# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SWI1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SWI1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SWI1/seqs-shuffled # positives: 557 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SWI1/seqs-centered (Sun Jan 19 08:47:47 PST 2020) # negatives: 557 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--SWI1/seqs-shuffled (Sun Jan 19 08:47:47 PST 2020) # host: kali.stanford.edu # when: Sun Jan 19 09:02:16 PST 2020 MEME version 4.12.0 ALPHABET "DNA" DNA-LIKE A "Adenine" CC0000 ~ T "Thymine" 008000 C "Cytosine" 0000CC ~ G "Guanine" FFB300 N "Any base" = ACGT X = ACGT . = ACGT V "Not T" = ACG H "Not G" = ACT D "Not C" = AGT B "Not A" = CGT M "Amino" = AC R "Purine" = AG W "Weak" = AT S "Strong" = CG Y "Pyrimidine" = CT K "Keto" = GT U = T END ALPHABET strands: + - Background letter frequencies (from dataset): A 0.312 C 0.194 G 0.190 T 0.304 MOTIF TCGAACCB DREME-1 # Word RC Word Pos Neg P-value E-value # BEST TCGAACCB VGGTTCGA 45 1 2.8e-013 8.5e-009 # TCGAACCC GGGTTCGA 22 1 2.4e-006 7.3e-002 # TCGAACCG CGGTTCGA 14 0 5.6e-005 1.7e+000 # TCGAACCT AGGTTCGA 9 0 1.9e-003 5.9e+001 letter-probability matrix: alength= 4 w= 8 nsites= 45 E= 8.5e-009 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.488889 0.311111 0.200000 MOTIF CCWTAACC DREME-2 # Word RC Word Pos Neg P-value E-value # BEST CCWTAACC GGTTAWGG 32 0 1.5e-010 4.5e-006 # CCTTAACC GGTTAAGG 20 0 8.0e-007 2.5e-002 # CCATAACC GGTTATGG 12 0 2.3e-004 7.1e+000 letter-probability matrix: alength= 4 w= 8 nsites= 32 E= 4.5e-006 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.375000 0.000000 0.000000 0.625000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF ACTYGGC DREME-3 # Word RC Word Pos Neg P-value E-value # BEST ACTYGGC GCCRAGT 26 0 1.1e-008 3.4e-004 # ACTTGGC GCCAAGT 19 0 1.6e-006 5.0e-002 # ACTCGGC GCCGAGT 11 0 4.6e-004 1.4e+001 letter-probability matrix: alength= 4 w= 7 nsites= 26 E= 3.4e-004 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.384615 0.000000 0.615385 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF AAAAATAW DREME-4 # Word RC Word Pos Neg P-value E-value # BEST AAAAATAW WTATTTTT 61 15 1.8e-008 5.5e-004 # AAAAATAT ATATTTTT 23 3 3.7e-005 1.1e+000 # AAAAATAA TTATTTTT 38 12 1.1e-004 3.4e+000 letter-probability matrix: alength= 4 w= 8 nsites= 64 E= 5.5e-004 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.625000 0.000000 0.000000 0.375000 MOTIF GCKCTACC DREME-5 # Word RC Word Pos Neg P-value E-value # BEST GCKCTACC GGTAGMGC 23 0 9.5e-008 2.9e-003 # GCGCTACC GGTAGCGC 14 0 5.6e-005 1.7e+000 # GCTCTACC GGTAGAGC 9 0 1.9e-003 5.8e+001 letter-probability matrix: alength= 4 w= 8 nsites= 23 E= 2.9e-003 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.608696 0.391304 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF GCGCAAK DREME-6 # Word RC Word Pos Neg P-value E-value # BEST GCGCAAK MTTGCGC 28 2 3.2e-007 9.8e-003 # GCGCAAT ATTGCGC 14 0 5.6e-005 1.7e+000 # GCGCAAG CTTGCGC 15 2 1.1e-003 3.4e+001 letter-probability matrix: alength= 4 w= 7 nsites= 28 E= 9.8e-003 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.500000 MOTIF ACCATCM DREME-7 # Word RC Word Pos Neg P-value E-value # BEST ACCATCM KGATGGT 27 2 6.2e-007 1.9e-002 # ACCATCA TGATGGT 15 0 2.8e-005 8.5e-001 # ACCATCC GGATGGT 12 2 6.2e-003 1.9e+002 letter-probability matrix: alength= 4 w= 7 nsites= 28 E= 1.9e-002 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.535714 0.464286 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 29.46 seconds