# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--ZAP1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--ZAP1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--ZAP1/seqs-shuffled # positives: 567 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--ZAP1/seqs-centered (Fri Jan 17 21:53:17 PST 2020) # negatives: 567 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--ZAP1/seqs-shuffled (Fri Jan 17 21:53:17 PST 2020) # host: kali.stanford.edu # when: Fri Jan 17 22:07:48 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 0.303 C 0.202 G 0.198 T 0.297 MOTIF GGWTCGA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GGWTCGA TCGAWCC 97 4 2.7e-026 8.2e-022 # GGTTCGA TCGAACC 79 3 1.3e-021 3.9e-017 # GGATCGA TCGATCC 23 1 1.2e-006 3.8e-002 letter-probability matrix: alength= 4 w= 7 nsites= 97 E= 8.2e-022 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.216495 0.000000 0.000000 0.783505 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 AAAAADAA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST AAAAADAA TTHTTTTT 132 53 1.1e-010 3.3e-006 # AAAAATAA TTATTTTT 50 15 4.5e-006 1.4e-001 # AAAAAAAA TTTTTTTT 64 27 3.4e-005 1.1e+000 # AAAAAGAA TTCTTTTT 45 17 1.7e-004 5.3e+000 letter-probability matrix: alength= 4 w= 8 nsites= 158 E= 3.3e-006 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 0.424051 0.000000 0.265823 0.310127 1.000000 0.000000 0.000000 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 48 7 3.0e-009 9.4e-005 # ACCACTA TAGTGGT 31 5 4.8e-006 1.5e-001 # ACCACTC GAGTGGT 17 2 3.3e-004 1.0e+001 letter-probability matrix: alength= 4 w= 7 nsites= 48 E= 9.4e-005 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 0.645833 0.354167 0.000000 0.000000 MOTIF ACCAACTK DREME-4 # Word RC Word Pos Neg P-value E-value # BEST ACCAACTK MAGTTGGT 25 0 2.3e-008 7.0e-004 # ACCAACTT AAGTTGGT 18 0 3.3e-006 1.0e-001 # ACCAACTG CAGTTGGT 7 0 7.7e-003 2.4e+002 letter-probability matrix: alength= 4 w= 8 nsites= 25 E= 7.0e-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 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 0.280000 0.720000 MOTIF GRAGA DREME-5 # Word RC Word Pos Neg P-value E-value # BEST GRAGA TCTYC 244 164 4.8e-007 1.5e-002 # GAAGA TCTTC 169 113 7.6e-005 2.3e+000 # GGAGA TCTCC 110 71 1.0e-003 3.1e+001 letter-probability matrix: alength= 4 w= 5 nsites= 307 E= 1.5e-002 0.000000 0.000000 1.000000 0.000000 0.625407 0.000000 0.374593 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 ACYCCGAT DREME-6 # Word RC Word Pos Neg P-value E-value # BEST ACYCCGAT ATCGGRGT 19 0 1.6e-006 4.8e-002 # ACTCCGAT ATCGGAGT 10 0 9.4e-004 2.8e+001 # ACCCCGAT ATCGGGGT 9 0 1.9e-003 5.6e+001 letter-probability matrix: alength= 4 w= 8 nsites= 19 E= 4.8e-002 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.473684 0.000000 0.526316 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 # Stopping reason: E-value threshold exceeded # Running time: 25.50 seconds