# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--PDR8/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--PDR8/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--PDR8/seqs-shuffled # positives: 508 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--PDR8/seqs-centered (Sun Jan 19 11:17:27 PST 2020) # negatives: 508 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--PDR8/seqs-shuffled (Sun Jan 19 11:17:27 PST 2020) # host: kali.stanford.edu # when: Sun Jan 19 11:28:46 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 0.200 G 0.200 T 0.300 MOTIF GGTTCRA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GGTTCRA TYGAACC 89 7 4.4e-021 1.3e-016 # GGTTCGA TCGAACC 63 3 1.0e-016 3.0e-012 # GGTTCAA TTGAACC 31 4 1.2e-006 3.6e-002 letter-probability matrix: alength= 4 w= 7 nsites= 94 E= 1.3e-016 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 0.329787 0.000000 0.670213 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AAARAAAW DREME-2 # Word RC Word Pos Neg P-value E-value # BEST AAARAAAW WTTTYTTT 123 54 6.6e-009 2.0e-004 # AAAAAAAT ATTTTTTT 67 32 1.4e-004 4.3e+000 # AAAGAAAA TTTTCTTT 25 7 9.0e-004 2.7e+001 # AAAAAAAA TTTTTTTT 55 28 1.4e-003 4.1e+001 # AAAGAAAT ATTTCTTT 16 4 5.5e-003 1.7e+002 letter-probability matrix: alength= 4 w= 8 nsites= 137 E= 2.0e-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 0.700730 0.000000 0.299270 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 0.503650 0.000000 0.000000 0.496350 MOTIF ACCWCT DREME-3 # Word RC Word Pos Neg P-value E-value # BEST ACCWCT AGWGGT 87 29 5.0e-009 1.5e-004 # ACCACT AGTGGT 60 20 1.8e-006 5.5e-002 # ACCTCT AGAGGT 29 10 1.4e-003 4.2e+001 letter-probability matrix: alength= 4 w= 6 nsites= 96 E= 1.5e-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 0.697917 0.000000 0.000000 0.302083 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF ACCAACTK DREME-4 # Word RC Word Pos Neg P-value E-value # BEST ACCAACTK MAGTTGGT 26 1 1.5e-007 4.5e-003 # ACCAACTG CAGTTGGT 12 0 2.3e-004 6.8e+000 # ACCAACTT AAGTTGGT 14 1 4.5e-004 1.3e+001 letter-probability matrix: alength= 4 w= 8 nsites= 26 E= 4.5e-003 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 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.461538 0.538462 MOTIF CGGATGY DREME-5 # Word RC Word Pos Neg P-value E-value # BEST CGGATGY RCATCCG 26 1 1.5e-007 4.5e-003 # CGGATGT ACATCCG 18 1 3.3e-005 9.8e-001 # CGGATGC GCATCCG 8 0 3.8e-003 1.1e+002 letter-probability matrix: alength= 4 w= 7 nsites= 29 E= 4.5e-003 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 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.275862 0.000000 0.724138 MOTIF GTAKGAC DREME-6 # Word RC Word Pos Neg P-value E-value # BEST GTAKGAC GTCMTAC 20 0 7.9e-007 2.3e-002 # GTAGGAC GTCCTAC 11 0 4.6e-004 1.4e+001 # GTATGAC GTCATAC 9 0 1.9e-003 5.5e+001 letter-probability matrix: alength= 4 w= 7 nsites= 21 E= 2.3e-002 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 0.523810 0.476190 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CACCCA DREME-7 # Word RC Word Pos Neg P-value E-value # BEST CACCCA TGGGTG 55 16 8.4e-007 2.5e-002 # CACCCA TGGGTG 55 16 8.4e-007 2.5e-002 letter-probability matrix: alength= 4 w= 6 nsites= 74 E= 2.5e-002 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 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 26.29 seconds