!ELEMENT distance (#PCDATA)*>
<!ELEMENT num_sequences (#PCDATA)*>
<!ELEMENT num_positions (#PCDATA)*>
<!ELEMENT seed (#PCDATA)*>
<!ELEMENT seqfrac (#PCDATA)*>
<!ELEMENT strands (#PCDATA)*>
<!ELEMENT priors_file (#PCDATA)*>
<!ELEMENT reason_for_stopping (#PCDATA)*>
<!ELEMENT background_frequencies (alphabet_array)>
<!ATTLIST background_frequencies source CDATA #REQUIRED>

<!-- Motif elements -->
<!ELEMENT motifs (motif*)>
<!ELEMENT motif (scores, probabilities, regular_expression?, contributing_sites)>
<!ATTLIST motif id ID #REQUIRED
                name CDATA #REQUIRED
                width CDATA #REQUIRED
                sites CDATA #REQUIRED
                llr CDATA #REQUIRED
                ic CDATA #REQUIRED
                re CDATA #REQUIRED
                bayes_threshold CDATA #REQUIRED
                e_value CDATA #REQUIRED
                elapsed_time CDATA #REQUIRED
                url CDATA ""
>
<!ELEMENT scores (alphabet_matrix)>
<!ELEMENT probabilities (alphabet_matrix)>
<!ELEMENT regular_expression (#PCDATA)*>

<!-- Contributing site elements -->
<!-- Contributing sites are motif occurences found during the motif discovery phase -->
<!ELEMENT contributing_sites (contributing_site*)>
<!ELEMENT contributing_site (left_flank, site, right_flank)>
<!ATTLIST contributing_site sequence_id IDREF #REQUIRED
                          position CDATA #REQUIRED
                          strand (plus|minus|none) 'none'
                          pvalue CDATA #REQUIRED
>
<!-- The left_flank contains the sequence for 10 bases to the left of the motif start -->
<!ELEMENT left_flank (#PCDATA)>
<!-- The site contains the sequence for the motif instance -->
<!ELEMENT site (letter_ref*)>
<!-- The right_flank contains the sequence for 10 bases to the right of the motif end -->
<!ELEMENT right_flank (#PCDATA)>

<!-- Scanned site elements -->
<!-- Scanned sites are motif occurences found during the sequence scan phase -->
<!ELEMENT scanned_sites_summary (scanned_sites*)>
<!ATTLIST scanned_sites_summary p_thresh CDATA #REQUIRED>
<!ELEMENT scanned_sites (scanned_site*)>
<!ATTLIST scanned_sites sequence_id IDREF #REQUIRED
                        pvalue CDATA #REQUIRED
                        num_sites CDATA #REQUIRED>
<!ELEMENT scanned_site EMPTY>
<!ATTLIST scanned_site  motif_id IDREF #REQUIRED
                        strand (plus|minus|none) 'none'
                        position CDATA #REQUIRED
                        pvalue CDATA #REQUIRED>

<!-- Utility elements -->
<!-- A reference to a letter in the alphabet -->
<!ELEMENT letter_ref EMPTY>
<!ATTLIST letter_ref letter_id IDREF #REQUIRED>
<!-- A alphabet-array contains one floating point value for each letter in an alphabet -->
<!ELEMENT alphabet_array (value*)>
<!ELEMENT value (#PCDATA)>
<!ATTLIST value letter_id IDREF #REQUIRED>

<!-- A alphabet_matrix contains one alphabet_array for each position in a motif -->
<!ELEMENT alphabet_matrix (alphabet_array*)>

]>
<!-- Begin document body -->
<MEME version="4.11.0" release="Thu Nov 26 17:48:49 2015 +1000">
<training_set datafile="Galaxy_FASTA_Input" length="30">
<alphabet name="DNA" like="dna">
<letter id="A" symbol="A" complement="T" name="Adenine" colour="CC0000"/>
<letter id="C" symbol="C" complement="G" name="Cytosine" colour="0000CC"/>
<letter id="G" symbol="G" complement="C" name="Guanine" colour="FFB300"/>
<letter id="T" symbol="T" aliases="U" complement="A" name="Thymine" colour="008000"/>
<letter id="N" symbol="N" aliases="X." equals="ACGT" name="Any base"/>
<letter id="V" symbol="V" equals="ACG" name="Not T"/>
<letter id="H" symbol="H" equals="ACT" name="Not G"/>
<letter id="D" symbol="D" equals="AGT" name="Not C"/>
<letter id="B" symbol="B" equals="CGT" name="Not A"/>
<letter id="M" symbol="M" equals="AC" name="Amino"/>
<letter id="R" symbol="R" equals="AG" name="Purine"/>
<letter id="W" symbol="W" equals="AT" name="Weak"/>
<letter id="S" symbol="S" equals="CG" name="Strong"/>
<letter id="Y" symbol="Y" equals="CT" name="Pyrimidine"/>
<letter id="K" symbol="K" equals="GT" name="Keto"/>
</alphabet>
<sequence id="sequence_0" name="chr21_19617074_19617124_+" length="50" weight="1.000000" />
<sequence id="sequence_1" name="chr21_26934381_26934431_+" length="50" weight="1.000000" />
<sequence id="sequence_2" name="chr21_28217753_28217803_-" length="50" weight="1.000000" />
<sequence id="sequence_3" name="chr21_31710037_31710087_-" length="50" weight="1.000000" />
<sequence id="sequence_4" name="chr21_31744582_31744632_-" length="50" weight="1.000000" />
<sequence id="sequence_5" name="chr21_31768316_31768366_+" length="50" weight="1.000000" />
<sequence id="sequence_6" name="chr21_31914206_31914256_-" length="50" weight="1.000000" />
