# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/seqs-shuffled # positives: 502 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/seqs-centered (Sun Jan 19 01:26:05 PST 2020) # negatives: 502 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--HAA1/seqs-shuffled (Sun Jan 19 01:26:05 PST 2020) # host: kali.stanford.edu # when: Sun Jan 19 01:37:04 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 0.304 C 0.196 G 0.197 T 0.304 MOTIF GGWTCGA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GGWTCGA TCGAWCC 84 4 2.5e-022 7.4e-018 # GGTTCGA TCGAACC 68 3 2.7e-018 8.0e-014 # GGATCGA TCGATCC 23 1 1.2e-006 3.5e-002 letter-probability matrix: alength= 4 w= 7 nsites= 84 E= 7.4e-018 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.250000 0.000000 0.000000 0.750000 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 MOTIF CCWTAACC DREME-2 # Word RC Word Pos Neg P-value E-value # BEST CCWTAACC GGTTAWGG 26 0 1.1e-008 3.2e-004 # CCTTAACC GGTTAAGG 15 0 2.7e-005 8.1e-001 # CCATAACC GGTTATGG 11 0 4.6e-004 1.4e+001 letter-probability matrix: alength= 4 w= 8 nsites= 26 E= 3.2e-004 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.423077 0.000000 0.000000 0.576923 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 CCCATDC DREME-3 # Word RC Word Pos Neg P-value E-value # BEST CCCATDC GHATGGG 45 7 1.7e-008 4.9e-004 # CCCATAC GTATGGG 22 4 2.3e-004 6.7e+000 # CCCATGC GCATGGG 9 0 1.9e-003 5.5e+001 # CCCATTC GAATGGG 15 3 3.5e-003 1.0e+002 letter-probability matrix: alength= 4 w= 7 nsites= 46 E= 4.9e-004 0.000000 1.000000 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 0.478261 0.000000 0.195652 0.326087 0.000000 1.000000 0.000000 0.000000 MOTIF AARAAAAA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST AARAAAAA TTTTTYTT 76 26 9.3e-008 2.7e-003 # AAGAAAAA TTTTTCTT 38 9 8.1e-006 2.4e-001 # AAAAAAAA TTTTTTTT 48 17 4.6e-005 1.3e+000 letter-probability matrix: alength= 4 w= 8 nsites= 88 E= 2.7e-003 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.602273 0.000000 0.397727 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 MOTIF CMCCAG DREME-5 # Word RC Word Pos Neg P-value E-value # BEST CMCCAG CTGGKG 43 8 1.8e-007 5.3e-003 # CACCAG CTGGTG 20 3 2.1e-004 6.2e+000 # CCCCAG CTGGGG 23 5 3.9e-004 1.1e+001 letter-probability matrix: alength= 4 w= 6 nsites= 43 E= 5.3e-003 0.000000 1.000000 0.000000 0.000000 0.465116 0.534884 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 1.000000 0.000000 MOTIF ACCAYTA DREME-6 # Word RC Word Pos Neg P-value E-value # BEST ACCAYTA TARTGGT 46 10 3.2e-007 9.2e-003 # ACCACTA TAGTGGT 27 6 1.3e-004 3.8e+000 # ACCATTA TAATGGT 19 4 1.2e-003 3.4e+001 letter-probability matrix: alength= 4 w= 7 nsites= 46 E= 9.2e-003 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 0.586957 0.000000 0.413043 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CWTC DREME-7 # Word RC Word Pos Neg P-value E-value # BEST CWTC GAWG 419 354 7.1e-007 2.0e-002 # CATC GATG 287 223 3.4e-005 9.9e-001 # CTTC GAAG 301 256 2.6e-003 7.5e+001 letter-probability matrix: alength= 4 w= 4 nsites= 857 E= 2.0e-002 0.000000 1.000000 0.000000 0.000000 0.466744 0.000000 0.000000 0.533256 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 26.80 seconds