# DREME 4.12.0 # command: dreme -v 1 -oc ../meme_out/tye7_ana_idr/dreme_out -png -dna -p ../meme_out/tye7_ana_idr/seqs-centered -n ../meme_out/tye7_ana_idr/seqs-shuffled # positives: 4020 from ../meme_out/tye7_ana_idr/seqs-centered (Wed May 20 14:37:29 PDT 2020) # negatives: 4020 from ../meme_out/tye7_ana_idr/seqs-shuffled (Wed May 20 14:37:29 PDT 2020) # host: nandi.stanford.edu # when: Wed May 20 14:51:04 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 0.193 T 0.307 MOTIF GAWGAHR DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GAWGAHR YDTCWTC 1164 780 7.5e-024 3.3e-019 # GAAGAAA TTTCTTC 274 170 2.2e-007 9.7e-003 # GATGATG CATCATC 131 63 4.4e-007 1.9e-002 # GAAGAAG CTTCTTC 178 101 1.6e-006 7.0e-002 # GATGAAG CTTCATC 123 61 2.2e-006 9.8e-002 # GATGACA TGTCATC 92 42 8.0e-006 3.5e-001 # GATGACG CGTCATC 47 19 3.6e-004 1.6e+001 # GAAGATA TATCTTC 125 78 5.1e-004 2.3e+001 # GAAGACA TGTCTTC 95 57 1.2e-003 5.2e+001 # GATGATA TATCATC 102 66 3.1e-003 1.4e+002 # GAAGATG CATCTTC 114 76 3.2e-003 1.4e+002 # GATGAAA TTTCATC 155 114 6.5e-003 2.9e+002 # GAAGACG CGTCTTC 61 37 9.5e-003 4.2e+002 letter-probability matrix: alength= 4 w= 7 nsites= 1407 E= 3.3e-019 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.572139 0.000000 0.000000 0.427861 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.497512 0.192608 0.000000 0.309879 0.587065 0.000000 0.412935 0.000000 MOTIF TGGWA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST TGGWA TWCCA 1711 1379 1.5e-014 6.7e-010 # TGGTA TACCA 785 583 1.2e-009 5.0e-005 # TGGAA TTCCA 1132 929 1.2e-007 5.3e-003 letter-probability matrix: alength= 4 w= 5 nsites= 2205 E= 6.7e-010 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.602721 0.000000 0.000000 0.397279 1.000000 0.000000 0.000000 0.000000 MOTIF CRRTA DREME-3 # Word RC Word Pos Neg P-value E-value # BEST CRRTA TAYYG 2089 1770 6.1e-013 2.6e-008 # CAGTA TACTG 645 510 1.0e-005 4.3e-001 # CGGTA TACCG 397 290 1.1e-005 4.9e-001 # CAATA TATTG 1076 944 3.8e-004 1.6e+001 # CGATA TATCG 515 444 8.0e-003 3.4e+002 letter-probability matrix: alength= 4 w= 5 nsites= 2877 E= 2.6e-008 0.000000 1.000000 0.000000 0.000000 0.671185 0.000000 0.328815 0.000000 0.617657 0.000000 0.382343 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF SARGAA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST SARGAA TTCYTS 1116 861 2.3e-011 9.4e-007 # GAGGAA TTCCTC 301 209 1.5e-005 6.2e-001 # CAAGAA TTCTTG 477 375 1.2e-004 5.2e+000 # GAAGAA TTCTTC 226 170 2.3e-003 9.4e+001 # CAGGAA TTCCTG 255 201 5.3e-003 2.2e+002 letter-probability matrix: alength= 4 w= 6 nsites= 1292 E= 9.4e-007 0.000000 0.586687 0.413313 0.000000 1.000000 0.000000 0.000000 0.000000 0.561146 0.000000 0.438854 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 MOTIF RTATAY DREME-5 # Word RC Word Pos Neg P-value E-value # BEST RTATAY RTATAY 383 245 5.5e-009 2.3e-004 # ATATAC GTATAT 190 116 9.6e-006 4.0e-001 # GTATAC GTATAC 54 23 2.5e-004 1.0e+001 # ATATAT ATATAT 181 122 3.3e-004 1.4e+001 letter-probability matrix: alength= 4 w= 6 nsites= 437 E= 2.3e-004 0.608696 0.000000 0.391304 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.304348 0.000000 0.695652 MOTIF GCYGCTR DREME-6 # Word RC Word Pos Neg P-value E-value # BEST GCYGCTR YAGCRGC 157 75 2.5e-008 1.0e-003 # GCTGCTA TAGCAGC 50 24 1.6e-003 6.6e+001 # GCCGCTA TAGCGGC 27 9 1.9e-003 7.9e+001 # GCCGCTG CAGCGGC 31 13 4.7e-003 1.9e+002 # GCTGCTG CAGCAGC 54 30 5.6e-003 2.3e+002 letter-probability matrix: alength= 4 w= 7 nsites= 162 E= 1.0e-003 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.358025 0.000000 0.641975 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.469136 0.000000 0.530864 0.000000 MOTIF CAATGGM DREME-7 # Word RC Word Pos Neg P-value E-value # BEST CAATGGM KCCATTG 122 52 4.2e-008 1.7e-003 # CAATGGC GCCATTG 68 23 1.1e-006 4.5e-002 # CAATGGA TCCATTG 56 29 2.2e-003 8.8e+001 letter-probability matrix: alength= 4 w= 7 nsites= 124 E= 1.7e-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 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.451613 0.548387 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 140.89 seconds