# DREME 4.12.0 # command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--MOT3/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--MOT3/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--MOT3/seqs-shuffled # positives: 904 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--MOT3/seqs-centered (Sat Jan 18 19:47:07 PST 2020) # negatives: 904 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--MOT3/seqs-shuffled (Sat Jan 18 19:47:07 PST 2020) # host: kali.stanford.edu # when: Sat Jan 18 20:03:41 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 0.298 C 0.203 G 0.202 T 0.297 MOTIF TCGAACCB DREME-1 # Word RC Word Pos Neg P-value E-value # BEST TCGAACCB VGGTTCGA 73 7 8.3e-016 3.1e-011 # TCGAACCT AGGTTCGA 21 0 4.2e-007 1.6e-002 # TCGAACCC GGGTTCGA 27 3 3.6e-006 1.3e-001 # TCGAACCG CGGTTCGA 25 4 4.6e-005 1.7e+000 letter-probability matrix: alength= 4 w= 8 nsites= 73 E= 3.1e-011 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 0.369863 0.342466 0.287671 MOTIF YGGTAR DREME-2 # Word RC Word Pos Neg P-value E-value # BEST YGGTAR YTACCR 193 101 2.6e-009 9.7e-005 # TGGTAA TTACCA 83 46 4.7e-004 1.7e+001 # CGGTAG CTACCG 38 14 5.1e-004 1.9e+001 # TGGTAG CTACCA 54 27 1.4e-003 5.4e+001 # CGGTAA TTACCG 37 18 6.5e-003 2.4e+002 letter-probability matrix: alength= 4 w= 6 nsites= 219 E= 9.7e-005 0.000000 0.351598 0.000000 0.648402 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.570776 0.000000 0.429224 0.000000 MOTIF AAGAAAHA DREME-3 # Word RC Word Pos Neg P-value E-value # BEST AAGAAAHA TDTTTCTT 91 34 6.6e-008 2.4e-003 # AAGAAACA TGTTTCTT 20 4 7.2e-004 2.6e+001 # AAGAAAAA TTTTTCTT 49 23 1.2e-003 4.4e+001 # AAGAAATA TATTTCTT 23 7 2.4e-003 8.9e+001 letter-probability matrix: alength= 4 w= 8 nsites= 96 E= 2.4e-003 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 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.552083 0.208333 0.000000 0.239583 1.000000 0.000000 0.000000 0.000000 MOTIF CGCCTTA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CGCCTTA TAAGGCG 30 2 9.9e-008 3.6e-003 # CGCCTTA TAAGGCG 30 2 9.9e-008 3.6e-003 letter-probability matrix: alength= 4 w= 7 nsites= 30 E= 3.6e-003 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 1.000000 0.000000 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 AASTTGGT DREME-5 # Word RC Word Pos Neg P-value E-value # BEST AASTTGGT ACCAASTT 22 0 2.1e-007 7.6e-003 # AAGTTGGT ACCAACTT 15 0 2.9e-005 1.0e+000 # AACTTGGT ACCAAGTT 7 0 7.7e-003 2.8e+002 letter-probability matrix: alength= 4 w= 8 nsites= 22 E= 7.6e-003 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.318182 0.681818 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 MOTIF AAGATK DREME-6 # Word RC Word Pos Neg P-value E-value # BEST AAGATK MATCTT 207 126 5.5e-007 2.0e-002 # AAGATG CATCTT 89 50 3.7e-004 1.4e+001 # AAGATT AATCTT 126 84 1.3e-003 4.6e+001 letter-probability matrix: alength= 4 w= 6 nsites= 234 E= 2.0e-002 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 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.384615 0.615385 MOTIF AAAADAAA DREME-7 # Word RC Word Pos Neg P-value E-value # BEST AAAADAAA TTTHTTTT 125 61 4.4e-007 1.6e-002 # AAAAAAAA TTTTTTTT 69 34 2.5e-004 9.1e+000 # AAAATAAA TTTATTTT 39 16 1.1e-003 4.1e+001 # AAAAGAAA TTTCTTTT 31 14 7.4e-003 2.7e+002 letter-probability matrix: alength= 4 w= 8 nsites= 137 E= 1.6e-002 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 0.510949 0.000000 0.197080 0.291971 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 CAWCAAG DREME-8 # Word RC Word Pos Neg P-value E-value # BEST CAWCAAG CTTGWTG 48 12 1.1e-006 4.0e-002 # CAACAAG CTTGTTG 30 7 8.3e-005 3.0e+000 # CATCAAG CTTGATG 18 5 5.1e-003 1.8e+002 letter-probability matrix: alength= 4 w= 7 nsites= 48 E= 4.0e-002 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.625000 0.000000 0.000000 0.375000 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 0.000000 1.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 50.85 seconds