<?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/cfs/cdirs/usa/custom/mmingay/pseudo_dev/motifs/big_clusters_sigDiff_cluster-1_pad5_context.fa" primary_count="33" primary_positions="330" 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>
<sequence id="sequence_0" name="NR_132228.1:42-52" length="10" weight="1.000000" />
<sequence id="sequence_1" name="NR_132216.1:5464-5474" length="10" weight="1.000000" />
<sequence id="sequence_2" name="NR_132218.1:2271-2281" length="10" weight="1.000000" />
<sequence id="sequence_3" name="NM_001183789.3:206-216" length="10" weight="1.000000" />
<sequence id="sequence_4" name="NM_001181706.1:256-266" length="10" weight="1.000000" />
<sequence id="sequence_5" name="NR_132218.1:2213-2223" length="10" weight="1.000000" />
<sequence id="sequence_6" name="NR_132209.1:2213-2223" length="10" weight="1.000000" />
<sequence id="sequence_7" name="NM_001184425.2:3819-3829" length="10" weight="1.000000" />
<sequence id="sequence_8" name="NM_001183649.3:1285-1295" length="10" weight="1.000000" />
<sequence id="sequence_9" name="NM_001179729.1:296-306" length="10" weight="1.000000" />
<sequence id="sequence_10" name="NM_001182826.1:1021-1031" length="10" weight="1.000000" />
<sequence id="sequence_11" name="NR_132213.1:597-607" length="10" weight="1.000000" />
<sequence id="sequence_12" name="NM_001183789.3:369-379" length="10" weight="1.000000" />
<sequence id="sequence_13" name="NR_132213.1:409-419" length="10" weight="1.000000" />
<sequence id="sequence_14" name="NR_132218.1:2635-2645" length="10" weight="1.000000" />
<sequence id="sequence_15" name="NM_001178537.3:94-104" length="10" weight="1.000000" />
<sequence id="sequence_16" name="NM_001181762.1:217-227" length="10" weight="1.000000" />
<sequence id="sequence_17" name="NM_001182692.1:195-205" length="10" weight="1.000000" />
<sequence id="sequence_18" name="NM_001182692.1:512-522" length="10" weight="1.000000" />
<sequence id="sequence_19" name="NM_001181156.1:162-172" length="10" weight="1.000000" />
<sequence id="sequence_20" name="NM_001181834.1:297-307" length="10" weight="1.000000" />
<sequence id="sequence_21" name="NM_001180650.3:1608-1618" length="10" weight="1.000000" />
<sequence id="sequence_22" name="NM_001181935.1:711-721" length="10" weight="1.000000" />
<sequence id="sequence_23" name="NM_001183428.1:1355-1365" length="10" weight="1.000000" />
<sequence id="sequence_24" name="NM_001184398.2:4094-4104" length="10" weight="1.000000" />
<sequence id="sequence_25" name="NM_001180541.3:426-436" length="10" weight="1.000000" />
<sequence id="sequence_26" name="NM_001178664.1:1287-1297" length="10" weight="1.000000" />
<sequence id="sequence_27" name="NR_132216.1:5887-5897" length="10" weight="1.000000" />
<sequence id="sequence_28" name="NM_001183428.1:1353-1363" length="10" weight="1.000000" />
<sequence id="sequence_29" name="NM_001179473.1:1389-1399" length="10" weight="1.000000" />
<sequence id="sequence_30" name="NM_001182136.1:3092-3102" length="10" weight="1.000000" />
<sequence id="sequence_31" name="NM_001179222.2:1624-1634" length="10" weight="1.000000" />
<sequence id="sequence_32" name="NM_001178384.1:1195-1205" length="10" weight="1.000000" />
<letter_frequencies>
<alphabet_array>
<value letter_id="A">0.339</value>
<value letter_id="C">0.218</value>
<value letter_id="G">0.2</value>
<value letter_id="U">0.242</value>
</alphabet_array>
</letter_frequencies>
</training_set>
<model>
<command_line>meme /global/cfs/cdirs/usa/custom/mmingay/pseudo_dev/motifs/big_clusters_sigDiff_cluster-1_pad5_context.fa -oc /global/cfs/cdirs/usa/custom/mmingay/pseudo_dev/motifs/meme_out_big_clusters_sigDiff_cluster-1_pad5/ -rna -maxsize 10000000 -mod zoops -nmotifs 5 -minw 4 -maxw 10 -p 32 </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>4</min_width>
<max_width>10</max_width>
<wg>11</wg>
<ws>1</ws>
<endgaps>yes</endgaps>
<substring>yes</substring>
<minsites>2</minsites>
<maxsites>33</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>330</num_positions>
<seed>0</seed>
<hsfrac>0</hsfrac>
<searchsize>330</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">0.338</value>
<value letter_id="C">0.219</value>
<value letter_id="G">0.201</value>
<value letter_id="U">0.243</value>
</alphabet_array>
</background_frequencies>
</model>
<motifs>
<motif id="motif_1" name="AAGUGAAGAA" alt="MEME-1" width="10" sites="3" ic="20.0" re="18.4" llr="38" p_value="5.0e-007" e_value="2.7e-003" bayes_threshold="3.80735" elapsed_time="0.472420">
<scores>
<alphabet_matrix>
<alphabet_array>
<value letter_id="A">156</value>
<value letter_id="C">-823</value>
