# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--ACE2/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--ACE2/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--ACE2/seqs-shuffled # positives: 490 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--ACE2/seqs-centered (Sun Jan 19 09:02:51 PST 2020) # negatives: 490 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--ACE2/seqs-shuffled (Sun Jan 19 09:02:51 PST 2020) # host: kali.stanford.edu # when: Sun Jan 19 09:13:27 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 0.294 C 0.202 G 0.203 T 0.302 MOTIF GGWTCGA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GGWTCGA TCGAWCC 81 12 3.4e-015 1.0e-010 # GGTTCGA TCGAACC 63 9 4.3e-012 1.3e-007 # GGATCGA TCGATCC 24 3 2.0e-005 5.9e-001 letter-probability matrix: alength= 4 w= 7 nsites= 81 E= 1.0e-010 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.271605 0.000000 0.000000 0.728395 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 ACCWCT DREME-2 # Word RC Word Pos Neg P-value E-value # BEST ACCWCT AGWGGT 94 31 7.2e-010 2.1e-005 # ACCACT AGTGGT 61 19 5.2e-007 1.5e-002 # ACCTCT AGAGGT 35 12 4.1e-004 1.2e+001 letter-probability matrix: alength= 4 w= 6 nsites= 105 E= 2.1e-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 0.657143 0.000000 0.000000 0.342857 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF AAAAKAAA DREME-3 # Word RC Word Pos Neg P-value E-value # BEST AAAAKAAA TTTMTTTT 54 9 1.0e-009 3.0e-005 # AAAATAAA TTTATTTT 31 3 2.6e-007 7.5e-003 # AAAAGAAA TTTCTTTT 25 6 3.6e-004 1.1e+001 letter-probability matrix: alength= 4 w= 8 nsites= 58 E= 3.0e-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 0.000000 0.000000 0.413793 0.586207 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 ACCRACT DREME-4 # Word RC Word Pos Neg P-value E-value # BEST ACCRACT AGTYGGT 43 6 1.4e-008 4.1e-004 # ACCAACT AGTTGGT 29 4 4.0e-006 1.2e-001 # ACCGACT AGTCGGT 14 2 1.9e-003 5.7e+001 letter-probability matrix: alength= 4 w= 7 nsites= 43 E= 4.1e-004 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.674419 0.000000 0.325581 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 MOTIF CGCCTTA DREME-5 # Word RC Word Pos Neg P-value E-value # BEST CGCCTTA TAAGGCG 28 2 3.1e-007 9.0e-003 # CGCCTTA TAAGGCG 28 2 3.1e-007 9.0e-003 letter-probability matrix: alength= 4 w= 7 nsites= 28 E= 9.0e-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 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 AAGARA DREME-6 # Word RC Word Pos Neg P-value E-value # BEST AAGARA TYTCTT 137 73 4.0e-007 1.2e-002 # AAGAGA TCTCTT 50 18 3.7e-005 1.1e+000 # AAGAAA TTTCTT 97 58 4.2e-004 1.2e+001 letter-probability matrix: alength= 4 w= 6 nsites= 149 E= 1.2e-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 0.664430 0.000000 0.335570 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ACGGWTG DREME-7 # Word RC Word Pos Neg P-value E-value # BEST ACGGWTG CAWCCGT 24 1 5.9e-007 1.7e-002 # ACGGATG CATCCGT 15 1 2.4e-004 6.8e+000 # ACGGTTG CAACCGT 9 0 1.9e-003 5.4e+001 letter-probability matrix: alength= 4 w= 7 nsites= 27 E= 1.7e-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 0.000000 0.000000 1.000000 0.000000 0.666667 0.000000 0.000000 0.333333 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 MOTIF RCGGGGA DREME-8 # Word RC Word Pos Neg P-value E-value # BEST RCGGGGA TCCCCGY 26 2 1.1e-006 3.2e-002 # ACGGGGA TCCCCGT 15 1 2.4e-004 6.7e+000 # GCGGGGA TCCCCGC 11 1 3.0e-003 8.6e+001 letter-probability matrix: alength= 4 w= 7 nsites= 26 E= 3.2e-002 0.576923 0.000000 0.423077 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 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 29.33 seconds