Mercurial > repos > iuc > meme_dreme
comparison test-data/dreme_output_test1.txt @ 2:3e5c80594237 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 86a94f48321780dbe18ef5b099434c347ec2f4d0"
author | iuc |
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date | Wed, 11 Dec 2019 18:04:55 -0500 |
parents | cb8a2242bf03 |
children | f33d77dcacce |
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1:cb8a2242bf03 | 2:3e5c80594237 |
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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 |