# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--HSF1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--HSF1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--HSF1/seqs-shuffled # positives: 486 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--HSF1/seqs-centered (Sun Jan 19 10:48:41 PST 2020) # negatives: 486 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--HSF1/seqs-shuffled (Sun Jan 19 10:48:41 PST 2020) # host: kali.stanford.edu # when: Sun Jan 19 10:58:33 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 0.286 C 0.212 G 0.213 T 0.289 MOTIF GGTTCRA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GGTTCRA TYGAACC 123 8 2.7e-031 7.4e-027 # GGTTCGA TCGAACC 92 4 5.5e-025 1.5e-020 # GGTTCAA TTGAACC 32 4 6.5e-007 1.8e-002 letter-probability matrix: alength= 4 w= 7 nsites= 124 E= 7.4e-027 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 0.258065 0.000000 0.741935 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CCRTACAY DREME-2 # Word RC Word Pos Neg P-value E-value # BEST CCRTACAY RTGTAYGG 80 2 2.4e-023 6.5e-019 # CCATACAT ATGTATGG 36 0 7.4e-012 2.0e-007 # CCGTACAT ATGTACGG 28 1 3.8e-008 1.0e-003 # CCGTACAC GTGTACGG 15 1 2.4e-004 6.4e+000 # CCATACAC GTGTATGG 10 0 9.3e-004 2.5e+001 letter-probability matrix: alength= 4 w= 8 nsites= 95 E= 6.5e-019 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.536842 0.000000 0.463158 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.273684 0.000000 0.726316 MOTIF CTBGGCCA DREME-3 # Word RC Word Pos Neg P-value E-value # BEST CTBGGCCA TGGCCVAG 64 1 2.1e-019 5.6e-015 # CTCGGCCA TGGCCGAG 33 0 6.6e-011 1.8e-006 # CTTGGCCA TGGCCAAG 19 0 1.6e-006 4.3e-002 # CTGGGCCA TGGCCCAG 12 1 1.6e-003 4.3e+001 letter-probability matrix: alength= 4 w= 8 nsites= 64 E= 5.6e-015 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.515625 0.187500 0.296875 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 TAAGGCR DREME-4 # Word RC Word Pos Neg P-value E-value # BEST TAAGGCR YGCCTTA 74 8 7.3e-016 2.0e-011 # TAAGGCG CGCCTTA 59 5 9.3e-014 2.5e-009 # TAAGGCA TGCCTTA 16 3 2.0e-003 5.4e+001 letter-probability matrix: alength= 4 w= 7 nsites= 75 E= 2.0e-011 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 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.213333 0.000000 0.786667 0.000000 MOTIF GCKCTMCC DREME-5 # Word RC Word Pos Neg P-value E-value # BEST GCKCTMCC GGKAGMGC 52 0 5.3e-017 1.4e-012 # GCGCTACC GGTAGCGC 27 0 5.1e-009 1.4e-004 # GCTCTACC GGTAGAGC 16 0 1.3e-005 3.6e-001 # GCTCTCCC GGGAGAGC 9 0 1.9e-003 5.0e+001 # GCGCTCCC GGGAGCGC 8 0 3.8e-003 1.0e+002 letter-probability matrix: alength= 4 w= 8 nsites= 52 E= 1.4e-012 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.519231 0.480769 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.750000 0.250000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF ATGGCAWC DREME-6 # Word RC Word Pos Neg P-value E-value # BEST ATGGCAWC GWTGCCAT 37 1 7.2e-011 1.9e-006 # ATGGCAAC GTTGCCAT 27 0 5.1e-009 1.4e-004 # ATGGCATC GATGCCAT 11 1 3.0e-003 8.0e+001 letter-probability matrix: alength= 4 w= 8 nsites= 38 E= 1.9e-006 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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.710526 0.000000 0.000000 0.289474 0.000000 1.000000 0.000000 0.000000 MOTIF ATAGTKTA DREME-7 # Word RC Word Pos Neg P-value E-value # BEST ATAGTKTA TAMACTAT 40 2 9.6e-011 2.5e-006 # ATAGTGTA TACACTAT 25 0 2.2e-008 5.7e-004 # ATAGTTTA TAAACTAT 15 2 1.1e-003 2.9e+001 letter-probability matrix: alength= 4 w= 8 nsites= 40 E= 2.5e-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 0.625000 0.375000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF RCACCCA DREME-8 # Word RC Word Pos Neg P-value E-value # BEST RCACCCA TGGGTGY 55 9 5.6e-010 1.5e-005 # ACACCCA TGGGTGT 39 5 3.8e-008 1.0e-003 # GCACCCA TGGGTGC 19 4 1.2e-003 3.1e+001 letter-probability matrix: alength= 4 w= 7 nsites= 64 E= 1.5e-005 0.640625 0.000000 0.359375 