<?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 primary_sequences CDATA #REQUIRED primary_count CDATA #REQUIRED primary_positions CDATA #REQUIRED
  control_sequences CDATA "" control_count CDATA "" control_positions CDATA "">
<!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,
  spfun,
  min_width,
  max_width,
  wg,
  ws,
  endgaps,
  minsites,
  maxsites,
  wnsites,
  spmap,
  spfuzz,
  prior,
  beta,
  maxiter,
  distance,
  num_positions,
  seed,
  hsfrac,
  searchsize,
  maxsize,
  norand,
  csites,
  strands,
  brief,
  psp_file,
  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 spfun (#PCDATA)*>
<!ELEMENT min_width (#PCDATA)*>
<!ELEMENT max_width (#PCDATA)*>
<!ELEMENT wg (#PCDATA)*>
<!ELEMENT ws (#PCDATA)*>
<!ELEMENT endgaps (#PCDATA)*>
<!ELEMENT minsites (#PCDATA)*>
<!ELEMENT maxsites (#PCDATA)*>
<!ELEMENT wnsites (#PCDATA)*>
<!ELEMENT spmap (#PCDATA)*>
<!ELEMENT spfuzz (#PCDATA)*>
<!ELEMENT prior (#PCDATA)*>
<!ELEMENT beta (#PCDATA)*>
<!ELEMENT maxiter (#PCDATA)*>
<!ELEMENT distance (#PCDATA)*>
<!ELEMENT num_positions (#PCDATA)*>
<!ELEMENT seed (#PCDATA)*>
<!ELEMENT hsfrac (#PCDATA)*>
<!ELEMENT searchsize (#PCDATA)*>
<!ELEMENT maxsize (#PCDATA)*>
<!ELEMENT norand (#PCDATA)*>
<!ELEMENT csites (#PCDATA)*>
<!ELEMENT strands (#PCDATA)*>
<!ELEMENT brief (#PCDATA)*>
<!ELEMENT psp_file (#PCDATA)*>
<!ELEMENT priors_file (#PCDATA)*>
<!ELEMENT reason_for_stopping (#PCDATA)*>
<!ELEMENT background_frequencies (alphabet_array)>
<!ATTLIST background_frequencies source CDATA #REQUIRED
		   order CDATA #REQUIRED>

<!-- Motif elements -->
<!ELEMENT motifs (motif*)>
<!ELEMENT motif (scores, probabilities, regular_expression?, contributing_sites)>
<!ATTLIST motif id ID #REQUIRED
                name CDATA #REQUIRED
                alt CDATA ""
                width CDATA #REQUIRED
                sites CDATA #REQUIRED
                ic CDATA #REQUIRED
                re CDATA #REQUIRED
                llr CDATA #REQUIRED
                p_value CDATA #REQUIRED
                e_value CDATA #REQUIRED
                bayes_threshold 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="5.4.1" release="Sat Aug 21 19:23:23 2021 -0700">
<training_set primary_sequences="/global/cscratch1/sd/mmingay/direct_rna_2021/pseudo_dev/combo_test_seedling//seedling_resampleOct18_clustering2_pad8.fasta" primary_count="56330" primary_positions="901278" control_sequences="--none--" control_count="0" control_positions="0">
<alphabet name="RNA" like="rna">
<letter id="A" symbol="A" name="Adenine" colour="CC0000"/>
<letter id="C" symbol="C" name="Cytosine" colour="0000CC"/>
<letter id="G" symbol="G" name="Guanine" colour="FFB300"/>
<letter id="U" symbol="U" aliases="T" name="Uracil" colour="008000"/>
<letter id="N" symbol="N" aliases="X." equals="ACGU" name="Any base"/>
<letter id="V" symbol="V" equals="ACG" name="Not U"/>
<letter id="H" symbol="H" equals="ACU" name="Not G"/>
<letter id="D" symbol="D" equals="AGU" name="Not C"/>
<letter id="B" symbol="B" equals="CGU" 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="AU" name="Weak"/>
<letter id="S" symbol="S" equals="CG" name="Strong"/>
<letter id="Y" symbol="Y" equals="CU" name="Pyrimidine"/>
<letter id="K" symbol="K" equals="GU" name="Keto"/>
</alphabet>
<letter_frequencies>
<alphabet_array>
<value letter_id="A">0.276</value>
<value letter_id="C">0.175</value>
<value letter_id="G">0.179</value>
<value letter_id="U">0.369</value>
</alphabet_array>
</letter_frequencies>
</training_set>
<model>
<command_line>meme /global/cscratch1/sd/mmingay/direct_rna_2021/pseudo_dev/combo_test_seedling//seedling_resampleOct18_clustering2_pad8.fasta -oc /global/cscratch1/sd/mmingay/direct_rna_2021/pseudo_dev/combo_test_seedling/meme_out_seedling_resampleOct18_clustering2_pad8/ -rna -maxsize 10000000 -mod zoops -nmotifs 5 -minw 3 -maxw 10 -p 2 </command_line>
<host>buildkitsandbox</host>
<type>zoops</type>
<nmotifs>5</nmotifs>
<evalue_threshold>inf</evalue_threshold>
<object_function>E-value of product of p-values</object_function>
<spfun>E-value of product of p-values</spfun>
<min_width>3</min_width>
<max_width>10</max_width>
<wg>11</wg>
<ws>1</ws>
<endgaps>yes</endgaps>
<substring>yes</substring>
<minsites>2</minsites>
<maxsites>56330</maxsites>
<wnsites>0.8</wnsites>
<spmap>uni</spmap>
<spfuzz>0.5</spfuzz>
<prior>dirichlet</prior>
<beta>0.01</beta>
<maxiter>50</maxiter>
<distance>1e-05</distance>
<num_positions>901278</num_positions>
<seed>0</seed>
<hsfrac>0</hsfrac>
<searchsize>100000</searchsize>
<maxsize>10000000</maxsize>
<norand>no</norand>
<csites>1000</csites>
<strands>none</strands>
<brief>1000</brief>
<psp_file></psp_file>
<priors_file></priors_file>
<reason_for_stopping>Stopped because requested number of motifs (5) found.</reason_for_stopping>
<background_frequencies source="--sequences--" order="0">
<alphabet_array>
<value letter_id="A">0.276</value>
<value letter_id="C">0.175</value>
<value letter_id="G">0.179</value>
<value letter_id="U">0.369</value>
</alphabet_array>
</background_frequencies>
</model>
