# DREME 4.12.0 # command: dreme -v 1 -oc cutrun_memechip_out/dreme_out -png -dna -p cutrun_memechip_out/seqs-centered -n cutrun_memechip_out/seqs-shuffled # positives: 1286 from cutrun_memechip_out/seqs-centered (Mon Oct 21 16:53:29 PDT 2019) # negatives: 1286 from cutrun_memechip_out/seqs-shuffled (Mon Oct 21 16:53:29 PDT 2019) # host: surya.stanford.edu # when: Mon Oct 21 17:05:05 PDT 2019 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 0.281 C 0.221 G 0.223 T 0.275 MOTIF ATGYWAAT DREME-1 # Word RC Word Pos Neg P-value E-value # BEST ATGYWAAT ATTWRCAT 282 35 2.8e-055 1.0e-050 # ATGCAAAT ATTTGCAT 129 10 4.6e-029 1.7e-024 # ATGCTAAT ATTAGCAT 70 9 1.9e-013 6.7e-009 # ATGTAAAT ATTTACAT 64 7 3.3e-013 1.2e-008 # ATGTTAAT ATTAACAT 38 9 1.1e-005 3.8e-001 letter-probability matrix: alength= 4 w= 8 nsites= 318 E= 1.0e-050 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 0.657233 0.000000 0.342767 0.641509 0.000000 0.000000 0.358491 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF GGTSCTGA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST GGTSCTGA TCAGSACC 98 6 1.5e-023 5.2e-019 # GGTGCTGA TCAGCACC 75 1 3.5e-022 1.2e-017 # GGTCCTGA TCAGGACC 23 5 4.3e-004 1.5e+001 letter-probability matrix: alength= 4 w= 8 nsites= 107 E= 5.2e-019 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.214953 0.785047 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 1.000000 0.000000 0.000000 0.000000 MOTIF TATKYA DREME-3 # Word RC Word Pos Neg P-value E-value # BEST TATKYA TRMATA 429 245 8.3e-017 3.0e-012 # TATGCA TGCATA 140 59 1.1e-009 4.0e-005 # TATTCA TGAATA 150 84 3.7e-006 1.3e-001 # TATTTA TAAATA 140 93 7.7e-004 2.7e+001 # TATGTA TACATA 82 47 1.0e-003 3.6e+001 letter-probability matrix: alength= 4 w= 6 nsites= 532 E= 3.0e-012 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.437970 0.562030 0.000000 0.573308 0.000000 0.426692 1.000000 0.000000 0.000000 0.000000 MOTIF GGACAGCD DREME-4 # Word RC Word Pos Neg P-value E-value # BEST GGACAGCD HGCTGTCC 84 12 3.2e-015 1.2e-010 # GGACAGCG CGCTGTCC 33 2 1.5e-008 5.4e-004 # GGACAGCT AGCTGTCC 38 5 1.0e-007 3.6e-003 # GGACAGCA TGCTGTCC 20 5 2.0e-003 6.9e+001 letter-probability matrix: alength= 4 w= 8 nsites= 94 E= 1.2e-010 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 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 0.212766 0.000000 0.361702 0.425532 MOTIF GAATTTYC DREME-5 # Word RC Word Pos Neg P-value E-value # BEST GAATTTYC GRAAATTC 44 2 1.1e-011 3.9e-007 # GAATTTCC GGAAATTC 29 2 2.0e-007 7.1e-003 # GAATTTTC GAAAATTC 15 0 2.9e-005 1.0e+000 letter-probability matrix: alength= 4 w= 8 nsites= 44 E= 3.9e-007 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 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.659091 0.000000 0.340909 0.000000 1.000000 0.000000 0.000000 MOTIF AGGWA DREME-6 # Word RC Word Pos Neg P-value E-value # BEST AGGWA TWCCT 569 416 3.3e-010 1.2e-005 # AGGAA TTCCT 422 311 7.5e-007 2.6e-002 # AGGTA TACCT 221 139 1.9e-006 6.8e-002 letter-probability matrix: alength= 4 w= 5 nsites= 765 E= 1.2e-005 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.682353 0.000000 0.000000 0.317647 1.000000 0.000000 0.000000 0.000000 MOTIF ACARAGA DREME-7 # Word RC Word Pos Neg P-value E-value # BEST ACARAGA TCTYTGT 103 37 4.4e-009 1.5e-004 # ACAAAGA TCTTTGT 69 24 1.1e-006 3.8e-002 # ACAGAGA TCTCTGT 38 15 9.9e-004 3.4e+001 letter-probability matrix: alength= 4 w= 7 nsites= 110 E= 1.5e-004 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.654545 0.000000 0.345455 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 MOTIF CCCACCC DREME-8 # Word RC Word Pos Neg P-value E-value # BEST CCCACCC GGGTGGG 65 18 6.8e-008 2.3e-003 # CCCACCC GGGTGGG 65 18 6.8e-008 2.3e-003 letter-probability matrix: alength= 4 w= 7 nsites= 73 E= 2.3e-003 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 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF RAAGAAA DREME-9 # Word RC Word Pos Neg P-value E-value # BEST RAAGAAA TTTCTTY 142 71 2.2e-007 7.6e-003 # AAAGAAA TTTCTTT 90 42 1.1e-005 3.8e-001 # GAAGAAA TTTCTTC 59 31 1.8e-003 6.1e+001 letter-probability matrix: alength= 4 w= 7 nsites= 159 E= 7.6e-003 0.616352 0.000000 0.383648 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 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 CAGAGM DREME-10 # Word RC Word Pos Neg P-value E-value # BEST CAGAGM KCTCTG 220 135 7.1e-007 2.4e-002 # CAGAGC GCTCTG 122 63 4.1e-006 1.4e-001 # CAGAGA TCTCTG 111 77 6.1e-003 2.1e+002 letter-probability matrix: alength= 4 w= 6 nsites= 243 E= 2.4e-002 0.000000 1.000000 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 1.000000 0.000000 0.477366 0.522634 0.000000 0.000000 MOTIF AYAAAAGA DREME-11 # Word RC Word Pos Neg P-value E-value # BEST AYAAAAGA TCTTTTRT 52 14 1.1e-006 3.6e-002 # ACAAAAGA TCTTTTGT 27 7 3.8e-004 1.3e+001 # ATAAAAGA TCTTTTAT 26 7 6.2e-004 2.1e+001 letter-probability matrix: alength= 4 w= 8 nsites= 53 E= 3.6e-002 1.000000 0.000000 0.000000 0.000000 0.000000 0.509434 0.000000 0.490566 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 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF GTGGRGA DREME-12 # Word RC Word Pos Neg P-value E-value # BEST GTGGRGA TCYCCAC 62 20 1.3e-006 4.4e-002 # GTGGAGA TCTCCAC 28 8 5.5e-004 1.9e+001 # GTGGGGA TCCCCAC 34 12 7.5e-004 2.5e+001 letter-probability matrix: alength= 4 w= 7 nsites= 62 E= 4.4e-002 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 0.000000 1.000000 0.000000 0.451613 0.000000 0.548387 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 100.26 seconds