Mercurial > repos > iuc > meme_dreme
view test-data/meme_output_test1.txt @ 2:3e5c80594237 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 86a94f48321780dbe18ef5b099434c347ec2f4d0"
| author | iuc |
|---|---|
| date | Wed, 11 Dec 2019 18:04:55 -0500 |
| parents | cb8a2242bf03 |
| children | f33d77dcacce |
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******************************************************************************** MEME - Motif discovery tool MEME version 5.0.5 (Release date: Mon Mar 18 20:12:19 2019 -0700) REFERENCE TRAINING SET CONTROL SEQUENCES= --none-- ALPHABET= ACDEFGHIKLMNPQRSTVWY Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr21_19617074_19617124_ 1.0000 50 chr21_26934381_26934431_ 1.0000 50 COMMAND LINE SUMMARY model: mod= zoops nmotifs= 1 evt= inf objective function: em= E-value of product of p-values starts= E-value of product of p-values width: minw= 8 maxw= 50 nsites: minsites= 2 maxsites= 30 wnsites= 0.8 theta: spmap= pam spfuzz= 120 em: prior= megap b= 7500 maxiter= 50 distance= 1e-05 trim: wg= 11 ws= 1 endgaps= yes data: n= 1500 N= 30 sample: seed= 0 hsfrac= 0 searchsize= 1500 norand= no csites= 1000 Dirichlet mixture priors file: prior30.plib Letter frequencies in dataset: A 0.294 C 0.231 D 0 E 0 F 0 G 0.257 H 0 I 0 K 0 L 0 M 0 N 0 P 0 Q 0 R 0 S 0 T 0.217 V 0 W 0 Y 0 Background letter frequencies (from file dataset with add-one prior applied): A 0.291 C 0.229 D 0.000658 E 0.000658 F 0.000658 G 0.255 H 0.000658 I 0.000658 K 0.000658 L 0.000658 M 0.000658 N 0.000658 P 0.000658 Q 0.000658 R 0.000658 S 0.000658 T 0.215 V 0.000658 W 0.000658 Y 0.000658 Background model order: 0 MOTIF GGGGTATAAAA MEME-1 width = 11 sites = 25 llr = 239 E-value = 2.4e-011 -------------------------------------------------------------------------------- Motif GGGGTATAAAA MEME-1 Description Motif GGGGTATAAAA MEME-1 sites sorted by position p-value Sequence name Start P-value Site ------------- ----- --------- ----------- chr21_46046964_46047014_ 13 1.06e-06 AAGGCCAGGA GGGGTATAAAA GCCTGAGAGC Motif GGGGTATAAAA MEME-1 block diagrams SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr21_46046964_46047014_ 1.1e-06 12_[1]_27 Motif GGGGTATAAAA MEME-1 in BLOCKS format BL MOTIF GGGGTATAAAA width=11 seqs=25 chr21_46046964_46047014_ ( 13) GGGGTATAAAA 1 Motif GGGGTATAAAA MEME-1 position-specific scoring matrix log-odds matrix: alength= 20 w= 11 n= 1200 bayes= 5.33554 E= 2.4e-011 -32 -680 91 77 7 138 -20 55 64 107 11 150 142 72 87 396 -148 221 -140 -36 Motif GGGGTATAAAA MEME-1 position-specific probability matrix letter-probability matrix: alength= 20 w= 11 nsites= 25 E= 2.4e-011 0.240000 0.000000 0.000000 0.000000 0.000000 0.680000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.080000 0.000000 0.000000 0.000000 Motif GGGGTATAAAA MEME-1 regular expression [GA][GA][GC][GA]TATA[AT]AA SUMMARY OF MOTIFS Combined block diagrams: non-overlapping sites with p-value < 0.0001 SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr21_19617074_19617124_ 1.22e-03 39_[1(3.06e-05)] Stopped because requested number of motifs (1) found.