Mercurial > repos > iuc > meme_fimo

comparison test-data/dreme_output_test1.xml @ 18:c5209f38700d draft default tip

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 03235f29be6368f58bc730a20d87a13cf215310f"
author iuc
date Sat, 09 Apr 2022 08:32:23 +0000
parents 0c5239d1aa65
children
comparison
equal deleted inserted replaced
17:d7a6ea1e3b9d 18:c5209f38700d
1 <dreme version="5.0.5" release="Mon Mar 18 20:12:19 2019 -0700">
2 <model>
3 <negatives name="shuffled positive sequences" count="1000" from="shuffled"/>
4 <alphabet name="RNA" like="rna">
5 <letter id="A" symbol="A" name="Adenine" colour="CC0000"/>
6 <letter id="C" symbol="C" name="Cytosine" colour="0000CC"/>
7 <letter id="G" symbol="G" name="Guanine" colour="FFB300"/>
8 <letter id="U" symbol="U" aliases="T" name="Uracil" colour="008000"/>
9 <letter id="N" symbol="N" aliases="X." equals="ACGU" name="Any base"/>
10 <letter id="V" symbol="V" equals="ACG" name="Not U"/>
11 <letter id="H" symbol="H" equals="ACU" name="Not G"/>
12 <letter id="D" symbol="D" equals="AGU" name="Not C"/>
13 <letter id="B" symbol="B" equals="CGU" name="Not A"/>
14 <letter id="M" symbol="M" equals="AC" name="Amino"/>
15 <letter id="R" symbol="R" equals="AG" name="Purine"/>
16 <letter id="W" symbol="W" equals="AU" name="Weak"/>
17 <letter id="S" symbol="S" equals="CG" name="Strong"/>
18 <letter id="Y" symbol="Y" equals="CU" name="Pyrimidine"/>
19 <letter id="K" symbol="K" equals="GU" name="Keto"/>
20 </alphabet>
21 <strands>none</strands>
22 <background A="0.221" C="0.245" G="0.221" U="0.312" from="dataset"/>
23 <stop evalue="0.05"/>
24 <ngen>100</ngen>
25 <add_pv_thresh>0.01</add_pv_thresh>
26 <seed>1</seed>
27 </model>
28 <motifs> 1 <motifs>
29 <motif id="m01" alt="DREME-1" seq="UUYUCY" length="6" nsites="459" p="387" n="210" pvalue="2.6e-018" evalue="1.2e-013" unerased_evalue="1.2e-013"> 2 <motif id="m01" alt="DREME-1" seq="UUYUCY" length="6" nsites="459" p="387" n="210" pvalue="2.6e-018" evalue="1.2e-013" unerased_evalue="1.2e-013">
30 <pos A="0.000000" C="0.000000" G="0.000000" U="1.000000"/> 3 <pos A="0.000000" C="0.000000" G="0.000000" U="1.000000"/>
31 <pos A="0.000000" C="0.000000" G="0.000000" U="1.000000"/> 4 <pos A="0.000000" C="0.000000" G="0.000000" U="1.000000"/>
32 <pos A="0.000000" C="0.294118" G="0.000000" U="0.705882"/> 5 <pos A="0.000000" C="0.294118" G="0.000000" U="0.705882"/>
67 <match seq="GCUGGA" p="33" n="14" pvalue="3.6e-003" evalue="1.5e+002"/> 40 <match seq="GCUGGA" p="33" n="14" pvalue="3.6e-003" evalue="1.5e+002"/>
68 <match seq="CCUGGA" p="32" n="15" pvalue="8.6e-003" evalue="3.5e+002"/> 41 <match seq="CCUGGA" p="32" n="15" pvalue="8.6e-003" evalue="3.5e+002"/>
69 <match seq="CAUGGA" p="29" n="13" pvalue="9.1e-003" evalue="3.7e+002"/> 42 <match seq="CAUGGA" p="29" n="13" pvalue="9.1e-003" evalue="3.7e+002"/>
70 </motif> 43 </motif>
71 </motifs> 44 </motifs>
72 </dreme>