# DREME 4.12.0 # command: dreme -v 1 -oc meme_out/tye7_ana/dreme_out -png -dna -p meme_out/tye7_ana/seqs-centered -n meme_out/tye7_ana/seqs-shuffled # positives: 5567 from meme_out/tye7_ana/seqs-centered (Wed May 20 12:00:13 PDT 2020) # negatives: 5567 from meme_out/tye7_ana/seqs-shuffled (Wed May 20 12:00:13 PDT 2020) # host: nandi.stanford.edu # when: Wed May 20 12:13:47 PDT 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 0.308 C 0.192 G 0.192 T 0.308 MOTIF BTTCTTS DREME-1 # Word RC Word Pos Neg P-value E-value # BEST BTTCTTS SAAGAAV 1247 776 2.2e-031 9.7e-027 # TTTCTTC GAAGAAA 382 228 7.6e-011 3.4e-006 # CTTCTTC GAAGAAG 258 140 9.0e-010 4.0e-005 # GTTCTTC GAAGAAC 151 74 1.2e-007 5.3e-003 # TTTCTTG CAAGAAA 306 197 3.8e-007 1.7e-002 # CTTCTTG CAAGAAG 171 112 2.3e-004 1.0e+001 # GTTCTTG CAAGAAC 140 98 3.5e-003 1.6e+002 letter-probability matrix: alength= 4 w= 7 nsites= 1412 E= 9.7e-027 0.000000 0.303116 0.202550 0.494334 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 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.559490 0.440510 0.000000 MOTIF YACCR DREME-2 # Word RC Word Pos Neg P-value E-value # BEST YACCR YGGTR 2481 1914 2.2e-028 9.9e-024 # TACCA TGGTA 1089 767 1.4e-016 6.3e-012 # TACCG CGGTA 558 366 2.3e-011 1.0e-006 # CACCA TGGTG 948 742 3.0e-008 1.3e-003 # CACCG CGGTG 450 335 1.2e-005 5.2e-001 letter-probability matrix: alength= 4 w= 5 nsites= 3304 E= 9.9e-024 0.000000 0.460956 0.000000 0.539044 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.680085 0.000000 0.319915 0.000000 MOTIF GAKGANGA DREME-3 # Word RC Word Pos Neg P-value E-value # BEST GAKGANGA TCNTCMTC 297 116 2.3e-020 9.9e-016 # GATGATGA TCATCATC 93 23 1.4e-011 6.2e-007 # GATGAGGA TCCTCATC 47 13 5.8e-006 2.5e-001 # GATGAAGA TCTTCATC 62 24 2.4e-005 1.0e+000 # GAGGAGGA TCCTCCTC 31 7 5.7e-005 2.4e+000 # GAGGACGA TCGTCCTC 24 6 7.1e-004 3.0e+001 # GATGACGA TCGTCATC 32 11 9.4e-004 4.0e+001 # GAGGATGA TCATCCTC 32 14 5.6e-003 2.4e+002 # GAGGAAGA TCTTCCTC 39 19 5.9e-003 2.5e+002 letter-probability matrix: alength= 4 w= 8 nsites= 324 E= 9.9e-016 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.354938 0.645062 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.299383 0.154321 0.182099 0.364198 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ATATWY DREME-4 # Word RC Word Pos Neg P-value E-value # BEST ATATWY RWATAT 1553 1185 3.1e-016 1.3e-011 # ATATTT AAATAT 850 613 1.6e-011 7.0e-007 # ATATAC GTATAT 325 208 1.2e-007 5.0e-003 # ATATAT ATATAT 322 219 3.3e-006 1.4e-001 # ATATTC GAATAT 516 406 8.8e-005 3.7e+000 letter-probability matrix: alength= 4 w= 6 nsites= 1884 E= 1.3e-011 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.303079 0.000000 0.000000 0.696921 0.000000 0.412420 0.000000 0.587580 MOTIF GCTGCYR DREME-5 # Word RC Word Pos Neg P-value E-value # BEST GCTGCYR YRGCAGC 225 102 2.1e-012 9.1e-008 # GCTGCTG CAGCAGC 79 36 3.5e-005 1.5e+000 # GCTGCCA TGGCAGC 62 25 4.3e-005 1.8e+000 # GCTGCTA TAGCAGC 68 34 4.7e-004 2.0e+001 # GCTGCCG CGGCAGC 25 10 8.3e-003 3.5e+002 letter-probability matrix: alength= 4 w= 7 nsites= 233 E= 9.1e-008 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.369099 