# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--ACE2/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--ACE2/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--ACE2/seqs-shuffled # positives: 458 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--ACE2/seqs-centered (Sun Jan 19 08:24:27 PST 2020) # negatives: 458 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/YJM789--ACE2/seqs-shuffled (Sun Jan 19 08:24:27 PST 2020) # host: kali.stanford.edu # when: Sun Jan 19 08:32:57 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 0.291 C 0.210 G 0.208 T 0.291 MOTIF GGTTCRA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GGTTCRA TYGAACC 110 10 1.9e-025 4.9e-021 # GGTTCGA TCGAACC 80 6 2.5e-019 6.6e-015 # GGTTCAA TTGAACC 32 4 6.3e-007 1.6e-002 letter-probability matrix: alength= 4 w= 7 nsites= 112 E= 4.9e-021 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 AYCCRTAC DREME-2 # Word RC Word Pos Neg P-value E-value # BEST AYCCRTAC GTAYGGRT 78 3 1.3e-021 3.4e-017 # ACCCATAC GTATGGGT 37 1 6.9e-011 1.8e-006 # ATCCGTAC GTACGGAT 29 1 1.9e-008 4.9e-004 # ACCCGTAC GTACGGGT 11 0 4.6e-004 1.2e+001 # ATCCATAC GTATGGAT 11 1 3.0e-003 7.8e+001 letter-probability matrix: alength= 4 w= 8 nsites= 93 E= 3.4e-017 1.000000 0.000000 0.000000 0.000000 0.000000 0.537634 0.000000 0.462366 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.537634 0.000000 0.462366 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CTBGGCCA DREME-3 # Word RC Word Pos Neg P-value E-value # BEST CTBGGCCA TGGCCVAG 66 3 9.2e-018 2.4e-013 # CTCGGCCA TGGCCGAG 34 0 3.1e-011 7.9e-007 # CTTGGCCA TGGCCAAG 21 3 1.2e-004 3.0e+000 # CTGGGCCA TGGCCCAG 11 0 4.6e-004 1.2e+001 letter-probability matrix: alength= 4 w= 8 nsites= 66 E= 2.4e-013 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.515152 0.166667 0.318182 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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CGCSTTA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CGCSTTA TAASGCG 78 8 4.1e-017 1.1e-012 # CGCCTTA TAAGGCG 62 6 6.6e-014 1.7e-009 # CGCGTTA TAACGCG 16 2 5.9e-004 1.5e+001 letter-probability matrix: alength= 4 w= 7 nsites= 78 E= 1.1e-012 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 0.794872 0.205128 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 TAGTGGTW DREME-5 # Word RC Word Pos Neg P-value E-value # BEST TAGTGGTW WACCACTA 47 3 6.2e-012 1.6e-007 # TAGTGGTA TACCACTA 30 1 9.4e-009 2.4e-004 # TAGTGGTT AACCACTA 17 2 3.2e-004 8.2e+000 letter-probability matrix: alength= 4 w= 8 nsites= 47 E= 1.6e-007 0.000000 0.000000 0.000000 1.000000 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 0.638298 0.000000 0.000000 0.361702 MOTIF GCKCTACC DREME-6 # Word RC Word Pos Neg P-value E-value # BEST GCKCTACC GGTAGMGC 35 1 2.8e-010 7.2e-006 # GCGCTACC GGTAGCGC 24 1 5.8e-007 1.5e-002 # GCTCTACC GGTAGAGC 11 0 4.6e-004 1.2e+001 letter-probability matrix: alength= 4 w= 8 nsites= 35 E= 7.2e-006 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.685714 0.314286 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 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 CCCATKC DREME-7 # Word RC Word Pos Neg P-value E-value # BEST CCCATKC GMATGGG 41 3 3.6e-010 9.1e-006 # CCCATGC GCATGGG 23 2 7.7e-006 1.9e-001 # CCCATTC GAATGGG 18 1 3.3e-005 8.3e-001 letter-probability matrix: alength= 4 w= 7 nsites= 41 E= 9.1e-006 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 0.000000 0.000000 0.560976 0.439024 0.000000 1.000000 0.000000 0.000000 MOTIF GGTCTCY DREME-8 # Word RC Word Pos Neg P-value E-value # BEST GGTCTCY RGAGACC 34 1 5.7e-010 1.4e-005 # GGTCTCC GGAGACC 21 0 3.8e-007 9.5e-003 # GGTCTCT AGAGACC 13 1 8.5e-004 2.1e+001 letter-probability matrix: alength= 4 w= 7 nsites= 36 E= 1.4e-005 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.583333 0.000000 0.416667 MOTIF CACATYAC DREME-9 # Word RC Word Pos Neg P-value E-value # BEST CACATYAC GTRATGTG 29 0 1.2e-009 3.0e-005 # CACATCAC GTGATGTG 16 0 1.3e-005 