# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/seqs-shuffled # positives: 583 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/seqs-centered (Sun Jan 19 04:39:28 PST 2020) # negatives: 583 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--PDR8/seqs-shuffled (Sun Jan 19 04:39:28 PST 2020) # host: kali.stanford.edu # when: Sun Jan 19 04:54:50 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 0.302 C 0.199 G 0.197 T 0.302 MOTIF GGWTCGA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GGWTCGA TCGAWCC 98 5 1.6e-025 5.0e-021 # GGTTCGA TCGAACC 82 3 1.5e-022 4.7e-018 # GGATCGA TCGATCC 25 2 2.3e-006 7.0e-002 letter-probability matrix: alength= 4 w= 7 nsites= 98 E= 5.0e-021 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.204082 0.000000 0.000000 0.795918 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 AAAAARA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST AAAAARA TYTTTTT 170 66 1.4e-014 4.2e-010 # AAAAAAA TTTTTTT 129 47 8.4e-012 2.6e-007 # AAAAAGA TCTTTTT 68 31 6.7e-005 2.0e+000 letter-probability matrix: alength= 4 w= 7 nsites= 200 E= 4.2e-010 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 0.685000 0.000000 0.315000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ACCACTM DREME-3 # Word RC Word Pos Neg P-value E-value # BEST ACCACTM KAGTGGT 59 8 1.6e-011 4.8e-007 # ACCACTA TAGTGGT 36 5 2.6e-007 7.9e-003 # ACCACTC GAGTGGT 23 3 3.7e-005 1.1e+000 letter-probability matrix: alength= 4 w= 7 nsites= 59 E= 4.8e-007 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.610169 0.389831 0.000000 0.000000 MOTIF CGCSTTA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CGCSTTA TAASGCG 58 9 1.2e-010 3.5e-006 # CGCCTTA TAAGGCG 43 7 5.9e-008 1.8e-003 # CGCGTTA TAACGCG 15 2 1.1e-003 3.3e+001 letter-probability matrix: alength= 4 w= 7 nsites= 58 E= 3.5e-006 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 0.741379 0.258621 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 RCACCCA DREME-5 # Word RC Word Pos Neg P-value E-value # BEST RCACCCA TGGGTGY 48 8 1.2e-008 3.5e-004 # ACACCCA TGGGTGT 30 4 2.3e-006 7.0e-002 # GCACCCA TGGGTGC 19 4 1.2e-003 3.6e+001 letter-probability matrix: alength= 4 w= 7 nsites= 65 E= 3.5e-004 0.676923 0.000000 0.323077 0.000000 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 MOTIF ACCAACTK DREME-6 # Word RC Word Pos Neg P-value E-value # BEST ACCAACTK MAGTTGGT 27 1 8.1e-008 2.4e-003 # ACCAACTG CAGTTGGT 15 0 2.8e-005 8.4e-001 # ACCAACTT AAGTTGGT 12 1 1.6e-003 4.9e+001 letter-probability matrix: alength= 4 w= 8 nsites= 27 E= 2.4e-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 0.555556 0.444444 MOTIF ACCGTGS DREME-7 # Word RC Word Pos Neg P-value E-value # BEST ACCGTGS SCACGGT 26 1 1.6e-007 4.8e-003 # ACCGTGG CCACGGT 12 0 2.3e-004 6.9e+000 # ACCGTGC GCACGGT 14 1 4.6e-004 1.4e+001 letter-probability matrix: alength= 4 w= 7 nsites= 26 E= 4.8e-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 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 0.538462 0.461538 0.000000 MOTIF ATCKTGAG DREME-8 # Word RC Word Pos Neg P-value E-value # BEST ATCKTGAG CTCAMGAT 19 0 1.6e-006 4.9e-002 # ATCGTGAG CTCACGAT 12 0 2.3e-004 6.9e+000 # ATCTTGAG CTCAAGAT 7 0 7.7e-003 2.3e+002 letter-probability matrix: alength= 4 w= 8 nsites= 19 E= 4.9e-002 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.631579 0.368421 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 33.99 seconds