0.000000 0.630901 0.549356 0.000000 0.450644 0.000000 MOTIF CYACTR DREME-6 # Word RC Word Pos Neg P-value E-value # BEST CYACTR YAGTRG 705 486 1.0e-011 4.4e-007 # CTACTG CAGTAG 220 135 2.7e-006 1.1e-001 # CTACTA TAGTAG 215 148 2.1e-004 8.7e+000 # CCACTG CAGTGG 165 107 2.2e-004 9.4e+000 # CCACTA TAGTGG 161 121 9.3e-003 3.9e+002 letter-probability matrix: alength= 4 w= 6 nsites= 759 E= 4.4e-007 0.000000 1.000000 0.000000 0.000000 0.000000 0.428195 0.000000 0.571805 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.484848 0.000000 0.515152 0.000000 MOTIF GAARA DREME-7 # Word RC Word Pos Neg P-value E-value # BEST GAARA TYTTC 3242 2906 8.5e-011 3.6e-006 # GAAGA TCTTC 1229 986 4.5e-009 1.9e-004 # GAAAA TTTTC 2541 2321 1.4e-005 6.0e-001 letter-probability matrix: alength= 4 w= 5 nsites= 4820 E= 3.6e-006 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.714315 0.000000 0.285685 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF TTGATRA DREME-8 # Word RC Word Pos Neg P-value E-value # BEST TTGATRA TYATCAA 406 256 1.0e-009 4.2e-005 # TTGATGA TCATCAA 185 112 1.0e-005 4.3e-001 # TTGATAA TTATCAA 223 145 2.1e-005 8.7e-001 letter-probability matrix: alength= 4 w= 7 nsites= 417 E= 4.2e-005 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.549161 0.000000 0.450839 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AATARTAA DREME-9 # Word RC Word Pos Neg P-value E-value # BEST AATARTAA TTAYTATT 146 65 9.2e-009 3.8e-004 # AATAATAA TTATTATT 104 49 4.5e-006 1.8e-001 # AATAGTAA TTACTATT 44 17 3.5e-004 1.5e+001 letter-probability matrix: alength= 4 w= 8 nsites= 150 E= 3.8e-004 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.706667 0.000000 0.293333 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CAATAHC DREME-10 # Word RC Word Pos Neg P-value E-value # BEST CAATAHC GDTATTG 266 158 5.0e-008 2.1e-003 # CAATATC GATATTG 122 75 4.5e-004 1.8e+001 # CAATACC GGTATTG 41 17 1.1e-003 4.5e+001 # CAATAAC GTTATTG 104 68 3.5e-003 1.4e+002 letter-probability matrix: alength= 4 w= 7 nsites= 272 E= 2.1e-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 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.397059 0.150735 0.000000 0.452206 0.000000 1.000000 0.000000 0.000000 MOTIF CTRCTTC DREME-11 # Word RC Word Pos Neg P-value E-value # BEST CTRCTTC GAAGYAG 156 83 1.1e-006 4.3e-002 # CTGCTTC GAAGCAG 74 38 4.1e-004 1.7e+001 # CTACTTC GAAGTAG 83 45 4.7e-004 1.9e+001 letter-probability matrix: alength= 4 w= 7 nsites= 158 E= 4.3e-002 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.525316 0.000000 0.474684 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 0.000000 1.000000 0.000000 0.000000 MOTIF AGAGCCAY DREME-12 # Word RC Word Pos Neg P-value E-value # BEST AGAGCCAY RTGGCTCT 34 5 1.2e-006 4.8e-002 # AGAGCCAT ATGGCTCT 24 4 8.8e-005 3.6e+000 # AGAGCCAC GTGGCTCT 10 1 5.8e-003 2.4e+002 letter-probability matrix: alength= 4 w= 8 nsites= 35 E= 4.8e-002 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 1.000000 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 0.314286 0.000000 0.685714 # Stopping reason: E-value threshold exceeded # Running time: 314.32 seconds