# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--TEC1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--TEC1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--TEC1/seqs-shuffled # positives: 796 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--TEC1/seqs-centered (Sat Jan 18 15:28:09 PST 2020) # negatives: 796 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--TEC1/seqs-shuffled (Sat Jan 18 15:28:09 PST 2020) # host: kali.stanford.edu # when: Sat Jan 18 15:47:45 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 0.299 C 0.201 G 0.200 T 0.300 MOTIF GGWTCGA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GGWTCGA TCGAWCC 89 13 3.2e-016 1.1e-011 # GGTTCGA TCGAACC 70 10 4.9e-013 1.7e-008 # GGATCGA TCGATCC 24 3 2.1e-005 7.7e-001 letter-probability matrix: alength= 4 w= 7 nsites= 89 E= 1.1e-011 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.247191 0.000000 0.000000 0.752809 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 AARAAAAA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST AARAAAAA TTTTTYTT 121 47 7.6e-010 2.7e-005 # AAAAAAAA TTTTTTTT 85 29 2.5e-008 9.0e-004 # AAGAAAAA TTTTTCTT 52 20 7.4e-005 2.6e+000 letter-probability matrix: alength= 4 w= 8 nsites= 142 E= 2.7e-005 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.640845 0.000000 0.359155 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 MOTIF CRGTAGC DREME-3 # Word RC Word Pos Neg P-value E-value # BEST CRGTAGC GCTACYG 32 1 2.9e-009 1.0e-004 # CGGTAGC GCTACCG 18 1 3.5e-005 1.2e+000 # CAGTAGC GCTACTG 14 0 5.8e-005 2.0e+000 letter-probability matrix: alength= 4 w= 7 nsites= 32 E= 1.0e-004 0.000000 1.000000 0.000000 0.000000 0.437500 0.000000 0.562500 0.000000 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 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF ACCWCT DREME-4 # Word RC Word Pos Neg P-value E-value # BEST ACCWCT AGWGGT 117 47 4.0e-009 1.4e-004 # ACCACT AGTGGT 74 29 2.7e-006 9.6e-002 # ACCTCT AGAGGT 48 19 2.0e-004 7.0e+000 letter-probability matrix: alength= 4 w= 6 nsites= 130 E= 1.4e-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 0.615385 0.000000 0.000000 0.384615 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF SAAGA DREME-5 # Word RC Word Pos Neg P-value E-value # BEST SAAGA TCTTS 397 286 1.2e-008 4.2e-004 # GAAGA TCTTC 235 157 3.6e-006 1.2e-001 # CAAGA TCTTG 234 167 6.8e-005 2.4e+000 letter-probability matrix: alength= 4 w= 5 nsites= 577 E= 4.2e-004 0.000000 0.506066 0.493934 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 CACCAKC DREME-6 # Word RC Word Pos Neg P-value E-value # BEST CACCAKC GMTGGTG 32 3 1.6e-007 5.5e-003 # CACCATC GATGGTG 18 2 1.9e-004 6.3e+000 # CACCAGC GCTGGTG 14 1 4.6e-004 1.6e+001 letter-probability matrix: alength= 4 w= 7 nsites= 33 E= 5.5e-003 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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.424242 0.575758 0.000000 1.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 35.68 seconds