# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--ACE2/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--ACE2/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--ACE2/seqs-shuffled # positives: 484 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--ACE2/seqs-centered (Sat Jan 18 07:05:43 PST 2020) # negatives: 484 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--ACE2/seqs-shuffled (Sat Jan 18 07:05:43 PST 2020) # host: kali.stanford.edu # when: Sat Jan 18 07:15:09 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 0.289 C 0.214 G 0.212 T 0.285 MOTIF RGTTCGA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST RGTTCGA TCGAACY 116 9 4.6e-028 1.2e-023 # GGTTCGA TCGAACC 97 6 1.3e-024 3.5e-020 # AGTTCGA TCGAACT 22 3 6.5e-005 1.8e+000 letter-probability matrix: alength= 4 w= 7 nsites= 116 E= 1.2e-023 0.172414 0.000000 0.827586 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 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AGTGGTW DREME-2 # Word RC Word Pos Neg P-value E-value # BEST AGTGGTW WACCACT 92 9 1.8e-020 4.8e-016 # AGTGGTT AACCACT 67 6 2.5e-015 6.8e-011 # AGTGGTA TACCACT 38 3 2.8e-009 7.4e-005 letter-probability matrix: alength= 4 w= 7 nsites= 107 E= 4.8e-016 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 0.355140 0.000000 0.000000 0.644860 MOTIF CAYCCRTA DREME-3 # Word RC Word Pos Neg P-value E-value # BEST CAYCCRTA TAYGGRTG 67 2 4.0e-019 1.1e-014 # CACCCATA TATGGGTG 30 0 5.9e-010 1.6e-005 # CATCCGTA TACGGATG 24 2 4.1e-006 1.1e-001 # CATCCATA TATGGATG 10 0 9.3e-004 2.5e+001 # CACCCGTA TACGGGTG 7 0 7.6e-003 2.0e+002 letter-probability matrix: alength= 4 w= 8 nsites= 74 E= 1.1e-014 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.527027 0.000000 0.472973 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.567568 0.000000 0.432432 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CAACTKGG DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CAACTKGG CCMAGTTG 48 1 2.7e-014 7.3e-010 # CAACTTGG CCAAGTTG 36 1 1.5e-010 3.9e-006 # CAACTGGG CCCAGTTG 12 0 2.3e-004 6.1e+000 letter-probability matrix: alength= 4 w= 8 nsites= 48 E= 7.3e-010 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 0.000000 1.000000 0.000000 0.000000 0.250000 0.750000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF CGCSTTA DREME-5 # Word RC Word Pos Neg P-value E-value # BEST CGCSTTA TAASGCG 61 7 7.5e-013 2.0e-008 # CGCCTTA TAAGGCG 45 5 9.0e-010 2.4e-005 # CGCGTTA TAACGCG 16 2 6.0e-004 1.6e+001 letter-probability matrix: alength= 4 w= 7 nsites= 61 E= 2.0e-008 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 0.737705 0.262295 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 CCABAC DREME-6 # Word RC Word Pos Neg P-value E-value # BEST CCABAC GTVTGG 133 48 1.0e-012 2.7e-008 # CCACAC GTGTGG 57 17 7.0e-007 1.8e-002 # CCATAC GTATGG 52 22 1.9e-004 5.1e+000 # CCAGAC GTCTGG 33 12 9.7e-004 2.6e+001 letter-probability matrix: alength= 4 w= 6 nsites= 150 E= 2.7e-008 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 0.413333 0.213333 0.373333 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CGCKCTAC DREME-7 # Word RC Word Pos Neg P-value E-value # BEST CGCKCTAC GTAGMGCG 34 0 3.2e-011 8.2e-007 # CGCGCTAC GTAGCGCG 27 0 5.1e-009 