# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--NOT3/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--NOT3/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--NOT3/seqs-shuffled # positives: 442 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--NOT3/seqs-centered (Sat Jan 18 00:40:25 PST 2020) # negatives: 442 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--NOT3/seqs-shuffled (Sat Jan 18 00:40:25 PST 2020) # host: kali.stanford.edu # when: Sat Jan 18 00:49:06 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 0.307 C 0.193 G 0.198 T 0.302 MOTIF GGTTCRA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GGTTCRA TYGAACC 76 8 1.4e-016 4.1e-012 # GGTTCGA TCGAACC 62 6 6.2e-014 1.7e-009 # GGTTCAA TTGAACC 17 2 3.2e-004 9.1e+000 letter-probability matrix: alength= 4 w= 7 nsites= 79 E= 4.1e-012 0.000000 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 1.000000 0.000000 0.000000 0.215190 0.000000 0.784810 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CCAACW DREME-2 # Word RC Word Pos Neg P-value E-value # BEST CCAACW WGTTGG 81 28 3.1e-008 8.7e-004 # CCAACT AGTTGG 45 12 3.4e-006 9.6e-002 # CCAACA TGTTGG 36 16 3.1e-003 8.6e+001 letter-probability matrix: alength= 4 w= 6 nsites= 83 E= 8.7e-004 0.000000 1.000000 0.000000 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 1.000000 0.000000 0.000000 0.433735 0.000000 0.000000 0.566265 MOTIF AAAAAADA DREME-3 # Word RC Word Pos Neg P-value E-value # BEST AAAAAADA THTTTTTT 75 27 2.5e-007 6.9e-003 # AAAAAATA TATTTTTT 30 6 2.5e-005 7.0e-001 # AAAAAAAA TTTTTTTT 37 16 2.1e-003 5.9e+001 # AAAAAAGA TCTTTTTT 23 8 4.7e-003 1.3e+002 letter-probability matrix: alength= 4 w= 8 nsites= 84 E= 6.9e-003 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 1.000000 0.000000 0.000000 0.000000 0.428571 0.000000 0.250000 0.321429 1.000000 0.000000 0.000000 0.000000 MOTIF AAGGCGM DREME-4 # Word RC Word Pos Neg P-value E-value # BEST AAGGCGM KCGCCTT 28 2 3.0e-007 8.2e-003 # AAGGCGA TCGCCTT 13 0 1.1e-004 3.1e+000 # AAGGCGC GCGCCTT 15 2 1.1e-003 3.0e+001 letter-probability matrix: alength= 4 w= 7 nsites= 28 E= 8.2e-003 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 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 1.000000 0.000000 0.464286 0.535714 0.000000 0.000000 MOTIF AGTGGTW DREME-5 # Word RC Word Pos Neg P-value E-value # BEST AGTGGTW WACCACT 51 13 3.9e-007 1.1e-002 # AGTGGTT AACCACT 33 8 3.9e-005 1.1e+000 # AGTGGTA TACCACT 21 5 1.1e-003 3.0e+001 letter-probability matrix: alength= 4 w= 7 nsites= 55 E= 1.1e-002 1.000000 0.000000 0.000000 0.000000 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 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.381818 0.000000 0.000000 0.618182 # Stopping reason: E-value threshold exceeded # Running time: 17.87 seconds