Mercurial > repos > iuc > meme_psp_gen

comparison test-data/dreme_output_test1.txt @ 3:ff2f53a32d0e draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 86a94f48321780dbe18ef5b099434c347ec2f4d0"
author iuc
date Wed, 11 Dec 2019 18:04:34 -0500
parents b48e673af4e8
children 5f95d385a33c
comparison
equal deleted inserted replaced
2:b48e673af4e8 3:ff2f53a32d0e
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