comparison test-data/dreme_output_test2.txt @ 1:cb8a2242bf03 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit e2cf796f991cbe8c96e0cc5a0056b7255ac3ad6b
author iuc
date Thu, 17 May 2018 14:11:27 -0400
parents
children 3e5c80594237
comparison
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0:b386032d758d 1:cb8a2242bf03
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