<value letter_id="G">-823</value>
<value letter_id="U">-823</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">156</value>
<value letter_id="C">-823</value>
<value letter_id="G">-823</value>
<value letter_id="U">-823</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-823</value>
<value letter_id="C">-823</value>
<value letter_id="G">231</value>
<value letter_id="U">-823</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-823</value>
<value letter_id="C">-823</value>
<value letter_id="G">-823</value>
<value letter_id="U">204</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-823</value>
<value letter_id="C">-823</value>
<value letter_id="G">231</value>
<value letter_id="U">-823</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">156</value>
<value letter_id="C">-823</value>
<value letter_id="G">-823</value>
<value letter_id="U">-823</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">156</value>
<value letter_id="C">-823</value>
<value letter_id="G">-823</value>
<value letter_id="U">-823</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-823</value>
<value letter_id="C">-823</value>
<value letter_id="G">231</value>
<value letter_id="U">-823</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">156</value>
<value letter_id="C">-823</value>
<value letter_id="G">-823</value>
<value letter_id="U">-823</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">156</value>
<value letter_id="C">-823</value>
<value letter_id="G">-823</value>
<value letter_id="U">-823</value>
</alphabet_array>
</alphabet_matrix>
</scores>
<probabilities>
<alphabet_matrix>
<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">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">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">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">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">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">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">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">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_matrix>
</probabilities>
<regular_expression>
AAGUGAAGAA
</regular_expression>
<contributing_sites>
<contributing_site sequence_id="sequence_6" position="0" strand="none" pvalue="2.94e-06" >
<left_flank></left_flank>
<site>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="U"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank></right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_5" position="0" strand="none" pvalue="2.94e-06" >
<left_flank></left_flank>
<site>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="U"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank></right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_1" position="0" strand="none" pvalue="2.94e-06" >
<left_flank></left_flank>
<site>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="U"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
</site>
<right_flank></right_flank>
</contributing_site>
</contributing_sites>
</motif>
<motif id="motif_2" name="GAAYUSGG" alt="MEME-2" width="8" sites="3" ic="14.2" re="14.7" llr="30" p_value="6.3e-006" e_value="9.3e-001" bayes_threshold="5.45943" elapsed_time="0.613784">
<scores>
<alphabet_matrix>
<alphabet_array>
<value letter_id="A">-823</value>
<value letter_id="C">-823</value>
<value letter_id="G">231</value>
<value letter_id="U">-823</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">156</value>
<value letter_id="C">-823</value>
<value letter_id="G">-823</value>
<value letter_id="U">-823</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">156</value>
<value letter_id="C">-823</value>
<value letter_id="G">-823</value>
<value letter_id="U">-823</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-823</value>
<value letter_id="C">61</value>
<value letter_id="G">-823</value>
<value letter_id="U">146</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-823</value>
<value letter_id="C">-823</value>
<value letter_id="G">-823</value>
<value letter_id="U">204</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-823</value>
<value letter_id="C">61</value>
<value letter_id="G">173</value>
<value letter_id="U">-823</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-823</value>
<value letter_id="C">-823</value>
<value letter_id="G">231</value>
<value letter_id="U">-823</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-823</value>
<value letter_id="C">-823</value>
<value letter_id="G">231</value>
