# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--MAC1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--MAC1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--MAC1/seqs-shuffled # positives: 503 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--MAC1/seqs-centered (Sun Jan 19 02:48:57 PST 2020) # negatives: 503 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--MAC1/seqs-shuffled (Sun Jan 19 02:48:57 PST 2020) # host: kali.stanford.edu # when: Sun Jan 19 03:00:15 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 0.307 C 0.193 G 0.196 T 0.304 MOTIF GGTTCRA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GGTTCRA TYGAACC 69 5 1.0e-016 3.1e-012 # GGTTCGA TCGAACC 48 3 3.5e-012 1.0e-007 # GGTTCAA TTGAACC 22 2 1.5e-005 4.4e-001 letter-probability matrix: alength= 4 w= 7 nsites= 70 E= 3.1e-012 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 0.314286 0.000000 0.685714 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AAAAAAMT DREME-2 # Word RC Word Pos Neg P-value E-value # BEST AAAAAAMT AKTTTTTT 87 31 2.1e-008 6.3e-004 # AAAAAAAT ATTTTTTT 63 24 7.6e-006 2.2e-001 # AAAAAACT AGTTTTTT 26 9 2.6e-003 7.6e+001 letter-probability matrix: alength= 4 w= 8 nsites= 94 E= 6.3e-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 0.723404 0.276596 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF CTWAACCA DREME-3 # Word RC Word Pos Neg P-value E-value # BEST CTWAACCA TGGTTWAG 24 0 4.5e-008 1.3e-003 # CTTAACCA TGGTTAAG 16 0 1.4e-005 4.0e-001 # CTAAACCA TGGTTTAG 8 0 3.8e-003 1.1e+002 letter-probability matrix: alength= 4 w= 8 nsites= 24 E= 1.3e-003 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.333333 0.000000 0.000000 0.666667 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 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF GCKCTAC DREME-4 # Word RC Word Pos Neg P-value E-value # BEST GCKCTAC GTAGMGC 22 0 1.9e-007 5.6e-003 # GCGCTAC GTAGCGC 12 0 2.3e-004 6.7e+000 # GCTCTAC GTAGAGC 10 0 9.3e-004 2.7e+001 letter-probability matrix: alength= 4 w= 7 nsites= 22 E= 5.6e-003 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.545455 0.454545 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CTCKGCC DREME-5 # Word RC Word Pos Neg P-value E-value # BEST CTCKGCC GGCMGAG 21 0 3.9e-007 1.1e-002 # CTCGGCC GGCCGAG 13 0 1.1e-004 3.3e+000 # CTCTGCC GGCAGAG 9 0 1.9e-003 5.5e+001 letter-probability matrix: alength= 4 w= 7 nsites= 22 E= 1.1e-002 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 0.000000 0.590909 0.409091 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CCRTACA DREME-6 # Word RC Word Pos Neg P-value E-value # BEST CCRTACA TGTAYGG 33 5 1.4e-006 4.2e-002 # CCATACA TGTATGG 18 3 6.7e-004 2.0e+001 # CCGTACA TGTACGG 15 2 1.1e-003 3.2e+001 letter-probability matrix: alength= 4 w= 7 nsites= 38 E= 4.2e-002 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.552632 0.000000 0.447368 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 23.92 seconds