# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--MIG1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--MIG1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--MIG1/seqs-shuffled # positives: 870 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--MIG1/seqs-centered (Sat Jan 18 11:57:48 PST 2020) # negatives: 870 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--MIG1/seqs-shuffled (Sat Jan 18 11:57:48 PST 2020) # host: kali.stanford.edu # when: Sat Jan 18 12:15:47 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 0.298 C 0.202 G 0.205 T 0.295 MOTIF TCGAACCB DREME-1 # Word RC Word Pos Neg P-value E-value # BEST TCGAACCB VGGTTCGA 67 4 1.4e-016 4.9e-012 # TCGAACCG CGGTTCGA 23 0 1.0e-007 3.8e-003 # TCGAACCC GGGTTCGA 27 3 3.6e-006 1.3e-001 # TCGAACCT AGGTTCGA 17 1 6.8e-005 2.5e+000 letter-probability matrix: alength= 4 w= 8 nsites= 67 E= 4.9e-012 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 0.402985 0.343284 0.253731 MOTIF AAAAAAAK DREME-2 # Word RC Word Pos Neg P-value E-value # BEST AAAAAAAK MTTTTTTT 121 45 2.5e-010 9.1e-006 # AAAAAAAT ATTTTTTT 79 26 4.6e-008 1.7e-003 # AAAAAAAG CTTTTTTT 45 19 6.4e-004 2.3e+001 letter-probability matrix: alength= 4 w= 8 nsites= 128 E= 9.1e-006 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.351562 0.648438 MOTIF ACCACY DREME-3 # Word RC Word Pos Neg P-value E-value # BEST ACCACY RGTGGT 133 53 2.6e-010 9.3e-006 # ACCACT AGTGGT 79 27 9.5e-008 3.4e-003 # ACCACC GGTGGT 60 27 1.9e-004 6.8e+000 letter-probability matrix: alength= 4 w= 6 nsites= 157 E= 9.3e-006 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 0.433121 0.000000 0.566879 MOTIF GAAGAW DREME-4 # Word RC Word Pos Neg P-value E-value # BEST GAAGAW WTCTTC 205 114 1.0e-008 3.7e-004 # GAAGAT ATCTTC 95 38 1.5e-007 5.4e-003 # GAAGAA TTCTTC 131 80 1.1e-004 4.1e+000 letter-probability matrix: alength= 4 w= 6 nsites= 244 E= 3.7e-004 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 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.594262 0.000000 0.000000 0.405738 MOTIF CGGTASC DREME-5 # Word RC Word Pos Neg P-value E-value # BEST CGGTASC GSTACCG 31 2 5.2e-008 1.8e-003 # CGGTAGC GCTACCG 20 1 9.5e-006 3.4e-001 # CGGTACC GGTACCG 11 1 3.1e-003 1.1e+002 letter-probability matrix: alength= 4 w= 7 nsites= 31 E= 1.8e-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 0.000000 0.354839 0.645161 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF TGGGCSAA DREME-6 # Word RC Word Pos Neg P-value E-value # BEST TGGGCSAA TTSGCCCA 20 0 8.5e-007 3.1e-002 # TGGGCGAA TTCGCCCA 12 0 2.3e-004 8.4e+000 # TGGGCCAA TTGGCCCA 8 0 3.8e-003 1.4e+002 letter-probability matrix: alength= 4 w= 8 nsites= 20 E= 3.1e-002 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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.400000 0.600000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 38.58 seconds