<value letter_id="U">-823</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">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">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">0.333333</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.666667</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">0.333333</value>
<value letter_id="G">0.666667</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_matrix>
</probabilities>
<regular_expression>
GAA[UC]U[GC]GG
</regular_expression>
<contributing_sites>
<contributing_site sequence_id="sequence_30" position="1" strand="none" pvalue="1.10e-05" >
<left_flank>G</left_flank>
<site>
<letter_ref letter_id="G"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="U"/>
<letter_ref letter_id="U"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
</site>
<right_flank>T</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_12" position="2" strand="none" pvalue="2.09e-05" >
<left_flank>AA</left_flank>
<site>
<letter_ref letter_id="G"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="U"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
</site>
<right_flank></right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_15" position="2" strand="none" pvalue="3.29e-05" >
<left_flank>GT</left_flank>
<site>
<letter_ref letter_id="G"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="U"/>
<letter_ref letter_id="U"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="G"/>
</site>
<right_flank></right_flank>
</contributing_site>
</contributing_sites>
</motif>
<motif id="motif_3" name="UGCYYCA" alt="MEME-3" width="7" sites="3" ic="12.2" re="12.8" llr="27" p_value="5.1e-005" e_value="1.8e+001" bayes_threshold="5.07625" elapsed_time="0.749282">
<scores>
<alphabet_matrix>
<alphabet_array>
<value letter_id="A">-823</value>
<value letter_id="C">-823</value>
<value letter_id="G">-823</value>
<value letter_id="U">204</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-823</value>
<value letter_id="C">-823</value>
<value letter_id="G">231</value>
<value letter_id="U">-823</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-823</value>
<value letter_id="C">219</value>
<value letter_id="G">-823</value>
<value letter_id="U">-823</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-823</value>
<value letter_id="C">161</value>
<value letter_id="G">-823</value>
<value letter_id="U">46</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-823</value>
<value letter_id="C">161</value>
<value letter_id="G">-823</value>
<value letter_id="U">46</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-823</value>
<value letter_id="C">219</value>
<value letter_id="G">-823</value>
<value letter_id="U">-823</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">156</value>
<value letter_id="C">-823</value>
<value letter_id="G">-823</value>
<value letter_id="U">-823</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">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">0.000000</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">0.666667</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">0.666667</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">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_matrix>
</probabilities>
<regular_expression>
UGC[CU][CU]CA
</regular_expression>
<contributing_sites>
<contributing_site sequence_id="sequence_29" position="2" strand="none" pvalue="3.80e-05" >
<left_flank>GA</left_flank>
<site>
<letter_ref letter_id="U"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>A</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_21" position="2" strand="none" pvalue="1.22e-04" >
<left_flank>TC</left_flank>
<site>
<letter_ref letter_id="U"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="U"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>T</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_16" position="1" strand="none" pvalue="1.22e-04" >
<left_flank>G</left_flank>
<site>
<letter_ref letter_id="U"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="U"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>AC</right_flank>
</contributing_site>
</contributing_sites>
</motif>
<motif id="motif_4" name="CGAUAACG" alt="MEME-4" width="8" sites="2" ic="16.0" re="15.8" llr="22" p_value="4.8e-003" e_value="2.3e+001" bayes_threshold="5.59991" elapsed_time="0.890035">
<scores>
<alphabet_matrix>
<alphabet_array>
<value letter_id="A">-765</value>
<value letter_id="C">219</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">231</value>
<value letter_id="U">-765</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">156</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">-765</value>
<value letter_id="G">-765</value>
