# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--ACE2/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--ACE2/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--ACE2/seqs-shuffled # positives: 574 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--ACE2/seqs-centered (Sat Jan 18 04:41:50 PST 2020) # negatives: 574 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--ACE2/seqs-shuffled (Sat Jan 18 04:41:50 PST 2020) # host: kali.stanford.edu # when: Sat Jan 18 04:56:49 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 0.308 C 0.198 G 0.193 T 0.301 MOTIF GGTTCRA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GGTTCRA TYGAACC 97 11 3.5e-020 1.1e-015 # GGTTCGA TCGAACC 70 5 7.0e-017 2.2e-012 # GGTTCAA TTGAACC 28 6 7.9e-005 2.4e+000 letter-probability matrix: alength= 4 w= 7 nsites= 98 E= 1.1e-015 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 0.285714 0.000000 0.714286 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AAAAADAA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST AAAAADAA TTHTTTTT 148 50 6.1e-015 1.9e-010 # AAAAAGAA TTCTTTTT 54 15 6.5e-007 2.0e-002 # AAAAAAAA TTTTTTTT 72 30 8.3e-006 2.5e-001 # AAAAATAA TTATTTTT 47 16 3.8e-005 1.2e+000 letter-probability matrix: alength= 4 w= 8 nsites= 173 E= 1.9e-010 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 0.445087 0.000000 0.300578 0.254335 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF KAGTGGTW DREME-3 # Word RC Word Pos Neg P-value E-value # BEST KAGTGGTW WACCACTM 52 3 2.6e-013 8.0e-009 # GAGTGGTT AACCACTC 15 0 2.8e-005 8.5e-001 # TAGTGGTA TACCACTA 19 2 9.8e-005 3.0e+000 # TAGTGGTT AACCACTA 11 1 3.0e-003 9.3e+001 # GAGTGGTA TACCACTC 7 0 7.7e-003 2.3e+002 letter-probability matrix: alength= 4 w= 8 nsites= 52 E= 8.0e-009 0.000000 0.000000 0.423077 0.576923 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 0.500000 0.000000 0.000000 0.500000 MOTIF ACCCATRC DREME-4 # Word RC Word Pos Neg P-value E-value # BEST ACCCATRC GYATGGGT 32 0 1.5e-010 4.5e-006 # ACCCATAC GTATGGGT 23 0 9.5e-008 2.9e-003 # ACCCATGC GCATGGGT 10 0 9.4e-004 2.8e+001 letter-probability matrix: alength= 4 w= 8 nsites= 33 E= 4.5e-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 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.696970 0.000000 0.303030 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF ACCRACT DREME-5 # Word RC Word Pos Neg P-value E-value # BEST ACCRACT AGTYGGT 43 4 7.1e-010 2.1e-005 # ACCAACT AGTTGGT 30 3 5.1e-007 1.5e-002 # ACCGACT AGTCGGT 13 1 8.6e-004 2.6e+001 letter-probability matrix: alength= 4 w= 7 nsites= 43 E= 2.1e-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 0.697674 0.000000 0.302326 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 MOTIF TCCGTRCA DREME-6 # Word RC Word Pos Neg P-value E-value # BEST TCCGTRCA TGYACGGA 25 0 2.3e-008 6.9e-004 # TCCGTACA TGTACGGA 18 0 3.3e-006 1.0e-001 # TCCGTGCA TGCACGGA 8 0 3.8e-003 1.1e+002 letter-probability matrix: alength= 4 w= 8 nsites= 28 E= 6.9e-004 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 0.000000 1.000000 0.714286 0.000000 0.285714 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CRCACGCC DREME-7 # Word RC Word Pos Neg P-value E-value # BEST CRCACGCC GGCGTGYG 21 0 4.0e-007 1.2e-002 # CACACGCC GGCGTGTG 11 0 4.7e-004 1.4e+001 # CGCACGCC GGCGTGCG 10 0 9.4e-004 2.8e+001 letter-probability matrix: alength= 4 w= 8 nsites= 21 E= 1.2e-002 0.000000 1.000000 0.000000 0.000000 0.523810 0.000000 0.476190 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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF AGTCAKAC DREME-8 # Word RC Word Pos Neg P-value E-value # BEST AGTCAKAC GTMTGACT 19 0 1.6e-006 4.9e-002 # AGTCATAC GTATGACT 11 0 4.7e-004 1.4e+001 # AGTCAGAC GTCTGACT 8 0 3.8e-003 1.1e+002 letter-probability matrix: alength= 4 w= 8 nsites= 19 E= 4.9e-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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.421053 0.578947 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CGCGGGSA DREME-9 # Word RC Word Pos Neg P-value E-value # BEST CGCGGGSA TSCCCGCG 19 0 1.6e-006 4.9e-002 # CGCGGGCA TGCCCGCG 10 0 9.4e-004 2.8e+001 # CGCGGGGA TCCCCGCG 9 0 1.9e-003 5.7e+001 letter-probability matrix: alength= 4 w= 8 nsites= 19 E= 4.9e-002 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 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.526316 0.473684 0.000000 1.000000 0.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 37.62 seconds