<motifs>
<motif id="motif_1" name="RAAACWH" alt="MEME-1" width="7" sites="6476" ic="8.6" re="8.6" llr="38817" p_value="3.3e-310" e_value="3.7e-021" bayes_threshold="8.75769" elapsed_time="145.905959">
<scores>
<alphabet_matrix>
<alphabet_array>
<value letter_id="A">86</value>
<value letter_id="C">33</value>
<value letter_id="G">63</value>
<value letter_id="U">-1930</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">185</value>
<value letter_id="C">-1930</value>
<value letter_id="G">-1930</value>
<value letter_id="U">-1930</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">134</value>
<value letter_id="C">-1930</value>
<value letter_id="G">75</value>
<value letter_id="U">-1930</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">185</value>
<value letter_id="C">-1930</value>
<value letter_id="G">-1930</value>
<value letter_id="U">-1930</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-1930</value>
<value letter_id="C">251</value>
<value letter_id="G">-1930</value>
<value letter_id="U">-1930</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">35</value>
<value letter_id="C">-13</value>
<value letter_id="G">-1930</value>
<value letter_id="U">40</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">20</value>
<value letter_id="C">46</value>
<value letter_id="G">-1930</value>
<value letter_id="U">26</value>
</alphabet_array>
</alphabet_matrix>
</scores>
<probabilities>
<alphabet_matrix>
<alphabet_array>
<value letter_id="A">0.502316</value>
<value letter_id="C">0.220198</value>
<value letter_id="G">0.277486</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">1.000000</value>
<value letter_id="C">0.000000</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.697807</value>
<value letter_id="C">0.000000</value>
<value letter_id="G">0.302193</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">1.000000</value>
<value letter_id="C">0.000000</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">1.000000</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.351915</value>
<value letter_id="C">0.160439</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.487647</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.317634</value>
<value letter_id="C">0.241970</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.440395</value>
</alphabet_array>
</alphabet_matrix>
</probabilities>
<regular_expression>
[AGC]A[AG]AC[UA][UAC]
</regular_expression>
<contributing_sites>
</contributing_sites>
</motif>
<motif id="motif_2" name="GMAGCAGCYU" alt="MEME-2" width="10" sites="71" ic="13.8" re="15.6" llr="765" p_value="4.4e-032" e_value="3.3e+000" bayes_threshold="14.2243" elapsed_time="183.615975">
<scores>
<alphabet_matrix>
<alphabet_array>
<value letter_id="A">-1279</value>
<value letter_id="C">-1279</value>
<value letter_id="G">248</value>
<value letter_id="U">-1279</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">61</value>
<value letter_id="C">112</value>
<value letter_id="G">14</value>
<value letter_id="U">-1279</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">170</value>
<value letter_id="C">-1279</value>
<value letter_id="G">-86</value>
<value letter_id="U">-1279</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-1279</value>
<value letter_id="C">-1279</value>
<value letter_id="G">248</value>
<value letter_id="U">-1279</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-59</value>
<value letter_id="C">222</value>
<value letter_id="G">-1279</value>
<value letter_id="U">-1279</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">164</value>
<value letter_id="C">-1279</value>
<value letter_id="G">-1279</value>
<value letter_id="U">-139</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-21</value>
<value letter_id="C">-205</value>
<value letter_id="G">200</value>
<value letter_id="U">-1279</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-1279</value>
<value letter_id="C">251</value>
<value letter_id="G">-1279</value>
<value letter_id="U">-1279</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-1279</value>
<value letter_id="C">141</value>
<value letter_id="G">-1279</value>
<value letter_id="U">54</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-329</value>
<value letter_id="C">-1279</value>
<value letter_id="G">14</value>
<value letter_id="U">107</value>
</alphabet_array>
</alphabet_matrix>
</scores>
<probabilities>
<alphabet_matrix>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">0.000000</value>
<value letter_id="G">1.000000</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.422535</value>
<value letter_id="C">0.380282</value>
<value letter_id="G">0.197183</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.901408</value>
<value letter_id="C">0.000000</value>
<value letter_id="G">0.098592</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">0.000000</value>
<value letter_id="G">1.000000</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.183099</value>
<value letter_id="C">0.816901</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.859155</value>
