Mercurial > repos > iuc > meme_fimo
comparison test-data/dreme_output_test1.txt @ 15:0c5239d1aa65 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 86a94f48321780dbe18ef5b099434c347ec2f4d0"
| author | iuc |
|---|---|
| date | Wed, 11 Dec 2019 18:05:35 -0500 |
| parents | 4eb02864e5df |
| children | c5209f38700d |
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| 14:c1a9a297ba8b | 15:0c5239d1aa65 |
|---|---|
| 1 # DREME 4.12.0 | 1 # DREME 5.0.5 |
| 2 # command: dreme -o ./dreme_test1_out -p dreme_test_sites.fa -norc -rna -s 1 | |
| 3 # positives: 1000 from dreme_test_sites.fa (Thu Apr 26 15:09:03 CEST 2018) | |
| 4 # negatives: 1000 from shuffled positives | 2 # negatives: 1000 from shuffled positives |
| 5 # host: ThinkPad-T450s | |
| 6 # when: Thu May 03 13:22:29 CEST 2018 | |
| 7 | 3 |
| 8 MEME version 4.12.0 | 4 MEME version 5.0.5 |
| 9 | |
| 10 ALPHABET "RNA" RNA-LIKE | 5 ALPHABET "RNA" RNA-LIKE |
| 11 A "Adenine" CC0000 | 6 A "Adenine" CC0000 |
| 12 C "Cytosine" 0000CC | 7 C "Cytosine" 0000CC |
| 13 G "Guanine" FFB300 | 8 G "Guanine" FFB300 |
| 14 U "Uracil" 008000 | 9 U "Uracil" 008000 |
| 25 S "Strong" = CG | 20 S "Strong" = CG |
| 26 Y "Pyrimidine" = CU | 21 Y "Pyrimidine" = CU |
| 27 K "Keto" = GU | 22 K "Keto" = GU |
| 28 T = U | 23 T = U |
| 29 END ALPHABET | 24 END ALPHABET |
| 30 | |
| 31 Background letter frequencies (from dataset): | 25 Background letter frequencies (from dataset): |
| 32 A 0.221 C 0.245 G 0.221 U 0.312 | 26 A 0.221 C 0.245 G 0.221 U 0.312 |
| 33 | |
| 34 | |
| 35 MOTIF UUYUCY DREME-1 | 27 MOTIF UUYUCY DREME-1 |
| 36 | |
| 37 # Word Pos Neg P-value E-value | 28 # Word Pos Neg P-value E-value |
| 38 # BEST UUYUCY 387 210 2.6e-018 1.2e-013 | 29 # BEST UUYUCY 387 210 2.6e-018 1.2e-013 |
| 39 # UUUUCC 147 75 1.8e-007 8.1e-003 | 30 # UUUUCC 147 75 1.8e-007 8.1e-003 |
| 40 # UUUUCU 155 94 2.2e-005 1.0e+000 | 31 # UUUUCU 155 94 2.2e-005 1.0e+000 |
| 41 # UUCUCU 94 51 1.3e-004 6.1e+000 | 32 # UUCUCU 94 51 1.3e-004 6.1e+000 |
| 42 # UUCUCC 75 42 1.1e-003 5.0e+001 | 33 # UUCUCC 75 42 1.1e-003 5.0e+001 |
| 43 | |
| 44 letter-probability matrix: alength= 4 w= 6 nsites= 459 E= 1.2e-013 | 34 letter-probability matrix: alength= 4 w= 6 nsites= 459 E= 1.2e-013 |
| 45 0.000000 0.000000 0.000000 1.000000 | 35 0.000000 0.000000 0.000000 1.000000 |
| 46 0.000000 0.000000 0.000000 1.000000 | 36 0.000000 0.000000 0.000000 1.000000 |
| 47 0.000000 0.294118 0.000000 0.705882 | 37 0.000000 0.294118 0.000000 0.705882 |
| 48 0.000000 0.000000 0.000000 1.000000 | 38 0.000000 0.000000 0.000000 1.000000 |
| 49 0.000000 1.000000 0.000000 0.000000 | 39 0.000000 1.000000 0.000000 0.000000 |
| 50 0.000000 0.474946 0.000000 0.525054 | 40 0.000000 0.474946 0.000000 0.525054 |
| 51 | |
| 52 | |
| 53 MOTIF YAGG DREME-2 | 41 MOTIF YAGG DREME-2 |
| 54 | |
| 55 # Word Pos Neg P-value E-value | 42 # Word Pos Neg P-value E-value |
| 56 # BEST YAGG 600 416 1.1e-016 5.1e-012 | 43 # BEST YAGG 600 416 1.1e-016 5.1e-012 |
| 57 # CAGG 441 304 1.5e-010 6.6e-006 | 44 # CAGG 441 304 1.5e-010 6.6e-006 |
