# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SOK2/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SOK2/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SOK2/seqs-shuffled # positives: 778 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SOK2/seqs-centered (Sat Jan 18 14:11:02 PST 2020) # negatives: 778 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SOK2/seqs-shuffled (Sat Jan 18 14:11:02 PST 2020) # host: kali.stanford.edu # when: Sat Jan 18 14:27:29 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 0.294 C 0.203 G 0.207 T 0.295 MOTIF TCGAACCB DREME-1 # Word RC Word Pos Neg P-value E-value # BEST TCGAACCB VGGTTCGA 65 1 2.3e-019 8.4e-015 # TCGAACCC GGGTTCGA 34 1 7.4e-010 2.7e-005 # TCGAACCG CGGTTCGA 18 0 3.5e-006 1.2e-001 # TCGAACCT AGGTTCGA 13 0 1.2e-004 4.2e+000 letter-probability matrix: alength= 4 w= 8 nsites= 65 E= 8.4e-015 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 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 0.523077 0.276923 0.200000 MOTIF ARRAAAAA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST ARRAAAAA TTTTTYYT 153 50 2.4e-015 8.7e-011 # AGAAAAAA TTTTTTCT 58 14 4.3e-008 1.5e-003 # AAAAAAAA TTTTTTTT 80 27 5.5e-008 2.0e-003 # AAGAAAAA TTTTTCTT 52 13 3.5e-007 1.3e-002 # AGGAAAAA TTTTTCCT 21 5 1.2e-003 4.1e+001 letter-probability matrix: alength= 4 w= 8 nsites= 171 E= 8.7e-011 1.000000 0.000000 0.000000 0.000000 0.637427 0.000000 0.362573 0.000000 0.701754 0.000000 0.298246 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 MOTIF ACCACTM DREME-3 # Word RC Word Pos Neg P-value E-value # BEST ACCACTM KAGTGGT 49 8 7.8e-009 2.8e-004 # ACCACTA TAGTGGT 31 4 1.4e-006 4.9e-002 # ACCACTC GAGTGGT 18 5 5.0e-003 1.8e+002 letter-probability matrix: alength= 4 w= 7 nsites= 49 E= 2.8e-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 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.632653 0.367347 0.000000 0.000000 MOTIF CRCCCA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CRCCCA TGGGYG 86 32 1.3e-007 4.5e-003 # CACCCA TGGGTG 53 19 2.6e-005 9.1e-001 # CGCCCA TGGGCG 33 13 2.0e-003 7.1e+001 letter-probability matrix: alength= 4 w= 6 nsites= 99 E= 4.5e-003 0.000000 1.000000 0.000000 0.000000 0.656566 0.000000 0.343434 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 CABACGC DREME-5 # Word RC Word Pos Neg P-value E-value # BEST CABACGC GCGTVTG 42 8 4.0e-007 1.4e-002 # CATACGC GCGTATG 15 2 1.1e-003 3.9e+001 # CACACGC GCGTGTG 12 2 6.3e-003 2.2e+002 # CAGACGC GCGTCTG 15 4 9.3e-003 3.3e+002 letter-probability matrix: alength= 4 w= 7 nsites= 42 E= 1.4e-002 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.285714 0.357143 0.357143 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 # Stopping reason: E-value threshold exceeded # Running time: 48.09 seconds