Mercurial > repos > iuc > meme_psp_gen
view 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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# 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