| 58 # UAGG 232 165 1.1e-004 4.7e+000 | 45 # UAGG 232 165 1.1e-004 4.7e+000 |
| 59 | |
| 60 letter-probability matrix: alength= 4 w= 4 nsites= 793 E= 5.1e-012 | 46 letter-probability matrix: alength= 4 w= 4 nsites= 793 E= 5.1e-012 |
| 61 0.000000 0.692308 0.000000 0.307692 | 47 0.000000 0.692308 0.000000 0.307692 |
| 62 1.000000 0.000000 0.000000 0.000000 | 48 1.000000 0.000000 0.000000 0.000000 |
| 63 0.000000 0.000000 1.000000 0.000000 | 49 0.000000 0.000000 1.000000 0.000000 |
| 64 0.000000 0.000000 1.000000 0.000000 | 50 0.000000 0.000000 1.000000 0.000000 |
| 65 | |
| 66 | |
| 67 MOTIF GAAGAW DREME-3 | 51 MOTIF GAAGAW DREME-3 |
| 68 | |
| 69 # Word Pos Neg P-value E-value | 52 # Word Pos Neg P-value E-value |
| 70 # BEST GAAGAW 81 22 8.2e-010 3.4e-005 | 53 # BEST GAAGAW 81 22 8.2e-010 3.4e-005 |
| 71 # GAAGAU 45 7 2.4e-008 9.9e-004 | 54 # GAAGAU 45 7 2.4e-008 9.9e-004 |
| 72 # GAAGAA 40 16 7.9e-004 3.3e+001 | 55 # GAAGAA 40 16 7.9e-004 3.3e+001 |
| 73 | |
| 74 letter-probability matrix: alength= 4 w= 6 nsites= 89 E= 3.4e-005 | 56 letter-probability matrix: alength= 4 w= 6 nsites= 89 E= 3.4e-005 |
| 75 0.000000 0.000000 1.000000 0.000000 | 57 0.000000 0.000000 1.000000 0.000000 |
| 76 1.000000 0.000000 0.000000 0.000000 | 58 1.000000 0.000000 0.000000 0.000000 |
| 77 1.000000 0.000000 0.000000 0.000000 | 59 1.000000 0.000000 0.000000 0.000000 |
| 78 0.000000 0.000000 1.000000 0.000000 | 60 0.000000 0.000000 1.000000 0.000000 |
| 79 1.000000 0.000000 0.000000 0.000000 | 61 1.000000 0.000000 0.000000 0.000000 |
| 80 0.494382 0.000000 0.000000 0.505618 | 62 0.494382 0.000000 0.000000 0.505618 |
| 81 | |
| 82 | |
| 83 MOTIF SMUGGA DREME-4 | 63 MOTIF SMUGGA DREME-4 |
| 84 | |
| 85 # Word Pos Neg P-value E-value | 64 # Word Pos Neg P-value E-value |
| 86 # BEST SMUGGA 110 47 9.1e-008 3.7e-003 | 65 # BEST SMUGGA 110 47 9.1e-008 3.7e-003 |
| 87 # GAUGGA 22 6 1.7e-003 7.1e+001 | 66 # GAUGGA 22 6 1.7e-003 7.1e+001 |
| 88 # GCUGGA 33 14 3.6e-003 1.5e+002 | 67 # GCUGGA 33 14 3.6e-003 1.5e+002 |
| 89 # CCUGGA 32 15 8.6e-003 3.5e+002 | 68 # CCUGGA 32 15 8.6e-003 3.5e+002 |
| 90 # CAUGGA 29 13 9.1e-003 3.7e+002 | 69 # CAUGGA 29 13 9.1e-003 3.7e+002 |
| 91 | |
| 92 letter-probability matrix: alength= 4 w= 6 nsites= 119 E= 3.7e-003 | 70 letter-probability matrix: alength= 4 w= 6 nsites= 119 E= 3.7e-003 |
| 93 0.000000 0.529412 0.470588 0.000000 | 71 0.000000 0.529412 0.470588 0.000000 |
| 94 0.428571 0.571429 0.000000 0.000000 | 72 0.428571 0.571429 0.000000 0.000000 |
| 95 0.000000 0.000000 0.000000 1.000000 | 73 0.000000 0.000000 0.000000 1.000000 |
| 96 0.000000 0.000000 1.000000 0.000000 | 74 0.000000 0.000000 1.000000 0.000000 |
| 97 0.000000 0.000000 1.000000 0.000000 | 75 0.000000 0.000000 1.000000 0.000000 |
| 98 1.000000 0.000000 0.000000 0.000000 | 76 1.000000 0.000000 0.000000 0.000000 |
| 99 | |
| 100 | |
| 101 # Stopping reason: E-value threshold exceeded | 77 # Stopping reason: E-value threshold exceeded |
| 102 # Running time: 13.95 seconds |