# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--ACE2/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--ACE2/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--ACE2/seqs-shuffled # positives: 510 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--ACE2/seqs-centered (Sat Jan 18 07:08:53 PST 2020) # negatives: 510 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--ACE2/seqs-shuffled (Sat Jan 18 07:08:53 PST 2020) # host: kali.stanford.edu # when: Sat Jan 18 07:20:17 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 0.296 C 0.205 G 0.197 T 0.302 MOTIF GGTTCRA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GGTTCRA TYGAACC 98 9 3.3e-022 9.9e-018 # GGTTCGA TCGAACC 74 5 3.3e-018 9.9e-014 # GGTTCAA TTGAACC 27 5 4.5e-005 1.3e+000 letter-probability matrix: alength= 4 w= 7 nsites= 101 E= 9.9e-018 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 0.267327 0.000000 0.732673 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AAAAADAA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST AAAAADAA TTHTTTTT 112 33 4.2e-013 1.3e-008 # AAAAATAA TTATTTTT 47 11 5.2e-007 1.6e-002 # AAAAAGAA TTCTTTTT 36 8 8.6e-006 2.6e-001 # AAAAAAAA TTTTTTTT 48 17 4.6e-005 1.4e+000 letter-probability matrix: alength= 4 w= 8 nsites= 135 E= 1.3e-008 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 0.400000 0.000000 0.237037 0.362963 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AGTGGTH DREME-3 # Word RC Word Pos Neg P-value E-value # BEST AGTGGTH DACCACT 56 9 3.3e-010 9.8e-006 # AGTGGTT AACCACT 29 5 1.5e-005 4.3e-001 # AGTGGTA TACCACT 26 4 2.3e-005 7.0e-001 # AGTGGTC GACCACT 7 0 7.7e-003 2.3e+002 letter-probability matrix: alength= 4 w= 7 nsites= 63 E= 9.8e-006 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 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.412698 0.111111 0.000000 0.476190 MOTIF CGCCTTA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CGCCTTA TAAGGCG 23 0 9.3e-008 2.8e-003 # CGCCTTA TAAGGCG 23 0 9.3e-008 2.8e-003 letter-probability matrix: alength= 4 w= 7 nsites= 23 E= 2.8e-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 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 GCKCTACC DREME-5 # Word RC Word Pos Neg P-value E-value # BEST GCKCTACC GGTAGMGC 22 0 1.9e-007 5.6e-003 # GCGCTACC GGTAGCGC 13 0 1.1e-004 3.4e+000 # GCTCTACC GGTAGAGC 9 0 1.9e-003 5.6e+001 letter-probability matrix: alength= 4 w= 8 nsites= 22 E= 5.6e-003 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.590909 0.409091 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 # Stopping reason: E-value threshold exceeded # Running time: 20.19 seconds