# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--MOT1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--MOT1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--MOT1/seqs-shuffled # positives: 519 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--MOT1/seqs-centered (Sat Jan 18 23:50:16 PST 2020) # negatives: 519 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--MOT1/seqs-shuffled (Sat Jan 18 23:50:16 PST 2020) # host: kali.stanford.edu # when: Sun Jan 19 00:02:30 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 0.295 C 0.205 G 0.202 T 0.299 MOTIF GGTTCRA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GGTTCRA TYGAACC 91 11 1.3e-018 4.2e-014 # GGTTCGA TCGAACC 62 4 1.9e-015 5.9e-011 # GGTTCAA TTGAACC 29 7 1.2e-004 3.8e+000 letter-probability matrix: alength= 4 w= 7 nsites= 91 E= 4.2e-014 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 0.318681 0.000000 0.681319 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ACCDCT DREME-2 # Word RC Word Pos Neg P-value E-value # BEST ACCDCT AGHGGT 114 40 4.5e-011 1.4e-006 # ACCACT AGTGGT 64 18 5.5e-008 1.7e-003 # ACCGCT AGCGGT 23 5 3.9e-004 1.2e+001 # ACCTCT AGAGGT 40 17 1.2e-003 3.8e+001 letter-probability matrix: alength= 4 w= 6 nsites= 135 E= 1.4e-006 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.518519 0.000000 0.170370 0.311111 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF AAAAAAAD DREME-3 # Word RC Word Pos Neg P-value E-value # BEST AAAAAAAD HTTTTTTT 94 34 7.5e-009 2.3e-004 # AAAAAAAT ATTTTTTT 55 18 4.2e-006 1.3e-001 # AAAAAAAA TTTTTTTT 41 17 8.3e-004 2.5e+001 # AAAAAAAG CTTTTTTT 34 14 2.3e-003 6.8e+001 letter-probability matrix: alength= 4 w= 8 nsites= 104 E= 2.3e-004 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 0.250000 0.000000 0.269231 0.480769 MOTIF AGAWGAT DREME-4 # Word RC Word Pos Neg P-value E-value # BEST AGAWGAT ATCWTCT 41 7 1.8e-007 5.3e-003 # AGAAGAT ATCTTCT 28 4 7.3e-006 2.2e-001 # AGATGAT ATCATCT 16 3 2.0e-003 6.2e+001 letter-probability matrix: alength= 4 w= 7 nsites= 43 E= 5.3e-003 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.674419 0.000000 0.000000 0.325581 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF AGTTGGK DREME-5 # Word RC Word Pos Neg P-value E-value # BEST AGTTGGK MCCAACT 37 6 5.1e-007 1.5e-002 # AGTTGGT ACCAACT 27 6 1.3e-004 3.9e+000 # AGTTGGG CCCAACT 10 0 9.3e-004 2.8e+001 letter-probability matrix: alength= 4 w= 7 nsites= 38 E= 1.5e-002 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 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.263158 0.736842 # Stopping reason: E-value threshold exceeded # Running time: 21.40 seconds