<sequence id="sequence_7" name="chr21_31933633_31933683_-" length="50" weight="1.000000" />
<sequence id="sequence_8" name="chr21_31962741_31962791_-" length="50" weight="1.000000" />
<sequence id="sequence_9" name="chr21_31964683_31964733_+" length="50" weight="1.000000" />
<sequence id="sequence_10" name="chr21_31973364_31973414_+" length="50" weight="1.000000" />
<sequence id="sequence_11" name="chr21_31992870_31992920_+" length="50" weight="1.000000" />
<sequence id="sequence_12" name="chr21_32185595_32185645_-" length="50" weight="1.000000" />
<sequence id="sequence_13" name="chr21_32202076_32202126_-" length="50" weight="1.000000" />
<sequence id="sequence_14" name="chr21_32253899_32253949_-" length="50" weight="1.000000" />
<sequence id="sequence_15" name="chr21_32410820_32410870_-" length="50" weight="1.000000" />
<sequence id="sequence_16" name="chr21_36411748_36411798_-" length="50" weight="1.000000" />
<sequence id="sequence_17" name="chr21_37838750_37838800_-" length="50" weight="1.000000" />
<sequence id="sequence_18" name="chr21_45705687_45705737_+" length="50" weight="1.000000" />
<sequence id="sequence_19" name="chr21_45971413_45971463_-" length="50" weight="1.000000" />
<sequence id="sequence_20" name="chr21_45978668_45978718_-" length="50" weight="1.000000" />
<sequence id="sequence_21" name="chr21_45993530_45993580_+" length="50" weight="1.000000" />
<sequence id="sequence_22" name="chr21_46020421_46020471_+" length="50" weight="1.000000" />
<sequence id="sequence_23" name="chr21_46031920_46031970_+" length="50" weight="1.000000" />
<sequence id="sequence_24" name="chr21_46046964_46047014_+" length="50" weight="1.000000" />
<sequence id="sequence_25" name="chr21_46057197_46057247_+" length="50" weight="1.000000" />
<sequence id="sequence_26" name="chr21_46086869_46086919_-" length="50" weight="1.000000" />
<sequence id="sequence_27" name="chr21_46102103_46102153_-" length="50" weight="1.000000" />
<sequence id="sequence_28" name="chr21_47517957_47518007_+" length="50" weight="1.000000" />
<sequence id="sequence_29" name="chr21_47575506_47575556_-" length="50" weight="1.000000" />
<letter_frequencies>
<alphabet_array>
<value letter_id="A">0.294</value>
<value letter_id="C">0.231</value>
<value letter_id="G">0.257</value>
<value letter_id="T">0.217</value>
</alphabet_array>
</letter_frequencies>
</training_set>
<model>
<command_line>meme /Users/gvk/work/git_workspace/galaxy/database/files/002/dataset_2490.dat -o /Users/gvk/work/git_workspace/galaxy/database/job_working_directory/001/1929/dataset_2578_files -nostatus -sf Galaxy_FASTA_Input -dna -mod zoops -nmotifs 1 -wnsites 0.8 -minw 8 -maxw 50 -wg 11 -ws 1 -maxiter 50 -distance 0.001 -prior dirichlet -b 0.01 -plib /Users/gvk/work/git_workspace/galaxy/database/files/002/dataset_2577.dat -spmap uni -spfuzz 0.5 </command_line>
<host>MacBook-Pro-2.local</host>
<type>zoops</type>
<nmotifs>1</nmotifs>
<evalue_threshold>inf</evalue_threshold>
<object_function>E-value of product of p-values</object_function>
<use_llr>0</use_llr>
<min_width>8</min_width>
<max_width>50</max_width>
<wg>11</wg>
<ws>1</ws>
<endgaps>yes</endgaps>
<substring>yes</substring>
<minsites>2</minsites>
<maxsites>30</maxsites>
<wnsites>0.8</wnsites>
<spmap>uni</spmap>
<spfuzz>0.5</spfuzz>
<prior>dirichlet</prior>
<beta>0.01</beta>
<maxiter>50</maxiter>
<distance>0.001</distance>
<num_sequences>30</num_sequences>
<num_positions>1500</num_positions>
<seed>0</seed>
<ctfrac>-1</ctfrac>
<maxwords>-1</maxwords>
<strands>forward</strands>
<priors_file>dataset_2577.dat</priors_file>
<reason_for_stopping>Stopped because requested number of motifs (1) found.</reason_for_stopping>
<background_frequencies source="dataset with add-one prior applied">
<alphabet_array>
<value letter_id="A">0.294</value>
<value letter_id="C">0.231</value>
<value letter_id="G">0.257</value>
<value letter_id="T">0.217</value>
</alphabet_array>
</background_frequencies>
</model>
<motifs>
<motif id="motif_1" name="1" width="11" sites="30" ic="13.0" re="12.2" llr="254" e_value="5.1e-040" bayes_threshold="5.2854" elapsed_time="0.168106">
<scores>
<alphabet_matrix>
<alphabet_array>
<value letter_id="A">-14</value>
<value letter_id="C">-179</value>
<value letter_id="G">114</value>
<value letter_id="T">-112</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">3</value>
<value letter_id="C">-1155</value>
<value letter_id="G">137</value>
<value letter_id="T">-270</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-114</value>
<value letter_id="C">20</value>
<value letter_id="G">86</value>
<value letter_id="T">-71</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">3</value>
<value letter_id="C">-279</value>
<value letter_id="G">122</value>
