<dreme version="4.10.2" release="Thu Sep 03 15:00:54 2015 -0700">
  <model>
    <command_line>dreme -rna -oc motif.Puf3p -p Puf3p.s</command_line>
    <positives name="Puf3p" count="1236" file="Puf3p.s" last_mod_date="Wed Oct 28 11:24:33 AEST 2015" />
    <negatives name="shuffled positive sequences" count="1236" from="shuffled"/>
    <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>
    <strands>none</strands>
    <background A="0.333" C="0.171" G="0.145" U="0.352" from="dataset"/>
    <stop evalue="0.05"/>
    <ngen>100</ngen>
    <add_pv_thresh>0.01</add_pv_thresh>
    <seed>1</seed>
    <host>IMB12-010665</host>
    <when>Wed Oct 28 11:37:12 AEST 2015</when>
  </model>
  <motifs>
    <motif id="m01" seq="UGUAHAUA" length="8" nsites="337" p="316" n="32" pvalue="2.1e-068" evalue="1.2e-063" unerased_evalue="1.2e-063">
      <pos A="0.000000" C="0.000000" G="0.000000" U="1.000000"/>
      <pos A="0.000000" C="0.000000" G="1.000000" U="0.000000"/>
      <pos A="0.000000" C="0.000000" G="0.000000" U="1.000000"/>
      <pos A="1.000000" C="0.000000" G="0.000000" U="0.000000"/>
      <pos A="0.480712" C="0.139466" G="0.000000" U="0.379822"/>
      <pos A="1.000000" C="0.000000" G="0.000000" U="0.000000"/>
      <pos A="0.000000" C="0.000000" G="0.000000" U="1.000000"/>
      <pos A="1.000000" C="0.000000" G="0.000000" U="0.000000"/>
      <match seq="UGUAAAUA" p="161" n="13" pvalue="5.4e-036" evalue="3.2e-031"/>
      <match seq="UGUAUAUA" p="124" n="16" pvalue="2.9e-023" evalue="1.7e-018"/>
      <match seq="UGUACAUA" p="47" n="3" pvalue="1.3e-011" evalue="7.5e-007"/>
    </motif>
    <motif id="m02" seq="YAUAUAWA" length="8" nsites="261" p="207" n="69" pvalue="2.3e-019" evalue="1.3e-014" unerased_evalue="1.7e-020">
      <pos A="0.000000" C="0.295019" G="0.000000" U="0.704981"/>
      <pos A="1.000000" C="0.000000" G="0.000000" U="0.000000"/>
      <pos A="0.000000" C="0.000000" G="0.000000" U="1.000000"/>
      <pos A="1.000000" C="0.000000" G="0.000000" U="0.000000"/>
      <pos A="0.000000" C="0.000000" G="0.000000" U="1.000000"/>
      <pos A="1.000000" C="0.000000" G="0.000000" U="0.000000"/>
      <pos A="0.233716" C="0.000000" G="0.000000" U="0.766284"/>
      <pos A="1.000000" C="0.000000" G="0.000000" U="0.000000"/>
      <match seq="UAUAUAUA" p="128" n="37" pvalue="5.1e-014" evalue="3.0e-009"/>
      <match seq="CAUAUAUA" p="52" n="12" pvalue="1.6e-007" evalue="9.7e-003"/>
      <match seq="UAUAUAAA" p="47" n="23" pvalue="2.5e-003" evalue="1.5e+002"/>
      <match seq="CAUAUAAA" p="23" n="9" pvalue="9.6e-003" evalue="5.7e+002"/>
    </motif>
    <motif id="m03" seq="GAARR" length="5" nsites="759" p="549" n="365" pvalue="1.1e-014" evalue="6.2e-010" unerased_evalue="6.2e-010">
      <pos A="0.000000" C="0.000000" G="1.000000" U="0.000000"/>
      <pos A="1.000000" C="0.000000" G="0.000000" U="0.000000"/>
      <pos A="1.000000" C="0.000000" G="0.000000" U="0.000000"/>