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 1.000000 0.000000 0.000000 0.000000 MOTIF GGTCTCY DREME-9 # Word RC Word Pos Neg P-value E-value # BEST GGTCTCY RGAGACC 40 4 4.3e-009 1.1e-004 # GGTCTCC GGAGACC 25 2 2.2e-006 5.6e-002 # GGTCTCT AGAGACC 15 2 1.1e-003 2.8e+001 letter-probability matrix: alength= 4 w= 7 nsites= 43 E= 1.1e-004 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 0.581395 0.000000 0.418605 MOTIF AAGATTTM DREME-10 # Word RC Word Pos Neg P-value E-value # BEST AAGATTTM KAAATCTT 30 1 9.7e-009 2.5e-004 # AAGATTTC GAAATCTT 23 1 1.2e-006 3.0e-002 # AAGATTTA TAAATCTT 7 0 7.6e-003 2.0e+002 letter-probability matrix: alength= 4 w= 8 nsites= 30 E= 2.5e-004 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 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.233333 0.766667 0.000000 0.000000 MOTIF ACATCH DREME-11 # Word RC Word Pos Neg P-value E-value # BEST ACATCH DGATGT 112 47 9.8e-009 2.6e-004 # ACATCC GGATGT 40 12 4.2e-005 1.1e+000 # ACATCA TGATGT 50 25 1.8e-003 4.8e+001 # ACATCT AGATGT 31 14 6.9e-003 1.8e+002 letter-probability matrix: alength= 4 w= 6 nsites= 125 E= 2.6e-004 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 1.000000 0.000000 0.000000 0.408000 0.352000 0.000000 0.240000 MOTIF ACTARACC DREME-12 # Word RC Word Pos Neg P-value E-value # BEST ACTARACC GGTYTAGT 33 2 1.1e-008 2.9e-004 # ACTAGACC GGTCTAGT 19 0 1.6e-006 4.1e-002 # ACTAAACC GGTTTAGT 14 2 1.9e-003 5.0e+001 letter-probability matrix: alength= 4 w= 8 nsites= 33 E= 2.9e-004 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.424242 0.000000 0.575758 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 MOTIF ACTGAGCT DREME-13 # Word RC Word Pos Neg P-value E-value # BEST ACTGAGCT AGCTCAGT 24 0 4.5e-008 1.1e-003 # ACTGAGCT AGCTCAGT 24 0 4.5e-008 1.1e-003 letter-probability matrix: alength= 4 w= 8 nsites= 24 E= 1.1e-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 ACAAGGMT DREME-14 # Word RC Word Pos Neg P-value E-value # BEST ACAAGGMT AKCCTTGT 24 1 5.9e-007 1.5e-002 # ACAAGGCT AGCCTTGT 14 0 5.6e-005 1.4e+000 # ACAAGGAT ATCCTTGT 10 1 5.6e-003 1.4e+002 letter-probability matrix: alength= 4 w= 8 nsites= 24 E= 1.5e-002 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 0.000000 0.416667 0.583333 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF TAATCAKA DREME-15 # Word RC Word Pos Neg P-value E-value # BEST TAATCAKA TMTGATTA 24 1 5.9e-007 1.5e-002 # TAATCATA TATGATTA 13 0 1.1e-004 2.9e+000 # TAATCAGA TCTGATTA 11 1 3.0e-003 7.7e+001 letter-probability matrix: alength= 4 w= 8 nsites= 24 E= 1.5e-002 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 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.458333 0.541667 1.000000 0.000000 0.000000 0.000000 MOTIF TAAKCGCA DREME-16 # Word RC Word Pos Neg P-value E-value # BEST TAAKCGCA TGCGMTTA 20 0 7.8e-007 2.0e-002 # TAATCGCA TGCGATTA 11 0 4.6e-004 1.2e+001 # TAAGCGCA TGCGCTTA 9 0 1.9e-003 4.8e+001 letter-probability matrix: alength= 4 w= 8 nsites= 20 E= 2.0e-002 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 0.000000 0.450000 0.550000 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 0.000000 MOTIF AAGAAAMA DREME-17 # Word RC Word Pos Neg P-value E-value # BEST AAGAAAMA TKTTTCTT 44 10 9.1e-007 2.3e-002 # AAGAAAAA TTTTTCTT 35 10 8.9e-005 2.3e+000 # AAGAAACA TGTTTCTT 9 0 1.9e-003 4.8e+001 letter-probability matrix: alength= 4 w= 8 nsites= 44 E= 2.3e-002 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 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.795455 0.204545 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AGTCAKAC DREME-18 # Word RC Word Pos Neg P-value E-value # BEST AGTCAKAC GTMTGACT 26 2 1.1e-006 2.9e-002 # AGTCAGAC GTCTGACT 13 1 8.5e-004 2.2e+001 # AGTCATAC GTATGACT 13 1 8.5e-004 2.2e+001 letter-probability matrix: alength= 4 w= 8 nsites= 26 E= 2.9e-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 0.500000 0.500000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 60.41 seconds