1.3e-004 # CGCTCTAC GTAGAGCG 7 0 7.6e-003 2.0e+002 letter-probability matrix: alength= 4 w= 8 nsites= 34 E= 8.2e-007 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 0.794118 0.205882 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 MOTIF AARAAA DREME-8 # Word RC Word Pos Neg P-value E-value # BEST AARAAA TTTYTT 219 126 2.8e-010 7.2e-006 # AAAAAA TTTTTT 153 91 2.9e-006 7.5e-002 # AAGAAA TTTCTT 107 56 7.7e-006 2.0e-001 letter-probability matrix: alength= 4 w= 6 nsites= 296 E= 7.2e-006 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.655405 0.000000 0.344595 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 CCAAVAGA DREME-9 # Word RC Word Pos Neg P-value E-value # BEST CCAAVAGA TCTBTTGG 42 3 1.9e-010 4.9e-006 # CCAACAGA TCTGTTGG 15 0 2.7e-005 6.9e-001 # CCAAGAGA TCTCTTGG 15 1 2.4e-004 6.0e+000 # CCAAAAGA TCTTTTGG 12 2 6.2e-003 1.6e+002 letter-probability matrix: alength= 4 w= 8 nsites= 42 E= 4.9e-006 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 0.285714 0.357143 0.357143 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 ATAGTKTA DREME-10 # Word RC Word Pos Neg P-value E-value # BEST ATAGTKTA TAMACTAT 35 1 2.9e-010 7.4e-006 # ATAGTGTA TACACTAT 20 1 8.8e-006 2.2e-001 # ATAGTTTA TAAACTAT 15 0 2.7e-005 6.9e-001 letter-probability matrix: alength= 4 w= 8 nsites= 35 E= 7.4e-006 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 0.571429 0.428571 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CAASGATG DREME-11 # Word RC Word Pos Neg P-value E-value # BEST CAASGATG CATCSTTG 35 1 2.9e-010 7.4e-006 # CAACGATG CATCGTTG 23 1 1.2e-006 2.9e-002 # CAAGGATG CATCCTTG 12 0 2.3e-004 5.7e+000 letter-probability matrix: alength= 4 w= 8 nsites= 35 E= 7.4e-006 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 0.657143 0.342857 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 MOTIF GTGGAGA DREME-12 # Word RC Word Pos Neg P-value E-value # BEST GTGGAGA TCTCCAC 28 0 2.5e-009 6.3e-005 # GTGGAGA TCTCCAC 28 0 2.5e-009 6.3e-005 letter-probability matrix: alength= 4 w= 7 nsites= 28 E= 6.3e-005 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 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 ATTAASAG DREME-13 # Word RC Word Pos Neg P-value E-value # BEST ATTAASAG CTSTTAAT 27 0 5.1e-009 1.3e-004 # ATTAAGAG CTCTTAAT 15 0 2.7e-005 6.9e-001 # ATTAACAG CTGTTAAT 12 0 2.3e-004 5.7e+000 letter-probability matrix: alength= 4 w= 8 nsites= 27 E= 1.3e-004 1.000000 0.000000 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.444444 0.555556 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF TGCGCCA DREME-14 # Word RC Word Pos Neg P-value E-value # BEST TGCGCCA TGGCGCA 23 0 9.1e-008 2.3e-003 # TGCGCCA TGGCGCA 23 0 9.1e-008 2.3e-003 letter-probability matrix: alength= 4 w= 7 nsites= 23 E= 2.3e-003 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 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 AGMATGGG DREME-15 # Word RC Word Pos Neg P-value E-value # BEST AGMATGGG CCCATKCT 26 1 1.5e-007 3.8e-003 # AGAATGGG CCCATTCT 17 0 6.6e-006 1.7e-001 # AGCATGGG CCCATGCT 10 1 5.6e-003 1.4e+002 letter-probability matrix: alength= 4 w= 8 nsites= 27 E= 3.8e-003 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.629630 0.370370 