      <pos A="0.635046" C="0.000000" G="0.364954" U="0.000000"/>
      <pos A="0.683794" C="0.000000" G="0.316206" U="0.000000"/>
      <match seq="GAAGA" p="172" n="93" pvalue="1.7e-007" evalue="9.8e-003"/>
      <match seq="GAAAA" p="290" n="193" pvalue="5.2e-007" evalue="3.1e-002"/>
      <match seq="GAAGG" p="88" n="43" pvalue="3.4e-005" evalue="2.0e+000"/>
      <match seq="GAAAG" p="149" n="111" pvalue="7.6e-003" evalue="4.5e+002"/>
    </motif>
    <motif id="m04" seq="YUYUUC" length="6" nsites="500" p="381" n="237" pvalue="1.3e-011" evalue="7.5e-007" unerased_evalue="3.1e-007">
      <pos A="0.000000" C="0.310000" G="0.000000" U="0.690000"/>
      <pos A="0.000000" C="0.000000" G="0.000000" U="1.000000"/>
      <pos A="0.000000" C="0.338000" G="0.000000" U="0.662000"/>
      <pos A="0.000000" C="0.000000" G="0.000000" U="1.000000"/>
      <pos A="0.000000" C="0.000000" G="0.000000" U="1.000000"/>
      <pos A="0.000000" C="1.000000" G="0.000000" U="0.000000"/>
      <match seq="CUCUUC" p="65" n="22" pvalue="1.5e-006" evalue="8.4e-002"/>
      <match seq="UUUUUC" p="213" n="140" pvalue="1.7e-005" evalue="9.4e-001"/>
      <match seq="UUCUUC" p="106" n="68" pvalue="1.8e-003" evalue="9.9e+001"/>
      <match seq="CUUUUC" p="88" n="56" pvalue="3.8e-003" evalue="2.1e+002"/>
    </motif>
    <motif id="m05" seq="GSUGSU" length="6" nsites="104" p="90" n="34" pvalue="1.3e-007" evalue="7.3e-003" unerased_evalue="4.1e-003">
      <pos A="0.000000" C="0.000000" G="1.000000" U="0.000000"/>
      <pos A="0.000000" C="0.548077" G="0.451923" U="0.000000"/>
      <pos A="0.000000" C="0.000000" G="0.000000" U="1.000000"/>
      <pos A="0.000000" C="0.000000" G="1.000000" U="0.000000"/>
      <pos A="0.000000" C="0.480769" G="0.519231" U="0.000000"/>
      <pos A="0.000000" C="0.000000" G="0.000000" U="1.000000"/>
      <match seq="GGUGGU" p="24" n="4" pvalue="8.3e-005" evalue="4.6e+000"/>
      <match seq="GCUGGU" p="33" n="12" pvalue="1.1e-003" evalue="6.3e+001"/>
      <match seq="GCUGCU" p="25" n="9" pvalue="4.3e-003" evalue="2.4e+002"/>
      <match seq="GGUGCU" p="25" n="10" pvalue="8.0e-003" evalue="4.4e+002"/>
    </motif>
    <motif id="m06" seq="YAUGUA" length="6" nsites="181" p="165" n="89" pvalue="2.9e-007" evalue="1.6e-002" unerased_evalue="1.5e-014">
      <pos A="0.000000" C="0.309392" G="0.000000" U="0.690608"/>
      <pos A="1.000000" C="0.000000" G="0.000000" U="0.000000"/>
      <pos A="0.000000" C="0.000000" G="0.000000" U="1.000000"/>
      <pos A="0.000000" C="0.000000" G="1.000000" U="0.000000"/>
      <pos A="0.000000" C="0.000000" G="0.000000" U="1.000000"/>
      <pos A="1.000000" C="0.000000" G="0.000000" U="0.000000"/>
      <match seq="UAUGUA" p="118" n="61" pvalue="6.0e-006" evalue="3.3e-001"/>
      <match seq="CAUGUA" p="56" n="30" pvalue="2.9e-003" evalue="1.6e+002"/>
    </motif>
  </motifs>
  <run_time cpu="15.21" real="15.23" stop="evalue"/>
</dreme>
