Mercurial > repos > iuc > meme_meme
comparison test-data/dreme_output_test2.txt @ 13:57e5d9382f36 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit e2cf796f991cbe8c96e0cc5a0056b7255ac3ad6b
| author | iuc |
|---|---|
| date | Thu, 17 May 2018 14:10:48 -0400 |
| parents | |
| children | 3f0dd362b755 |
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| 12:5585f04eb317 | 13:57e5d9382f36 |
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| 1 # DREME 4.12.0 | |
| 2 # command: dreme -o ./dreme_test2_out -p dreme_test_sites.fa -norc -rna -s 1 -e 1e-05 -g 100 -mink 4 -maxk 10 | |
| 3 # positives: 1000 from dreme_test_sites.fa (Thu Apr 26 15:09:03 CEST 2018) | |
| 4 # negatives: 1000 from shuffled positives | |
| 5 # host: ThinkPad-T450s | |
| 6 # when: Thu May 03 13:22:11 CEST 2018 | |
| 7 | |
| 8 MEME version 4.12.0 | |
| 9 | |
| 10 ALPHABET "RNA" RNA-LIKE | |
| 11 A "Adenine" CC0000 | |
| 12 C "Cytosine" 0000CC | |
| 13 G "Guanine" FFB300 | |
| 14 U "Uracil" 008000 | |
| 15 N "Any base" = ACGU | |
| 16 X = ACGU | |
| 17 . = ACGU | |
| 18 V "Not U" = ACG | |
| 19 H "Not G" = ACU | |
| 20 D "Not C" = AGU | |
| 21 B "Not A" = CGU | |
| 22 M "Amino" = AC | |
| 23 R "Purine" = AG | |
| 24 W "Weak" = AU | |
| 25 S "Strong" = CG | |
| 26 Y "Pyrimidine" = CU | |
| 27 K "Keto" = GU | |
| 28 T = U | |
| 29 END ALPHABET | |
| 30 | |
| 31 Background letter frequencies (from dataset): | |
| 32 A 0.221 C 0.245 G 0.221 U 0.312 | |
| 33 | |
| 34 | |
| 35 MOTIF UUYUCY DREME-1 | |
| 36 | |
| 37 # Word Pos Neg P-value E-value | |
| 38 # BEST UUYUCY 387 210 2.6e-018 3.3e-013 | |
| 39 # UUUUCC 147 75 1.8e-007 2.2e-002 | |
| 40 # UUUUCU 155 94 2.2e-005 2.8e+000 | |
| 41 # UUCUCU 94 51 1.3e-004 1.7e+001 | |
| 42 # UUCUCC 75 42 1.1e-003 1.4e+002 | |
| 43 | |
| 44 letter-probability matrix: alength= 4 w= 6 nsites= 459 E= 3.3e-013 | |
| 45 0.000000 0.000000 0.000000 1.000000 | |
| 46 0.000000 0.000000 0.000000 1.000000 | |
| 47 0.000000 0.294118 0.000000 0.705882 | |
| 48 0.000000 0.000000 0.000000 1.000000 | |
| 49 0.000000 1.000000 0.000000 0.000000 | |
| 50 0.000000 0.474946 0.000000 0.525054 | |
| 51 | |
| 52 | |
| 53 MOTIF YAGG DREME-2 | |
| 54 | |
| 55 # Word Pos Neg P-value E-value | |
| 56 # BEST YAGG 600 416 1.1e-016 1.4e-011 | |
| 57 # CAGG 441 304 1.5e-010 1.8e-005 | |
| 58 # UAGG 232 165 1.1e-004 1.3e+001 | |
| 59 | |
| 60 letter-probability matrix: alength= 4 w= 4 nsites= 793 E= 1.4e-011 | |
| 61 0.000000 0.692308 0.000000 0.307692 | |
| 62 1.000000 0.000000 0.000000 0.000000 | |
| 63 0.000000 0.000000 1.000000 0.000000 | |
| 64 0.000000 0.000000 1.000000 0.000000 | |
| 65 | |
| 66 | |
| 67 # Stopping reason: E-value threshold exceeded | |
| 68 # Running time: 15.97 seconds |