<value letter_id="T">-170</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-1155</value>
<value letter_id="C">-1155</value>
<value letter_id="G">-295</value>
<value letter_id="T">215</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">156</value>
<value letter_id="C">-179</value>
<value letter_id="G">-1155</value>
<value letter_id="T">-170</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-1155</value>
<value letter_id="C">-1155</value>
<value letter_id="G">-1155</value>
<value letter_id="T">220</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">172</value>
<value letter_id="C">-279</value>
<value letter_id="G">-1155</value>
<value letter_id="T">-1155</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">125</value>
<value letter_id="C">-1155</value>
<value letter_id="G">-1155</value>
<value letter_id="T">46</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">167</value>
<value letter_id="C">-179</value>
<value letter_id="G">-1155</value>
<value letter_id="T">-1155</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">144</value>
<value letter_id="C">-1155</value>
<value letter_id="G">-63</value>
<value letter_id="T">-270</value>
</alphabet_array>
</alphabet_matrix>
</scores>
<probabilities>
<alphabet_matrix>
<alphabet_array>
<value letter_id="A">0.266667</value>
<value letter_id="C">0.066667</value>
<value letter_id="G">0.566667</value>
<value letter_id="T">0.100000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.300000</value>
<value letter_id="C">0.000000</value>
<value letter_id="G">0.666667</value>
<value letter_id="T">0.033333</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.133333</value>
<value letter_id="C">0.266667</value>
<value letter_id="G">0.466667</value>
<value letter_id="T">0.133333</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.300000</value>
<value letter_id="C">0.033333</value>
<value letter_id="G">0.600000</value>
<value letter_id="T">0.066667</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">0.000000</value>
<value letter_id="G">0.033333</value>
<value letter_id="T">0.966667</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.866667</value>
<value letter_id="C">0.066667</value>
<value letter_id="G">0.000000</value>
<value letter_id="T">0.066667</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">0.000000</value>
<value letter_id="G">0.000000</value>
<value letter_id="T">1.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.966667</value>
<value letter_id="C">0.033333</value>
<value letter_id="G">0.000000</value>
<value letter_id="T">0.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.700000</value>
<value letter_id="C">0.000000</value>
<value letter_id="G">0.000000</value>
<value letter_id="T">0.300000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.933333</value>
<value letter_id="C">0.066667</value>
<value letter_id="G">0.000000</value>
<value letter_id="T">0.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.800000</value>
<value letter_id="C">0.000000</value>
<value letter_id="G">0.166667</value>
<value letter_id="T">0.033333</value>
</alphabet_array>
</alphabet_matrix>
</probabilities>
<regular_expression>
[GA][GA][GC][GA]TATA[AT]AA
</regular_expression>
<contributing_sites>
<contributing_site sequence_id="sequence_24" position="12" strand="plus" pvalue="4.51e-07" >
<left_flank>AAGGCCAGGA</left_flank>
<site>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>GCCTGAGAGC</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_23" position="15" strand="plus" pvalue="2.22e-06" >
<left_flank>ATACCCAGGG</left_flank>
<site>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>CCTCAGCAGC</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_13" position="13" strand="plus" pvalue="2.74e-06" >
<left_flank>CCACCAGCTT</left_flank>
<site>
<letter_ref letter_id="G"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>AGCCCTGTAC</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_25" position="36" strand="plus" pvalue="4.86e-06" >
<left_flank>ACAGGCCCTG</left_flank>
<site>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>GCC</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_21" position="7" strand="plus" pvalue="4.86e-06" >
<left_flank>CCAAGGA</left_flank>
<site>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>GCCCCACAAA</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_19" position="9" strand="plus" pvalue="4.86e-06" >
<left_flank>CAGGCCCTG</left_flank>
<site>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>GCCCCAGCAG</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_9" position="13" strand="plus" pvalue="4.86e-06" >
<left_flank>GATTCACTGA</left_flank>
<site>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>GGCCCTCTGC</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_28" position="32" strand="plus" pvalue="6.48e-06" >
