# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--SFL1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--SFL1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--SFL1/seqs-shuffled # positives: 825 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--SFL1/seqs-centered (Sun Jan 19 01:08:32 PST 2020) # negatives: 825 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--SFL1/seqs-shuffled (Sun Jan 19 01:08:32 PST 2020) # host: kali.stanford.edu # when: Sun Jan 19 01:25:19 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 0.198 G 0.199 T 0.300 MOTIF GTTCGA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GTTCGA TCGAAC 105 25 4.5e-014 1.6e-009 # GTTCGA TCGAAC 105 25 4.5e-014 1.6e-009 letter-probability matrix: alength= 4 w= 6 nsites= 105 E= 1.6e-009 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 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF SAAGA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST SAAGA TCTTS 462 313 1.2e-013 4.4e-009 # GAAGA TCTTC 283 168 1.3e-010 4.6e-006 # CAAGA TCTTG 272 197 2.6e-005 9.3e-001 letter-probability matrix: alength= 4 w= 5 nsites= 684 E= 4.4e-009 0.000000 0.489766 0.510234 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 AAAAADAA DREME-3 # Word RC Word Pos Neg P-value E-value # BEST AAAAADAA TTHTTTTT 147 68 4.2e-009 1.4e-004 # AAAAATAA TTATTTTT 55 16 1.2e-006 4.0e-002 # AAAAAAAA TTTTTTTT 79 43 4.6e-004 1.6e+001 # AAAAAGAA TTCTTTTT 34 15 4.2e-003 1.4e+002 letter-probability matrix: alength= 4 w= 8 nsites= 164 E= 1.4e-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 0.469512 0.000000 0.176829 0.353659 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF TACCR DREME-4 # Word RC Word Pos Neg P-value E-value # BEST TACCR YGGTA 277 179 4.3e-008 1.5e-003 # TACCA TGGTA 192 114 4.8e-007 1.7e-002 # TACCG CGGTA 123 78 4.5e-004 1.5e+001 letter-probability matrix: alength= 4 w= 5 nsites= 344 E= 1.5e-003 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.619186 0.000000 0.380814 0.000000 MOTIF CAASTTGG DREME-5 # Word RC Word Pos Neg P-value E-value # BEST CAASTTGG CCAASTTG 26 1 1.7e-007 5.8e-003 # CAAGTTGG CCAACTTG 18 0 3.5e-006 1.2e-001 # CAACTTGG CCAAGTTG 19 1 1.8e-005 6.1e-001 letter-probability matrix: alength= 4 w= 8 nsites= 27 E= 5.8e-003 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 0.555556 0.444444 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 MOTIF CAACARA DREME-6 # Word RC Word Pos Neg P-value E-value # BEST CAACARA TYTGTTG 62 20 1.1e-006 3.5e-002 # CAACAGA TCTGTTG 21 2 3.0e-005 9.9e-001 # CAACAAA TTTGTTG 41 18 1.6e-003 5.3e+001 letter-probability matrix: alength= 4 w= 7 nsites= 63 E= 3.5e-002 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 1.000000 0.000000 0.000000 0.000000 0.666667 0.000000 0.333333 0.000000 1.000000 0.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 35.49 seconds