<value letter_id="C">0.000000</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.140845</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.239437</value>
<value letter_id="C">0.042254</value>
<value letter_id="G">0.718310</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">1.000000</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">0.464789</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.535211</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.028169</value>
<value letter_id="C">0.000000</value>
<value letter_id="G">0.197183</value>
<value letter_id="U">0.774648</value>
</alphabet_array>
</alphabet_matrix>
</probabilities>
<regular_expression>
G[AC]AGCA[GA]C[UC]U
</regular_expression>
<contributing_sites>
</contributing_sites>
</motif>
<motif id="motif_3" name="CUUUUUUUUU" alt="MEME-3" width="10" sites="714" ic="14.5" re="11.1" llr="5487" p_value="4.3e-075" e_value="1.8e+001" bayes_threshold="11.3067" elapsed_time="220.473085">
<scores>
<alphabet_matrix>
<alphabet_array>
<value letter_id="A">-1612</value>
<value letter_id="C">219</value>
<value letter_id="G">-7</value>
<value letter_id="U">-365</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-1612</value>
<value letter_id="C">-1612</value>
<value letter_id="G">-1612</value>
<value letter_id="U">144</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-1612</value>
<value letter_id="C">-397</value>
<value letter_id="G">-96</value>
<value letter_id="U">128</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-1612</value>
<value letter_id="C">-1612</value>
<value letter_id="G">-75</value>
<value letter_id="U">128</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-1612</value>
<value letter_id="C">-35</value>
<value letter_id="G">-122</value>
<value letter_id="U">109</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-1612</value>
<value letter_id="C">-1612</value>
<value letter_id="G">-127</value>
<value letter_id="U">133</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-1612</value>
<value letter_id="C">14</value>
<value letter_id="G">-1612</value>
<value letter_id="U">113</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-1612</value>
<value letter_id="C">-70</value>
<value letter_id="G">-1612</value>
<value letter_id="U">127</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-1612</value>
<value letter_id="C">-1612</value>
<value letter_id="G">-1612</value>
<value letter_id="U">144</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-1612</value>
<value letter_id="C">38</value>
<value letter_id="G">-142</value>
<value letter_id="U">93</value>
</alphabet_array>
</alphabet_matrix>
</scores>
<probabilities>
<alphabet_matrix>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">0.799720</value>
<value letter_id="G">0.170868</value>
<value letter_id="U">0.029412</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="U">1.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">0.011204</value>
<value letter_id="G">0.092437</value>
<value letter_id="U">0.896359</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">0.000000</value>
<value letter_id="G">0.106443</value>
<value letter_id="U">0.893557</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">0.137255</value>
<value letter_id="G">0.077031</value>
<value letter_id="U">0.785714</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">0.000000</value>
<value letter_id="G">0.074230</value>
<value letter_id="U">0.925770</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">0.193277</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.806723</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">0.107843</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.892157</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="U">1.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">0.228291</value>
<value letter_id="G">0.067227</value>
<value letter_id="U">0.704482</value>
</alphabet_array>
</alphabet_matrix>
</probabilities>
<regular_expression>
CUUUUUUUU[UC]
</regular_expression>
<contributing_sites>
</contributing_sites>
</motif>
<motif id="motif_4" name="CAWGUCUCUC" alt="MEME-4" width="10" sites="9" ic="19.1" re="19.5" llr="122" p_value="2.4e-016" e_value="3.3e+001" bayes_threshold="16.267" elapsed_time="256.599580">
<scores>
<alphabet_matrix>
<alphabet_array>
<value letter_id="A">-982</value>
<value letter_id="C">251</value>
<value letter_id="G">-982</value>
<value letter_id="U">-982</value>
</alphabet_array>
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<value letter_id="A">185</value>
<value letter_id="C">-982</value>
<value letter_id="G">-982</value>
<value letter_id="U">-982</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">127</value>
<value letter_id="C">-982</value>
<value letter_id="G">-982</value>
<value letter_id="U">-15</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-982</value>
<value letter_id="C">-982</value>
<value letter_id="G">248</value>
<value letter_id="U">-982</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-982</value>
<value letter_id="C">-982</value>