<left_flank>CCGGCGGGGC</left_flank>
<site>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
</site>
<right_flank>GGGGCGG</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_20" position="4" strand="plus" pvalue="6.48e-06" >
<left_flank>CAGA</left_flank>
<site>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
</site>
<right_flank>GTTCCGACCA</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_12" position="18" strand="plus" pvalue="6.48e-06" >
<left_flank>CACCAGAGCT</left_flank>
<site>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>AGAAGGTTCT</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_15" position="21" strand="plus" pvalue="1.38e-05" >
<left_flank>AATCACTGAG</left_flank>
<site>
<letter_ref letter_id="G"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>GTCCCAGGGA</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_11" position="16" strand="plus" pvalue="1.38e-05" >
<left_flank>CACTATTGAA</left_flank>
<site>
<letter_ref letter_id="G"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>TTTCATTTGC</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_0" position="39" strand="plus" pvalue="1.41e-05" >
<left_flank>CCTCGGGACG</left_flank>
<site>
<letter_ref letter_id="T"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank></right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_6" position="15" strand="plus" pvalue="1.61e-05" >
<left_flank>CCCACTACTT</left_flank>
<site>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>TCATTCTGAG</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_22" position="2" strand="plus" pvalue="1.95e-05" >
<left_flank>GA</left_flank>
<site>
<letter_ref letter_id="G"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>GCCAACATCC</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_14" position="17" strand="plus" pvalue="1.95e-05" >
<left_flank>CCCACCAGCA</left_flank>
<site>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>AAGCTCAGGA</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_18" position="37" strand="plus" pvalue="2.16e-05" >
<left_flank>CGTGGTCGCG</left_flank>
<site>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>GC</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_29" position="30" strand="plus" pvalue="3.04e-05" >
<left_flank>GCTGCCGGTG</left_flank>
<site>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
</site>
<right_flank>GCCCTGGCG</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_4" position="12" strand="plus" pvalue="3.04e-05" >
<left_flank>CAGGTCTAAG</left_flank>
<site>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>CTTGGAGTCC</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_5" position="0" strand="plus" pvalue="3.67e-05" >
<left_flank></left_flank>
<site>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>ATGGTCCTGT</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_1" position="27" strand="plus" pvalue="3.93e-05" >
<left_flank>AGTCACAAGT</left_flank>
<site>
<letter_ref letter_id="G"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>GGGTCGCACG</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_7" position="4" strand="plus" pvalue="5.65e-05" >
<left_flank>TCAG</left_flank>
<site>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>ATGTTCCTGT</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_3" position="14" strand="plus" pvalue="6.24e-05" >
<left_flank>CCCAGGTTTC</left_flank>
<site>
<letter_ref letter_id="T"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>TCGCCGCACC</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_16" position="22" strand="plus" pvalue="7.15e-05" >
<left_flank>AGTTTCAGTT</left_flank>
<site>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>attatataac</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_27" position="36" strand="plus" pvalue="1.39e-04" >
<left_flank>TGCCTGGGTC</left_flank>
<site>
<letter_ref letter_id="C"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
</site>
<right_flank>GCT</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_26" position="37" strand="plus" pvalue="1.39e-04" >
<left_flank>TGCCTGGGCC</left_flank>
<site>
<letter_ref letter_id="C"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
</site>
<right_flank>GC</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_17" position="2" strand="plus" pvalue="4.81e-04" >
<left_flank>ga</left_flank>
<site>
<letter_ref letter_id="T"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>ggggcctcac</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_8" position="13" strand="plus" pvalue="8.57e-04" >
<left_flank>TATAACTCAG</left_flank>
<site>