3.4e-001 # CACATTAC GTAATGTG 13 0 1.1e-004 2.8e+000 letter-probability matrix: alength= 4 w= 8 nsites= 29 E= 3.0e-005 0.000000 1.000000 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 0.000000 0.000000 0.000000 1.000000 0.000000 0.551724 0.000000 0.448276 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF TTTTTCW DREME-10 # Word RC Word Pos Neg P-value E-value # BEST TTTTTCW WGAAAAA 102 39 4.3e-009 1.1e-004 # TTTTTCT AGAAAAA 57 17 6.6e-007 1.7e-002 # TTTTTCA TGAAAAA 49 26 3.8e-003 9.6e+001 letter-probability matrix: alength= 4 w= 7 nsites= 109 E= 1.1e-004 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 1.000000 0.000000 0.000000 0.458716 0.000000 0.000000 0.541284 MOTIF GGCAACK DREME-11 # Word RC Word Pos Neg P-value E-value # BEST GGCAACK MGTTGCC 35 3 1.9e-008 4.7e-004 # GGCAACG CGTTGCC 25 2 2.1e-006 5.3e-002 # GGCAACT AGTTGCC 10 1 5.6e-003 1.4e+002 letter-probability matrix: alength= 4 w= 7 nsites= 35 E= 4.7e-004 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 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 0.000000 0.000000 0.000000 0.000000 0.714286 0.285714 MOTIF TGGCGYA DREME-12 # Word RC Word Pos Neg P-value E-value # BEST TGGCGYA TRCGCCA 40 6 8.1e-008 2.0e-003 # TGGCGCA TGCGCCA 22 3 6.4e-005 1.6e+000 # TGGCGTA TACGCCA 18 3 6.6e-004 1.6e+001 letter-probability matrix: alength= 4 w= 7 nsites= 40 E= 2.0e-003 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 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.550000 0.000000 0.450000 1.000000 0.000000 0.000000 0.000000 MOTIF ATATTTY DREME-13 # Word RC Word Pos Neg P-value E-value # BEST ATATTTY RAAATAT 56 15 1.9e-007 4.8e-003 # ATATTTC GAAATAT 28 5 2.5e-005 6.1e-001 # ATATTTT AAAATAT 30 11 1.8e-003 4.3e+001 letter-probability matrix: alength= 4 w= 7 nsites= 59 E= 4.8e-003 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 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 0.474576 0.000000 0.525424 MOTIF ACSCAGA DREME-14 # Word RC Word Pos Neg P-value E-value # BEST ACSCAGA TCTGSGT 31 3 2.5e-007 6.1e-003 # ACCCAGA TCTGGGT 18 1 3.3e-005 8.0e-001 # ACGCAGA TCTGCGT 13 2 3.5e-003 8.5e+001 letter-probability matrix: alength= 4 w= 7 nsites= 31 E= 6.1e-003 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.580645 0.419355 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 1.000000 0.000000 0.000000 0.000000 MOTIF ATCAKAAG DREME-15 # Word RC Word Pos Neg P-value E-value # BEST ATCAKAAG CTTMTGAT 25 1 2.9e-007 7.2e-003 # ATCAGAAG CTTCTGAT 14 0 5.5e-005 1.3e+000 # ATCATAAG CTTATGAT 11 1 3.0e-003 7.4e+001 letter-probability matrix: alength= 4 w= 8 nsites= 25 E= 7.2e-003 1.000000 0.000000 0.000000 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 0.560000 0.440000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF ATAGTKTA DREME-16 # Word RC Word Pos Neg P-value E-value # BEST ATAGTKTA TAMACTAT 35 5 4.2e-007 1.0e-002 # ATAGTTTA TAAACTAT 18 2 1.8e-004 4.3e+000 # ATAGTGTA TACACTAT 17 3 1.2e-003 2.8e+001 letter-probability matrix: alength= 4 w= 8 nsites= 35 E= 1.0e-002 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 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 0.485714 0.514286 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AGCGCMAG DREME-17 # Word RC Word Pos Neg P-value E-value # BEST AGCGCMAG CTKGCGCT 24 1 5.8e-007 1.4e-002 # AGCGCAAG CTTGCGCT 13 0 1.1e-004 2.7e+000 # AGCGCCAG CTGGCGCT 11 1 3.0e-003 7.4e+001 letter-probability matrix: alength= 4 w= 8 nsites= 24 E= 1.4e-002 1.000000 0.000000 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 1.000000 0.000000 0.000000 0.541667 0.458333 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF ACTGAGCT DREME-18 # Word RC Word Pos Neg P-value E-value # BEST ACTGAGCT AGCTCAGT 23 1 1.1e-006 2.8e-002 # ACTGAGCT AGCTCAGT 23 1 1.1e-006 2.8e-002 letter-probability matrix: alength= 4 w= 8 nsites= 23 E= 2.8e-002 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 # Stopping reason: E-value threshold exceeded # Running time: 56.76 seconds