<value letter_id="G">-982</value>
<value letter_id="U">144</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-982</value>
<value letter_id="C">251</value>
<value letter_id="G">-982</value>
<value letter_id="U">-982</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-982</value>
<value letter_id="C">-982</value>
<value letter_id="G">-982</value>
<value letter_id="U">144</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-982</value>
<value letter_id="C">251</value>
<value letter_id="G">-982</value>
<value letter_id="U">-982</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-982</value>
<value letter_id="C">-982</value>
<value letter_id="G">-982</value>
<value letter_id="U">144</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-982</value>
<value letter_id="C">251</value>
<value letter_id="G">-982</value>
<value letter_id="U">-982</value>
</alphabet_array>
</alphabet_matrix>
</scores>
<probabilities>
<alphabet_matrix>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">1.000000</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">1.000000</value>
<value letter_id="C">0.000000</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.666667</value>
<value letter_id="C">0.000000</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.333333</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">0.000000</value>
<value letter_id="G">1.000000</value>
<value letter_id="U">0.000000</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="U">1.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">1.000000</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.000000</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="U">1.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">1.000000</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.000000</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="U">1.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">1.000000</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
</alphabet_matrix>
</probabilities>
<regular_expression>
CA[AU]GUCUCUC
</regular_expression>
<contributing_sites>
</contributing_sites>
</motif>
<motif id="motif_5" name="CCGCCGGUAC" alt="MEME-5" width="10" sites="2" ic="20.0" re="23.3" llr="32" p_value="1.7e-005" e_value="4.1e+002" bayes_threshold="17.589" elapsed_time="292.691836">
<scores>
<alphabet_matrix>
<alphabet_array>
<value letter_id="A">-765</value>
<value letter_id="C">251</value>
<value letter_id="G">-765</value>
<value letter_id="U">-765</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-765</value>
<value letter_id="C">251</value>
<value letter_id="G">-765</value>
<value letter_id="U">-765</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-765</value>
<value letter_id="C">-765</value>
<value letter_id="G">247</value>
<value letter_id="U">-765</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-765</value>
<value letter_id="C">251</value>
<value letter_id="G">-765</value>
<value letter_id="U">-765</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-765</value>
<value letter_id="C">251</value>
<value letter_id="G">-765</value>
<value letter_id="U">-765</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-765</value>
<value letter_id="C">-765</value>
<value letter_id="G">247</value>
<value letter_id="U">-765</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-765</value>
<value letter_id="C">-765</value>
<value letter_id="G">247</value>
<value letter_id="U">-765</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-765</value>
<value letter_id="C">-765</value>
<value letter_id="G">-765</value>
<value letter_id="U">143</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">185</value>
<value letter_id="C">-765</value>
<value letter_id="G">-765</value>
<value letter_id="U">-765</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-765</value>
<value letter_id="C">251</value>
<value letter_id="G">-765</value>
<value letter_id="U">-765</value>
</alphabet_array>
</alphabet_matrix>
</scores>
<probabilities>
<alphabet_matrix>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">1.000000</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">1.000000</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">0.000000</value>
<value letter_id="G">1.000000</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">1.000000</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">1.000000</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">0.000000</value>
<value letter_id="G">1.000000</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">0.000000</value>
<value letter_id="G">1.000000</value>
<value letter_id="U">0.000000</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="U">1.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">1.000000</value>
<value letter_id="C">0.000000</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">1.000000</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
</alphabet_matrix>
</probabilities>
<regular_expression>
CCGCCGGUAC
</regular_expression>
<contributing_sites>
</contributing_sites>
</motif>
</motifs>
</MEME>
