# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--AFT2/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--AFT2/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--AFT2/seqs-shuffled # positives: 486 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--AFT2/seqs-centered (Sat Jan 18 09:02:18 PST 2020) # negatives: 486 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--AFT2/seqs-shuffled (Sat Jan 18 09:02:18 PST 2020) # host: kali.stanford.edu # when: Sat Jan 18 09:12:42 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 0.299 C 0.200 G 0.199 T 0.302 MOTIF GGTTCRA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GGTTCRA TYGAACC 89 7 3.6e-021 1.1e-016 # GGTTCGA TCGAACC 68 3 2.5e-018 7.4e-014 # GGTTCAA TTGAACC 22 4 2.3e-004 6.7e+000 letter-probability matrix: alength= 4 w= 7 nsites= 90 E= 1.1e-016 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 0.244444 0.000000 0.755556 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AAAAAAAD DREME-2 # Word RC Word Pos Neg P-value E-value # BEST AAAAAAAD HTTTTTTT 96 31 2.6e-010 7.7e-006 # AAAAAAAA TTTTTTTT 56 14 8.2e-008 2.4e-003 # AAAAAAAT ATTTTTTT 55 21 3.2e-005 9.3e-001 # AAAAAAAG CTTTTTTT 31 7 4.3e-005 1.3e+000 letter-probability matrix: alength= 4 w= 8 nsites= 107 E= 7.7e-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 0.364486 0.000000 0.233645 0.401869 MOTIF ACCACTM DREME-3 # Word RC Word Pos Neg P-value E-value # BEST ACCACTM KAGTGGT 50 8 3.0e-009 8.9e-005 # ACCACTA TAGTGGT 28 5 2.5e-005 7.4e-001 # ACCACTC GAGTGGT 23 3 3.6e-005 1.0e+000 letter-probability matrix: alength= 4 w= 7 nsites= 51 E= 8.9e-005 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 0.549020 0.450980 0.000000 0.000000 MOTIF CGCCTTA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CGCCTTA TAAGGCG 29 1 1.9e-008 5.6e-004 # CGCCTTA TAAGGCG 29 1 1.9e-008 5.6e-004 letter-probability matrix: alength= 4 w= 7 nsites= 29 E= 5.6e-004 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 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ACCCATRC DREME-5 # Word RC Word Pos Neg P-value E-value # BEST ACCCATRC GYATGGGT 24 0 4.5e-008 1.3e-003 # ACCCATAC GTATGGGT 15 0 2.7e-005 8.0e-001 # ACCCATGC GCATGGGT 10 0 9.3e-004 2.7e+001 letter-probability matrix: alength= 4 w= 8 nsites= 26 E= 1.3e-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 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.615385 0.000000 0.384615 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF KCACGGA DREME-6 # Word RC Word Pos Neg P-value E-value # BEST KCACGGA TCCGTGM 27 2 5.9e-007 1.7e-002 # TCACGGA TCCGTGA 17 1 6.4e-005 1.9e+000 # GCACGGA TCCGTGC 10 1 5.6e-003 1.6e+002 letter-probability matrix: alength= 4 w= 7 nsites= 28 E= 1.7e-002 0.000000 0.000000 0.392857 0.607143 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 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CCAASAGA DREME-7 # Word RC Word Pos Neg P-value E-value # BEST CCAASAGA TCTSTTGG 20 0 7.8e-007 2.3e-002 # CCAAGAGA TCTCTTGG 11 0 4.6e-004 1.3e+001 # CCAACAGA TCTGTTGG 9 0 1.9e-003 5.4e+001 letter-probability matrix: alength= 4 w= 8 nsites= 20 E= 2.3e-002 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 0.450000 0.550000 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 MOTIF AGMGCG DREME-8 # Word RC Word Pos Neg P-value E-value # BEST AGMGCG CGCKCT 53 15 9.3e-007 2.7e-002 # AGCGCG CGCGCT 28 6 7.6e-005 2.2e+000 # AGAGCG CGCTCT 26 11 8.9e-003 2.6e+002 letter-probability matrix: alength= 4 w= 6 nsites= 54 E= 2.7e-002 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.481481 0.518519 0.000000 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 # Stopping reason: E-value threshold exceeded # Running time: 29.56 seconds