# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--YAP6/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--YAP6/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--YAP6/seqs-shuffled # positives: 756 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--YAP6/seqs-centered (Sat Jan 18 20:21:51 PST 2020) # negatives: 756 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--YAP6/seqs-shuffled (Sat Jan 18 20:21:51 PST 2020) # host: kali.stanford.edu # when: Sat Jan 18 20:38:24 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 0.298 C 0.203 G 0.202 T 0.297 MOTIF GRDTCGAA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GRDTCGAA TTCGAHYC 94 9 2.2e-020 7.5e-016 # GAATCGAA TTCGATTC 23 1 1.3e-006 4.4e-002 # GGATCGAA TTCGATCC 25 2 2.4e-006 8.3e-002 # GGTTCGAA TTCGAACC 15 1 2.4e-004 8.5e+000 # GAGTCGAA TTCGACTC 20 5 1.9e-003 6.6e+001 # GATTCGAA TTCGAATC 8 0 3.8e-003 1.3e+002 # GGGTCGAA TTCGACCC 8 0 3.8e-003 1.3e+002 letter-probability matrix: alength= 4 w= 8 nsites= 94 E= 7.5e-016 0.000000 0.000000 1.000000 0.000000 0.531915 0.000000 0.468085 0.000000 0.510638 0.000000 0.297872 0.191489 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 1.000000 0.000000 0.000000 0.000000 MOTIF ACCAYT DREME-2 # Word RC Word Pos Neg P-value E-value # BEST ACCAYT ARTGGT 153 63 1.7e-011 6.1e-007 # ACCACT AGTGGT 87 25 4.1e-010 1.4e-005 # ACCATT AATGGT 68 39 2.4e-003 8.3e+001 letter-probability matrix: alength= 4 w= 6 nsites= 167 E= 6.1e-007 1.000000 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 0.000000 0.000000 0.580838 0.000000 0.419162 0.000000 0.000000 0.000000 1.000000 MOTIF AAAAAAAT DREME-3 # Word RC Word Pos Neg P-value E-value # BEST AAAAAAAT ATTTTTTT 83 23 5.3e-010 1.8e-005 # AAAAAAAT ATTTTTTT 83 23 5.3e-010 1.8e-005 letter-probability matrix: alength= 4 w= 8 nsites= 87 E= 1.8e-005 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 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF CGCCTTA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CGCCTTA TAAGGCG 37 3 6.6e-009 2.3e-004 # CGCCTTA TAAGGCG 37 3 6.6e-009 2.3e-004 letter-probability matrix: alength= 4 w= 7 nsites= 37 E= 2.3e-004 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 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CACGGYG DREME-5 # Word RC Word Pos Neg P-value E-value # BEST CACGGYG CRCCGTG 33 2 1.3e-008 4.6e-004 # CACGGTG CACCGTG 21 1 4.8e-006 1.7e-001 # CACGGCG CGCCGTG 12 1 1.6e-003 5.7e+001 letter-probability matrix: alength= 4 w= 7 nsites= 33 E= 4.6e-004 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 0.000000 0.000000 1.000000 0.000000 0.000000 0.363636 0.000000 0.636364 0.000000 0.000000 1.000000 0.000000 MOTIF SAAGA DREME-6 # Word RC Word Pos Neg P-value E-value # BEST SAAGA TCTTS 376 269 1.7e-008 5.8e-004 # CAAGA TCTTG 221 155 5.3e-005 1.8e+000 # GAAGA TCTTC 226 160 6.1e-005 2.1e+000 letter-probability matrix: alength= 4 w= 5 nsites= 538 E= 5.8e-004 0.000000 0.494424 0.505576 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 GGGTTCRA DREME-7 # Word RC Word Pos Neg P-value E-value # BEST GGGTTCRA TYGAACCC 31 2 5.0e-008 1.6e-003 # GGGTTCGA TCGAACCC 17 1 6.7e-005 2.2e+000 # GGGTTCAA TTGAACCC 14 1 4.6e-004 1.5e+001 letter-probability matrix: alength= 4 w= 8 nsites= 31 E= 1.6e-003 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 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.451613 0.000000 0.548387 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ATGGCAW DREME-8 # Word RC Word Pos Neg P-value E-value # BEST ATGGCAW WTGCCAT 51 12 2.2e-007 7.3e-003 # ATGGCAA TTGCCAT 30 7 8.0e-005 2.7e+000 # ATGGCAT ATGCCAT 21 5 1.1e-003 3.8e+001 letter-probability matrix: alength= 4 w= 7 nsites= 52 E= 7.3e-003 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 0.576923 0.000000 0.000000 0.423077 MOTIF ATGTAYGG DREME-9 # Word RC Word Pos Neg P-value E-value # BEST ATGTAYGG CCRTACAT 20 0 8.4e-007 2.8e-002 # ATGTATGG CCATACAT 11 0 4.7e-004 1.6e+001 # ATGTACGG CCGTACAT 9 0 1.9e-003 6.3e+001 letter-probability matrix: alength= 4 w= 8 nsites= 23 E= 2.8e-002 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 0.434783 0.000000 0.565217 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 46.75 seconds