# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/seqs-shuffled # positives: 1019 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/seqs-centered (Fri Jan 17 21:35:19 PST 2020) # negatives: 1019 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4741--MOT1/seqs-shuffled (Fri Jan 17 21:35:19 PST 2020) # host: kali.stanford.edu # when: Fri Jan 17 21:50:07 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 0.318 C 0.183 G 0.182 T 0.318 MOTIF GGWTCGA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GGWTCGA TCGAWCC 105 11 1.1e-021 3.7e-017 # GGTTCGA TCGAACC 88 7 5.7e-020 2.0e-015 # GGATCGA TCGATCC 23 4 1.4e-004 4.9e+000 letter-probability matrix: alength= 4 w= 7 nsites= 105 E= 3.7e-017 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.200000 0.000000 0.000000 0.800000 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 ARAAAAKA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST ARAAAAKA TMTTTTYT 195 74 7.7e-016 2.6e-011 # AAAAAAGA TCTTTTTT 73 22 3.8e-008 1.3e-003 # AAAAAATA TATTTTTT 84 31 1.9e-007 6.6e-003 # AGAAAATA TATTTTCT 30 13 6.4e-003 2.2e+002 # AGAAAAGA TCTTTTCT 27 11 6.5e-003 2.2e+002 letter-probability matrix: alength= 4 w= 8 nsites= 214 E= 2.6e-011 1.000000 0.000000 0.000000 0.000000 0.733645 0.000000 0.266355 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 0.000000 0.000000 0.457944 0.542056 1.000000 0.000000 0.000000 0.000000 MOTIF CCWTAACC DREME-3 # Word RC Word Pos Neg P-value E-value # BEST CCWTAACC GGTTAWGG 42 1 3.3e-012 1.1e-007 # CCTTAACC GGTTAAGG 26 1 1.8e-007 6.1e-003 # CCATAACC GGTTATGG 18 0 3.5e-006 1.2e-001 letter-probability matrix: alength= 4 w= 8 nsites= 44 E= 1.1e-007 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.409091 0.000000 0.000000 0.590909 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 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CTYGGCCA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CTYGGCCA TGGCCRAG 35 1 4.1e-010 1.4e-005 # CTCGGCCA TGGCCGAG 17 0 7.1e-006 2.4e-001 # CTTGGCCA TGGCCAAG 18 1 3.6e-005 1.2e+000 letter-probability matrix: alength= 4 w= 8 nsites= 35 E= 1.4e-005 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.485714 0.000000 0.514286 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 AGAAAA DREME-5 # Word RC Word Pos Neg P-value E-value # BEST AGAAAA TTTTCT 230 129 2.5e-009 8.5e-005 # AGAAAA TTTTCT 230 129 2.5e-009 8.5e-005 letter-probability matrix: alength= 4 w= 6 nsites= 257 E= 8.5e-005 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 1.000000 0.000000 0.000000 0.000000 MOTIF KATATATA DREME-6 # Word RC Word Pos Neg P-value E-value # BEST KATATATA TATATATM 43 5 4.8e-009 1.6e-004 # TATATATA TATATATA 29 3 1.1e-006 3.7e-002 # GATATATA TATATATC 16 2 6.3e-004 2.1e+001 letter-probability matrix: alength= 4 w= 8 nsites= 45 E= 1.6e-004 0.000000 0.000000 0.355556 0.644444 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ATGTAYGG DREME-7 # Word RC Word Pos Neg P-value E-value # BEST ATGTAYGG CCRTACAT 37 3 7.3e-009 2.5e-004 # ATGTATGG CCATACAT 27 3 3.7e-006 1.2e-001 # ATGTACGG CCGTACAT 14 0 5.8e-005 2.0e+000 letter-probability matrix: alength= 4 w= 8 nsites= 45 E= 2.5e-004 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 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.355556 0.000000 0.644444 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF GCKCTACC DREME-8 # Word RC Word Pos Neg P-value E-value # BEST GCKCTACC GGTAGMGC 34 2 7.6e-009 2.5e-004 # GCGCTACC GGTAGCGC 20 0 8.7e-007 2.9e-002 # GCTCTACC GGTAGAGC 14 2 2.0e-003 6.8e+001 letter-probability matrix: alength= 4 w= 8 nsites= 34 E= 2.5e-004 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.588235 0.411765 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 ACKAAACC DREME-9 # Word RC Word Pos Neg P-value E-value # BEST ACKAAACC GGTTTMGT 26 0 1.3e-008 4.3e-004 # ACGAAACC GGTTTCGT 13 0 1.2e-004 3.9e+000 # ACTAAACC GGTTTAGT 13 0 1.2e-004 3.9e+000 letter-probability matrix: alength= 4 w= 8 nsites= 26 E= 4.3e-004 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.500000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF AACTGRGC DREME-10 # Word RC Word Pos Neg P-value E-value # BEST AACTGRGC GCYCAGTT 24 0 5.2e-008 1.7e-003 # AACTGAGC GCTCAGTT 13 0 1.2e-004 3.9e+000 # AACTGGGC GCCCAGTT 11 0 4.8e-004 1.6e+001 letter-probability matrix: alength= 4 w= 8 nsites= 24 E= 1.7e-003 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 1.000000 0.000000 0.541667 0.000000 0.458333 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CWCGCCC DREME-11 # Word RC Word Pos Neg P-value E-value # BEST CWCGCCC GGGCGWG 27 1 9.2e-008 3.1e-003 # CACGCCC GGGCGTG 15 0 2.9e-005 9.7e-001 # CTCGCCC GGGCGAG 12 1 1.7e-003 5.6e+001 letter-probability matrix: alength= 4 w= 7 nsites= 27 E= 3.1e-003 0.000000 1.000000 0.000000 0.000000 0.555556 0.000000 0.000000 0.444444 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 1.000000 0.000000 0.000000 MOTIF AAGMACTC DREME-12 # Word RC Word Pos Neg P-value E-value # BEST AAGMACTC GAGTKCTT 22 0 2.1e-007 7.1e-003 # AAGAACTC GAGTTCTT 12 0 2.4e-004 7.9e+000 # AAGCACTC GAGTGCTT 10 0 9.6e-004 3.2e+001 letter-probability matrix: alength= 4 w= 8 nsites= 22 E= 7.1e-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 0.545455 0.454545 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 1.000000 0.000000 0.000000 MOTIF ACGATGGS DREME-13 # Word RC Word Pos Neg P-value E-value # BEST ACGATGGS SCCATCGT 24 1 6.8e-007 2.3e-002 # ACGATGGG CCCATCGT 12 0 2.4e-004 7.9e+000 # ACGATGGC GCCATCGT 12 1 1.7e-003 5.6e+001 letter-probability matrix: alength= 4 w= 8 nsites= 24 E= 2.3e-002 1.000000 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 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 0.500000 0.500000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 87.57 seconds