<value letter_id="U">204</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">156</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">156</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">219</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">231</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">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">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">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">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">0.000000</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_matrix>
</probabilities>
<regular_expression>
CGAUAACG
</regular_expression>
<contributing_sites>
<contributing_site sequence_id="sequence_27" position="1" strand="none" pvalue="1.82e-05" >
<left_flank>A</left_flank>
<site>
<letter_ref letter_id="C"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="U"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="G"/>
</site>
<right_flank>C</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_14" position="2" strand="none" pvalue="1.82e-05" >
<left_flank>AA</left_flank>
<site>
<letter_ref letter_id="C"/>
<letter_ref letter_id="G"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="U"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="G"/>
</site>
<right_flank></right_flank>
</contributing_site>
</contributing_sites>
</motif>
<motif id="motif_5" name="YCAMYYYA" alt="MEME-5" width="8" sites="6" ic="10.1" re="9.8" llr="41" p_value="6.5e-008" e_value="5.3e+001" bayes_threshold="4.42626" elapsed_time="1.049503">
<scores>
<alphabet_matrix>
<alphabet_array>
<value letter_id="A">-923</value>
<value letter_id="C">61</value>
<value letter_id="G">-923</value>
<value letter_id="U">146</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-923</value>
<value letter_id="C">219</value>
<value letter_id="G">-923</value>
<value letter_id="U">-923</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">156</value>
<value letter_id="C">-923</value>
<value letter_id="G">-923</value>
<value letter_id="U">-923</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">56</value>
<value letter_id="C">119</value>
<value letter_id="G">-923</value>
<value letter_id="U">-923</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-923</value>
<value letter_id="C">161</value>
<value letter_id="G">-923</value>
<value letter_id="U">46</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-102</value>
<value letter_id="C">119</value>
<value letter_id="G">-923</value>
<value letter_id="U">46</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">-923</value>
<value letter_id="C">61</value>
<value letter_id="G">-923</value>
<value letter_id="U">146</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">130</value>
<value letter_id="C">-39</value>
<value letter_id="G">-923</value>
<value letter_id="U">-923</value>
</alphabet_array>
</alphabet_matrix>
</scores>
<probabilities>
<alphabet_matrix>
<alphabet_array>
<value letter_id="A">0.000000</value>
<value letter_id="C">0.333333</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.666667</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">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">0.500000</value>
<value letter_id="C">0.500000</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">0.666667</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.333333</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.166667</value>
<value letter_id="C">0.500000</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">0.333333</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.666667</value>
</alphabet_array>
<alphabet_array>
<value letter_id="A">0.833333</value>
<value letter_id="C">0.166667</value>
<value letter_id="G">0.000000</value>
<value letter_id="U">0.000000</value>
</alphabet_array>
</alphabet_matrix>
</probabilities>
<regular_expression>
[UC]CA[AC][CU][CU][UC]A
</regular_expression>
<contributing_sites>
<contributing_site sequence_id="sequence_17" position="1" strand="none" pvalue="8.47e-05" >
<left_flank>A</left_flank>
<site>
<letter_ref letter_id="U"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>A</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_28" position="2" strand="none" pvalue="2.39e-04" >
<left_flank>GT</left_flank>
<site>
<letter_ref letter_id="U"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="U"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="U"/>
<letter_ref letter_id="A"/>
</site>
<right_flank></right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_23" position="0" strand="none" pvalue="2.39e-04" >
<left_flank></left_flank>
<site>