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF CCGTGCW DREME-16 # Word RC Word Pos Neg P-value E-value # BEST CCGTGCW WGCACGG 31 3 2.5e-007 6.4e-003 # CCGTGCA TGCACGG 16 1 1.2e-004 3.1e+000 # CCGTGCT AGCACGG 16 2 6.0e-004 1.5e+001 letter-probability matrix: alength= 4 w= 7 nsites= 33 E= 6.4e-003 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 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.484848 0.000000 0.000000 0.515152 MOTIF AAGCGWGA DREME-17 # Word RC Word Pos Neg P-value E-value # BEST AAGCGWGA TCWCGCTT 25 1 3.0e-007 7.4e-003 # AAGCGTGA TCACGCTT 15 1 2.4e-004 5.9e+000 # AAGCGAGA TCTCGCTT 10 0 9.3e-004 2.3e+001 letter-probability matrix: alength= 4 w= 8 nsites= 25 E= 7.4e-003 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 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.400000 0.000000 0.000000 0.600000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ACTGAGCT DREME-18 # Word RC Word Pos Neg P-value E-value # BEST ACTGAGCT AGCTCAGT 21 0 3.8e-007 9.5e-003 # ACTGAGCT AGCTCAGT 21 0 3.8e-007 9.5e-003 letter-probability matrix: alength= 4 w= 8 nsites= 21 E= 9.5e-003 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 MOTIF GCAACGY DREME-19 # Word RC Word Pos Neg P-value E-value # BEST GCAACGY RCGTTGC 34 5 7.8e-007 1.9e-002 # GCAACGC GCGTTGC 17 0 6.6e-006 1.6e-001 # GCAACGT ACGTTGC 17 5 7.9e-003 1.9e+002 letter-probability matrix: alength= 4 w= 7 nsites= 34 E= 1.9e-002 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 1.000000 0.000000 0.000000 0.500000 0.000000 0.500000 MOTIF AMACCCA DREME-20 # Word RC Word Pos Neg P-value E-value # BEST AMACCCA TGGGTKT 42 9 9.5e-007 2.3e-002 # ACACCCA TGGGTGT 21 4 3.9e-004 9.7e+000 # AAACCCA TGGGTTT 22 5 6.5e-004 1.6e+001 letter-probability matrix: alength= 4 w= 7 nsites= 43 E= 2.3e-002 1.000000 0.000000 0.000000 0.000000 0.511628 0.488372 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 1.000000 0.000000 0.000000 0.000000 MOTIF ACCGAWG DREME-21 # Word RC Word Pos Neg P-value E-value # BEST ACCGAWG CWTCGGT 23 1 1.2e-006 2.9e-002 # ACCGATG CATCGGT 14 1 4.5e-004 1.1e+001 # ACCGAAG CTTCGGT 9 0 1.9e-003 4.6e+001 letter-probability matrix: alength= 4 w= 7 nsites= 23 E= 2.9e-002 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 0.000000 1.000000 0.000000 0.000000 0.000000 0.391304 0.000000 0.000000 0.608696 0.000000 0.000000 1.000000 0.000000 MOTIF GCAYGCGA DREME-22 # Word RC Word Pos Neg P-value E-value # BEST GCAYGCGA TCGCRTGC 19 0 1.6e-006 3.9e-002 # GCACGCGA TCGCGTGC 12 0 2.3e-004 5.6e+000 # GCATGCGA TCGCATGC 7 0 7.6e-003 1.9e+002 letter-probability matrix: alength= 4 w= 8 nsites= 19 E= 3.9e-002 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.631579 0.000000 0.368421 0.000000 0.000000 1.000000 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 MOTIF GRGTTCAA DREME-23 # Word RC Word Pos Neg P-value E-value # BEST GRGTTCAA TTGAACYC 19 0 1.6e-006 3.9e-002 # GGGTTCAA TTGAACCC 12 0 2.3e-004 5.6e+000 # GAGTTCAA TTGAACTC 7 0 7.6e-003 1.9e+002 letter-probability matrix: alength= 4 w= 8 nsites= 19 E= 3.9e-002 0.000000 0.000000 1.000000 0.000000 0.368421 0.000000 0.631579 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 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 71.34 seconds