<letter_ref letter_id="G"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>TAATTTGTAC</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_10" position="7" strand="plus" pvalue="1.47e-03" >
<left_flank>aaactta</left_flank>
<site>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>acttaaaact</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_2" position="26" strand="plus" pvalue="2.64e-03" >
<left_flank>GGTGGGGGTG</left_flank>
<site>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="T"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="T"/>
</site>
<right_flank>GGTCCACTAT</right_flank>
</contributing_site>
</contributing_sites>
</motif>
</motifs>
<scanned_sites_summary p_thresh="0.0001">
<scanned_sites sequence_id="sequence_0" pvalue="5.63e-04" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="39" pvalue="1.41e-05"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_1" pvalue="1.57e-03" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="27" pvalue="3.93e-05"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_2" pvalue="1.00e-01" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_3" pvalue="2.49e-03" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="14" pvalue="6.24e-05"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_4" pvalue="1.22e-03" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="12" pvalue="3.04e-05"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_5" pvalue="1.47e-03" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="0" pvalue="3.67e-05"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_6" pvalue="6.45e-04" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="15" pvalue="1.61e-05"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_7" pvalue="2.26e-03" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="4" pvalue="5.65e-05"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_8" pvalue="3.37e-02" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_9" pvalue="1.95e-04" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="13" pvalue="4.86e-06"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_10" pvalue="5.73e-02" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_11" pvalue="5.52e-04" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="16" pvalue="1.38e-05"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_12" pvalue="2.59e-04" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="18" pvalue="6.48e-06"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_13" pvalue="1.10e-04" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="13" pvalue="2.74e-06"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_14" pvalue="7.78e-04" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="17" pvalue="1.95e-05"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_15" pvalue="5.52e-04" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="21" pvalue="1.38e-05"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_16" pvalue="2.85e-03" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="22" pvalue="7.15e-05"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_17" pvalue="1.90e-02" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_18" pvalue="8.63e-04" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="37" pvalue="2.16e-05"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_19" pvalue="1.95e-04" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="9" pvalue="4.86e-06"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_20" pvalue="2.59e-04" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="4" pvalue="6.48e-06"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_21" pvalue="1.95e-04" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="7" pvalue="4.86e-06"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_22" pvalue="7.78e-04" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="2" pvalue="1.95e-05"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_23" pvalue="8.89e-05" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="15" pvalue="2.22e-06"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_24" pvalue="1.80e-05" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="12" pvalue="4.51e-07"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_25" pvalue="1.95e-04" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="36" pvalue="4.86e-06"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_26" pvalue="5.54e-03" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_27" pvalue="5.54e-03" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_28" pvalue="2.59e-04" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="32" pvalue="6.48e-06"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_29" pvalue="1.22e-03" num_sites="1"><scanned_site motif_id="motif_1" strand="plus" position="30" pvalue="3.04e-05"/>
</scanned_sites>
</scanned_sites_summary>
</MEME>