<letter_ref letter_id="U"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="U"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="U"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>AA</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_19" position="0" strand="none" pvalue="3.74e-04" >
<left_flank></left_flank>
<site>
<letter_ref letter_id="C"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="U"/>
<letter_ref letter_id="U"/>
<letter_ref letter_id="A"/>
</site>
<right_flank>CA</right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_31" position="2" strand="none" pvalue="4.49e-04" >
<left_flank>AA</left_flank>
<site>
<letter_ref letter_id="U"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="U"/>
<letter_ref letter_id="U"/>
<letter_ref letter_id="C"/>
</site>
<right_flank></right_flank>
</contributing_site>
<contributing_site sequence_id="sequence_24" position="2" strand="none" pvalue="1.10e-03" >
<left_flank>CT</left_flank>
<site>
<letter_ref letter_id="C"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="A"/>
<letter_ref letter_id="C"/>
<letter_ref letter_id="A"/>
</site>
<right_flank></right_flank>
</contributing_site>
</contributing_sites>
</motif>
</motifs>
<scanned_sites_summary p_thresh="0.0001">
<scanned_sites sequence_id="sequence_0" pvalue="4.43e-01" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_1" pvalue="1.25e-03" num_sites="1"><scanned_site motif_id="motif_1" strand="none" position="0" pvalue="2.94e-06"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_2" pvalue="6.61e-01" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_3" pvalue="7.60e-01" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_4" pvalue="2.01e-01" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_5" pvalue="1.25e-03" num_sites="1"><scanned_site motif_id="motif_1" strand="none" position="0" pvalue="2.94e-06"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_6" pvalue="1.25e-03" num_sites="1"><scanned_site motif_id="motif_1" strand="none" position="0" pvalue="2.94e-06"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_7" pvalue="7.71e-01" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_8" pvalue="1.96e-01" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_9" pvalue="8.12e-01" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_10" pvalue="6.97e-02" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_11" pvalue="7.94e-01" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_12" pvalue="4.38e-03" num_sites="1"><scanned_site motif_id="motif_2" strand="none" position="2" pvalue="2.09e-05"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_13" pvalue="6.14e-01" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_14" pvalue="1.25e-02" num_sites="1"><scanned_site motif_id="motif_4" strand="none" position="2" pvalue="1.82e-05"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_15" pvalue="2.63e-03" num_sites="1"><scanned_site motif_id="motif_2" strand="none" position="2" pvalue="3.29e-05"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_16" pvalue="3.37e-02" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_17" pvalue="5.84e-03" num_sites="1"><scanned_site motif_id="motif_5" strand="none" position="1" pvalue="8.47e-05"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_18" pvalue="4.47e-01" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_19" pvalue="7.56e-02" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_20" pvalue="6.46e-01" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_21" pvalue="2.19e-02" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_22" pvalue="5.54e-01" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_23" pvalue="6.86e-02" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_24" pvalue="1.91e-02" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_25" pvalue="2.66e-01" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_26" pvalue="8.14e-01" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_27" pvalue="4.42e-03" num_sites="1"><scanned_site motif_id="motif_4" strand="none" position="1" pvalue="1.82e-05"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_28" pvalue="9.47e-02" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_29" pvalue="1.81e-02" num_sites="1"><scanned_site motif_id="motif_3" strand="none" position="2" pvalue="3.80e-05"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_30" pvalue="1.03e-02" num_sites="1"><scanned_site motif_id="motif_2" strand="none" position="1" pvalue="1.10e-05"/>
</scanned_sites>
<scanned_sites sequence_id="sequence_31" pvalue="1.14e-01" num_sites="0"></scanned_sites>
<scanned_sites sequence_id="sequence_32" pvalue="9.44e-01" num_sites="0"></scanned_sites>
</scanned_sites_summary>
</MEME>
