# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--SOK2/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--SOK2/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--SOK2/seqs-shuffled # positives: 1020 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--SOK2/seqs-centered (Sat Jan 18 13:04:28 PST 2020) # negatives: 1020 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/AWRI1631--SOK2/seqs-shuffled (Sat Jan 18 13:04:28 PST 2020) # host: kali.stanford.edu # when: Sat Jan 18 13:18:17 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 0.290 C 0.207 G 0.209 T 0.294 MOTIF RGTTCGA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST RGTTCGA TCGAACY 103 12 2.0e-020 7.4e-016 # GGTTCGA TCGAACC 85 6 5.9e-020 2.2e-015 # AGTTCGA TCGAACT 21 6 2.8e-003 1.0e+002 letter-probability matrix: alength= 4 w= 7 nsites= 103 E= 7.4e-016 0.194175 0.000000 0.805825 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 DTCTTC DREME-2 # Word RC Word Pos Neg P-value E-value # BEST DTCTTC GAAGAH 296 169 1.2e-011 4.4e-007 # TTCTTC GAAGAA 158 85 3.7e-007 1.4e-002 # ATCTTC GAAGAT 111 53 1.4e-006 5.2e-002 # GTCTTC GAAGAC 65 40 7.9e-003 2.9e+002 letter-probability matrix: alength= 4 w= 6 nsites= 363 E= 4.4e-007 0.319559 0.000000 0.184573 0.495868 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 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CCWTAACC DREME-3 # Word RC Word Pos Neg P-value E-value # BEST CCWTAACC GGTTAWGG 35 0 2.2e-011 7.9e-007 # CCTTAACC GGTTAAGG 25 0 2.6e-008 9.4e-004 # CCATAACC GGTTATGG 10 0 9.6e-004 3.5e+001 letter-probability matrix: alength= 4 w= 8 nsites= 35 E= 7.9e-007 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.285714 0.000000 0.000000 0.714286 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 GGAWGCA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST GGAWGCA TGCWTCC 53 8 9.0e-010 3.3e-005 # GGAAGCA TGCTTCC 32 5 3.1e-006 1.1e-001 # GGATGCA TGCATCC 21 3 1.3e-004 4.7e+000 letter-probability matrix: alength= 4 w= 7 nsites= 53 E= 3.3e-005 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.603774 0.000000 0.000000 0.396226 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 ACCCAYAC DREME-5 # Word RC Word Pos Neg P-value E-value # BEST ACCCAYAC GTRTGGGT 37 2 1.1e-009 3.9e-005 # ACCCATAC GTATGGGT 24 1 6.8e-007 2.5e-002 # ACCCACAC GTGTGGGT 13 1 8.9e-004 3.2e+001 letter-probability matrix: alength= 4 w= 8 nsites= 38 E= 3.9e-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 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.368421 0.000000 0.631579 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF GTGRTA DREME-6 # Word RC Word Pos Neg P-value E-value # BEST GTGRTA TAYCAC 135 61 1.5e-008 5.4e-004 # GTGATA TATCAC 75 35 5.7e-005 2.1e+000 # GTGGTA TACCAC 61 30 5.9e-004 2.2e+001 letter-probability matrix: alength= 4 w= 6 nsites= 137 E= 5.4e-004 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.554745 0.000000 0.445255 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF GYCAAGA DREME-7 # Word RC Word Pos Neg P-value E-value # BEST GYCAAGA TCTTGRC 72 21 2.7e-008 9.7e-004 # GTCAAGA TCTTGAC 36 8 1.0e-005 3.8e-001 # GCCAAGA TCTTGGC 36 13 6.1e-004 2.2e+001 letter-probability matrix: alength= 4 w= 7 nsites= 76 E= 9.7e-004 0.000000 0.000000 1.000000 0.000000 0.000000 0.473684 0.000000 0.526316 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 1.000000 0.000000 0.000000 0.000000 MOTIF CGCCASAC DREME-8 # Word RC Word Pos Neg P-value E-value # BEST CGCCASAC GTSTGGCG 23 0 1.1e-007 3.8e-003 # CGCCACAC GTGTGGCG 16 0 1.4e-005 5.2e-001 # CGCCAGAC GTCTGGCG 7 0 7.7e-003 2.8e+002 letter-probability matrix: alength= 4 w= 8 nsites= 23 E= 3.8e-003 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 0.000000 0.695652 0.304348 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CACGRTG DREME-9 # Word RC Word Pos Neg P-value E-value # BEST CACGRTG CAYCGTG 41 7 2.3e-007 8.5e-003 # CACGGTG CACCGTG 24 4 8.2e-005 3.0e+000 # CACGATG CATCGTG 17 3 1.2e-003 4.5e+001 letter-probability matrix: alength= 4 w= 7 nsites= 41 E= 8.5e-003 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 0.414634 0.000000 0.585366 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 MOTIF TAAGCAVA DREME-10 # Word RC Word Pos Neg P-value E-value # BEST TAAGCAVA TBTGCTTA 40 7 4.1e-007 1.5e-002 # TAAGCACA TGTGCTTA 10 0 9.6e-004 3.5e+001 # TAAGCAAA TTTGCTTA 15 4 9.3e-003 3.4e+002 # TAAGCAGA TCTGCTTA 15 4 9.3e-003 3.4e+002 letter-probability matrix: alength= 4 w= 8 nsites= 40 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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.375000 0.250000 0.375000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF TGGCAACR DREME-11 # Word RC Word Pos Neg P-value E-value # BEST TGGCAACR YGTTGCCA 33 4 4.4e-007 1.6e-002 # TGGCAACG CGTTGCCA 20 2 5.6e-005 2.0e+000 # TGGCAACA TGTTGCCA 13 2 3.6e-003 1.3e+002 letter-probability matrix: alength= 4 w= 8 nsites= 33 E= 1.6e-002 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 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.393939 0.000000 0.606061 0.000000 MOTIF GCKCTACC DREME-12 # Word RC Word Pos Neg P-value E-value # BEST GCKCTACC GGTAGMGC 26 2 1.3e-006 4.8e-002 # GCGCTACC GGTAGCGC 16 1 1.3e-004 4.7e+000 # GCTCTACC GGTAGAGC 10 1 5.8e-003 2.1e+002 letter-probability matrix: alength= 4 w= 8 nsites= 26 E= 4.8e-002 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.615385 0.384615 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 AAAAARA DREME-13 # Word RC Word Pos Neg P-value E-value # BEST AAAAARA TYTTTTT 218 137 1.4e-006 5.0e-002 # AAAAAAA TTTTTTT 167 98 3.4e-006 1.2e-001 # AAAAAGA TCTTTTT 84 50 1.5e-003 5.5e+001 letter-probability matrix: alength= 4 w= 7 nsites= 258 E= 5.0e-002 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 0.693798 0.000000 0.306202 0.000000 1.000000 0.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 87.86 seconds