# DREME 4.12.0 # command: dreme -v 1 -oc ../meme_out/tye7_nit_idr/dreme_out -png -dna -p ../meme_out/tye7_nit_idr/seqs-centered -n ../meme_out/tye7_nit_idr/seqs-shuffled # positives: 2599 from ../meme_out/tye7_nit_idr/seqs-centered (Wed May 20 14:37:59 PDT 2020) # negatives: 2599 from ../meme_out/tye7_nit_idr/seqs-shuffled (Wed May 20 14:37:59 PDT 2020) # host: nandi.stanford.edu # when: Wed May 20 14:51:50 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 0.313 C 0.188 G 0.188 T 0.312 MOTIF GADGAMGA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GADGAMGA TCKTCHTC 199 64 2.1e-018 9.1e-014 # GAAGAAGA TCTTCTTC 89 29 9.9e-009 4.2e-004 # GATGAAGA TCTTCATC 46 15 4.0e-005 1.7e+000 # GAGGAAGA TCTTCCTC 32 8 8.6e-005 3.6e+000 # GATGACGA TCGTCATC 24 5 2.6e-004 1.1e+001 # GAGGACGA TCGTCCTC 12 1 1.7e-003 7.1e+001 # GAAGACGA TCGTCTTC 22 6 1.8e-003 7.7e+001 letter-probability matrix: alength= 4 w= 8 nsites= 220 E= 9.1e-014 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.509091 0.000000 0.177273 0.313636 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.736364 0.263636 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CSAAG DREME-2 # Word RC Word Pos Neg P-value E-value # BEST CSAAG CTTSG 809 574 9.3e-014 3.9e-009 # CCAAG CTTGG 530 349 1.2e-011 5.0e-007 # CGAAG CTTCG 348 272 6.6e-004 2.8e+001 letter-probability matrix: alength= 4 w= 5 nsites= 972 E= 3.9e-009 0.000000 1.000000 0.000000 0.000000 0.000000 0.617284 0.382716 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 MOTIF HGGTA DREME-3 # Word RC Word Pos Neg P-value E-value # BEST HGGTA TACCD 922 702 2.7e-011 1.1e-006 # CGGTA TACCG 235 148 2.3e-006 9.4e-002 # TGGTA TACCA 451 343 1.8e-005 7.4e-001 # AGGTA TACCT 391 297 6.9e-005 2.8e+000 letter-probability matrix: alength= 4 w= 5 nsites= 1157 E= 1.1e-006 0.361279 0.209162 0.000000 0.429559 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 MOTIF ATATH DREME-4 # Word RC Word Pos Neg P-value E-value # BEST ATATH DATAT 1190 970 3.5e-010 1.4e-005 # ATATC GATAT 596 423 8.7e-010 3.5e-005 # ATATT AATAT 840 698 9.1e-006 3.6e-001 # ATATA TATAT 550 461 1.0e-003 4.1e+001 letter-probability matrix: alength= 4 w= 5 nsites= 1632 E= 1.4e-005 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 0.252451 0.278799 0.000000 0.468750 MOTIF TGGCMA DREME-5 # Word RC Word Pos Neg P-value E-value # BEST TGGCMA TKGCCA 230 134 1.0e-007 4.1e-003 # TGGCCA TGGCCA 67 27 1.9e-005 7.5e-001 # TGGCAA TTGCCA 168 108 1.3e-004 4.9e+000 letter-probability matrix: alength= 4 w= 6 nsites= 243 E= 4.1e-003 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 0.720165 0.279835 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF GAAGW DREME-6 # Word RC Word Pos Neg P-value E-value # BEST GAAGW WCTTC 1093 911 1.2e-007 4.8e-003 # GAAGA TCTTC 699 577 4.8e-005 1.9e+000 # GAAGT ACTTC 550 442 7.9e-005 3.1e+000 letter-probability matrix: alength= 4 w= 5 nsites= 1394 E= 4.8e-003 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 0.000000 1.000000 0.000000 0.580344 0.000000 0.000000 0.419656 MOTIF ASTAC DREME-7 # Word RC Word Pos Neg P-value E-value # BEST ASTAC GTAST 489 359 6.2e-007 2.4e-002 # AGTAC GTACT 234 170 5.4e-004 2.1e+001 # ACTAC GTAGT 281 214 9.0e-004 3.4e+001 letter-probability matrix: alength= 4 w= 5 nsites= 527 E= 2.4e-002 1.000000 0.000000 0.000000 0.000000 0.000000 0.546490 0.453510 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 96.55 seconds