Mercurial > repos > iuc > meme_psp_gen
diff test-data/dreme2.txt @ 1:793225b11202 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 42fa6e319cf1a97330818dc8c869871a32f0e7aa
| author | iuc |
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| date | Wed, 25 Apr 2018 12:13:08 -0400 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/dreme2.txt Wed Apr 25 12:13:08 2018 -0400 @@ -0,0 +1,68 @@ +# DREME 4.12.0 +# command: dreme -oc dreme_out_adv -rna -norc -p dreme_test_sites.fa -e 0.00001 -mink 4 -maxk 10 +# positives: 1000 from dreme_test_sites.fa (Thu Apr 19 19:09:45 CEST 2018) +# negatives: 1000 from shuffled positives +# host: ThinkPad-T450s +# when: Tue Apr 24 18:44:36 CEST 2018 + +MEME version 4.12.0 + +ALPHABET "RNA" RNA-LIKE +A "Adenine" CC0000 +C "Cytosine" 0000CC +G "Guanine" FFB300 +U "Uracil" 008000 +N "Any base" = ACGU +X = ACGU +. = ACGU +V "Not U" = ACG +H "Not G" = ACU +D "Not C" = AGU +B "Not A" = CGU +M "Amino" = AC +R "Purine" = AG +W "Weak" = AU +S "Strong" = CG +Y "Pyrimidine" = CU +K "Keto" = GU +T = U +END ALPHABET + +Background letter frequencies (from dataset): +A 0.221 C 0.245 G 0.221 U 0.312 + + +MOTIF UUYUCY DREME-1 + +# Word Pos Neg P-value E-value +# BEST UUYUCY 387 210 2.6e-018 3.3e-013 +# UUUUCC 147 75 1.8e-007 2.2e-002 +# UUUUCU 155 94 2.2e-005 2.8e+000 +# UUCUCU 94 51 1.3e-004 1.7e+001 +# UUCUCC 75 42 1.1e-003 1.4e+002 + +letter-probability matrix: alength= 4 w= 6 nsites= 459 E= 3.3e-013 +0.000000 0.000000 0.000000 1.000000 +0.000000 0.000000 0.000000 1.000000 +0.000000 0.294118 0.000000 0.705882 +0.000000 0.000000 0.000000 1.000000 +0.000000 1.000000 0.000000 0.000000 +0.000000 0.474946 0.000000 0.525054 + + +MOTIF YAGG DREME-2 + +# Word Pos Neg P-value E-value +# BEST YAGG 600 416 1.1e-016 1.4e-011 +# CAGG 441 304 1.5e-010 1.8e-005 +# UAGG 232 165 1.1e-004 1.3e+001 + +letter-probability matrix: alength= 4 w= 4 nsites= 793 E= 1.4e-011 +0.000000 0.692308 0.000000 0.307692 +1.000000 0.000000 0.000000 0.000000 +0.000000 0.000000 1.000000 0.000000 +0.000000 0.000000 1.000000 0.000000 + + +# Stopping reason: E-value threshold exceeded +# Running time: 18.17 seconds