comparison test-data/dreme_output_test2.xml @ 6:5f95d385a33c draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 03235f29be6368f58bc730a20d87a13cf215310f"
author iuc
date Sat, 09 Apr 2022 08:33:29 +0000
parents ff2f53a32d0e
children
comparison
equal deleted inserted replaced
5:164067a66a5c 6:5f95d385a33c
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="1e-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="3.3e-013" unerased_evalue="3.3e-013"> 2 <motif id="m01" alt="DREME-1" seq="UUYUCY" length="6" nsites="459" p="387" n="210" pvalue="2.6e-018" evalue="3.3e-013" unerased_evalue="3.3e-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"/>
45 <pos A="0.000000" C="0.000000" G="1.000000" U="0.000000"/> 18 <pos A="0.000000" C="0.000000" G="1.000000" U="0.000000"/>
46 <match seq="CAGG" p="441" n="304" pvalue="1.5e-010" evalue="1.8e-005"/> 19 <match seq="CAGG" p="441" n="304" pvalue="1.5e-010" evalue="1.8e-005"/>
47 <match seq="UAGG" p="232" n="165" pvalue="1.1e-004" evalue="1.3e+001"/> 20 <match seq="UAGG" p="232" n="165" pvalue="1.1e-004" evalue="1.3e+001"/>
48 </motif> 21 </motif>
49 </motifs> 22 </motifs>
50 </dreme>