# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/seqs-shuffled # positives: 899 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/seqs-centered (Sat Jan 18 11:03:14 PST 2020) # negatives: 899 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--STE12/seqs-shuffled (Sat Jan 18 11:03:14 PST 2020) # host: kali.stanford.edu # when: Sat Jan 18 11:19:50 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 0.201 G 0.203 T 0.299 MOTIF SGGTTCGA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST SGGTTCGA TCGAACCS 51 0 2.1e-016 7.9e-012 # GGGTTCGA TCGAACCC 31 0 3.6e-010 1.3e-005 # CGGTTCGA TCGAACCG 20 0 8.6e-007 3.2e-002 letter-probability matrix: alength= 4 w= 8 nsites= 51 E= 7.9e-012 0.000000 0.392157 0.607843 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 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AAGAW DREME-2 # Word RC Word Pos Neg P-value E-value # BEST AAGAW WTCTT 565 435 4.3e-010 1.6e-005 # AAGAA TTCTT 396 287 7.4e-008 2.7e-003 # AAGAT ATCTT 299 222 3.8e-005 1.4e+000 letter-probability matrix: alength= 4 w= 5 nsites= 903 E= 1.6e-005 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 0.606866 0.000000 0.000000 0.393134 MOTIF CGTTGCM DREME-3 # Word RC Word Pos Neg P-value E-value # BEST CGTTGCM KGCAACG 34 2 7.3e-009 2.6e-004 # CGTTGCC GGCAACG 23 2 8.6e-006 3.1e-001 # CGTTGCA TGCAACG 11 0 4.7e-004 1.7e+001 letter-probability matrix: alength= 4 w= 7 nsites= 34 E= 2.6e-004 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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.323529 0.676471 0.000000 0.000000 MOTIF CTGCYGC DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CTGCYGC GCRGCAG 39 5 5.1e-008 1.8e-003 # CTGCTGC GCAGCAG 24 2 4.6e-006 1.6e-001 # CTGCCGC GCGGCAG 17 3 1.2e-003 4.3e+001 letter-probability matrix: alength= 4 w= 7 nsites= 41 E= 1.8e-003 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 0.390244 0.000000 0.609756 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF AGTGGTW DREME-5 # Word RC Word Pos Neg P-value E-value # BEST AGTGGTW WACCACT 62 18 2.3e-007 8.3e-003 # AGTGGTA TACCACT 29 5 1.6e-005 5.8e-001 # AGTGGTT AACCACT 40 13 1.1e-004 3.9e+000 letter-probability matrix: alength= 4 w= 7 nsites= 73 E= 8.3e-003 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 0.410959 0.000000 0.000000 0.589041 MOTIF AWAAAAA DREME-6 # Word RC Word Pos Neg P-value E-value # BEST AWAAAAA TTTTTWT 157 86 6.0e-007 2.1e-002 # AAAAAAA TTTTTTT 116 57 1.5e-006 5.1e-002 # ATAAAAA TTTTTAT 64 37 3.7e-003 1.3e+002 letter-probability matrix: alength= 4 w= 7 nsites= 187 E= 2.1e-002 1.000000 0.000000 0.000000 0.000000 0.663102 0.000000 0.000000 0.336898 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 # Stopping reason: E-value threshold exceeded # Running time: 38.43 seconds