# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--STE12/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--STE12/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--STE12/seqs-shuffled # positives: 764 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--STE12/seqs-centered (Sat Jan 18 02:21:32 PST 2020) # negatives: 764 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--STE12/seqs-shuffled (Sat Jan 18 02:21:32 PST 2020) # host: kali.stanford.edu # when: Sat Jan 18 02:38:03 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 0.302 C 0.197 G 0.201 T 0.300 MOTIF GGTTCRA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GGTTCRA TYGAACC 98 13 1.1e-018 3.7e-014 # GGTTCGA TCGAACC 65 3 4.9e-017 1.7e-012 # GGTTCAA TTGAACC 35 10 1.0e-004 3.5e+000 letter-probability matrix: alength= 4 w= 7 nsites= 100 E= 3.7e-014 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 0.350000 0.000000 0.650000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AAGADA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST AAGADA THTCTT 305 184 2.0e-011 6.9e-007 # AAGAAA TTTCTT 189 111 3.2e-007 1.1e-002 # AAGATA TATCTT 75 40 4.5e-004 1.6e+001 # AAGAGA TCTCTT 84 49 9.7e-004 3.4e+001 letter-probability matrix: alength= 4 w= 6 nsites= 388 E= 6.9e-007 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.590206 0.000000 0.213918 0.195876 1.000000 0.000000 0.000000 0.000000 MOTIF AAAAATR DREME-3 # Word RC Word Pos Neg P-value E-value # BEST AAAAATR YATTTTT 147 71 1.6e-008 5.4e-004 # AAAAATA TATTTTT 92 44 1.0e-005 3.5e-001 # AAAAATG CATTTTT 64 28 7.1e-005 2.4e+000 letter-probability matrix: alength= 4 w= 7 nsites= 168 E= 5.4e-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 0.601190 0.000000 0.398810 0.000000 MOTIF CGGTADC DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CGGTADC GHTACCG 39 6 1.9e-007 6.5e-003 # CGGTATC GATACCG 12 0 2.3e-004 8.0e+000 # CGGTAAC GTTACCG 12 2 6.3e-003 2.2e+002 # CGGTAGC GCTACCG 15 4 9.2e-003 3.2e+002 letter-probability matrix: alength= 4 w= 7 nsites= 39 E= 6.5e-003 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 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.307692 0.000000 0.384615 0.307692 0.000000 1.000000 0.000000 0.000000 MOTIF ACCACTM DREME-5 # Word RC Word Pos Neg P-value E-value # BEST ACCACTM KAGTGGT 46 10 4.0e-007 1.4e-002 # ACCACTA TAGTGGT 30 8 2.0e-004 6.9e+000 # ACCACTC GAGTGGT 17 2 3.4e-004 1.2e+001 letter-probability matrix: alength= 4 w= 7 nsites= 47 E= 1.4e-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 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.638298 0.361702 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 29.41 seconds