# DREME 4.12.0 # command: dreme -v 1 -oc cutnotseq_memechip_out/dreme_out -png -dna -p cutnotseq_memechip_out/seqs-centered -n cutnotseq_memechip_out/seqs-shuffled # positives: 2119 from cutnotseq_memechip_out/seqs-centered (Mon Oct 21 17:12:20 PDT 2019) # negatives: 2119 from cutnotseq_memechip_out/seqs-shuffled (Mon Oct 21 17:12:20 PDT 2019) # host: surya.stanford.edu # when: Mon Oct 21 17:26:49 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 0.278 C 0.220 G 0.220 T 0.281 MOTIF ATGYWAAT DREME-1 # Word RC Word Pos Neg P-value E-value # BEST ATGYWAAT ATTWRCAT 319 47 3.0e-055 1.2e-050 # ATGCAAAT ATTTGCAT 146 15 2.3e-029 9.3e-025 # ATGCTAAT ATTAGCAT 74 9 2.3e-014 9.4e-010 # ATGTAAAT ATTTACAT 73 14 2.8e-011 1.1e-006 # ATGTTAAT ATTAACAT 57 10 1.6e-009 6.3e-005 letter-probability matrix: alength= 4 w= 8 nsites= 367 E= 1.2e-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 0.629428 0.000000 0.370572 0.634877 0.000000 0.000000 0.365123 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 GGTVCTGA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST GGTVCTGA TCAGBACC 196 11 4.3e-047 1.7e-042 # GGTGCTGA TCAGCACC 137 2 1.5e-039 6.2e-035 # GGTCCTGA TCAGGACC 39 6 2.4e-007 9.6e-003 # GGTACTGA TCAGTACC 20 3 2.4e-004 9.5e+000 letter-probability matrix: alength= 4 w= 8 nsites= 203 E= 1.7e-042 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.098522 0.197044 0.704433 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 GGACAGCD DREME-3 # Word RC Word Pos Neg P-value E-value # BEST GGACAGCD HGCTGTCC 164 20 1.0e-030 4.1e-026 # GGACAGCG CGCTGTCC 56 3 4.3e-014 1.7e-009 # GGACAGCT AGCTGTCC 59 10 5.2e-010 2.1e-005 # GGACAGCA TGCTGTCC 50 7 1.7e-009 6.8e-005 letter-probability matrix: alength= 4 w= 8 nsites= 168 E= 4.1e-026 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 0.297619 0.000000 0.345238 0.357143 MOTIF AGGAAW DREME-4 # Word RC Word Pos Neg P-value E-value # BEST AGGAAW WTTCCT 541 323 4.8e-017 1.9e-012 # AGGAAT ATTCCT 247 134 7.1e-010 2.8e-005 # AGGAAA TTTCCT 329 201 1.6e-009 6.3e-005 letter-probability matrix: alength= 4 w= 6 nsites= 616 E= 1.9e-012 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 0.000000 1.000000 0.000000 0.000000 0.000000 0.573052 0.000000 0.000000 0.426948 MOTIF TATKYA DREME-5 # Word RC Word Pos Neg P-value E-value # BEST TATKYA TRMATA 616 412 1.5e-013 6.0e-009 # TATGCA TGCATA 214 118 2.3e-008 9.2e-004 # TATTCA TGAATA 205 115 9.7e-008 3.8e-003 # TATTTA TAAATA 203 143 4.6e-004 1.8e+001 # TATGTA TACATA 136 91 1.3e-003 5.2e+001 letter-probability matrix: alength= 4 w= 6 nsites= 805 E= 6.0e-009 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 0.470807 0.529193 0.000000 0.551553 0.000000 0.448447 1.000000 0.000000 0.000000 0.000000 MOTIF GRGAAA DREME-6 # Word RC Word Pos Neg P-value E-value # BEST GRGAAA TTTCYC 481 324 4.5e-010 1.8e-005 # GGGAAA TTTCCC 242 152 1.1e-006 4.5e-002 # GAGAAA TTTCTC 269 185 1.8e-005 7.1e-001 letter-probability matrix: alength= 4 w= 6 nsites= 548 E= 1.8e-005 0.000000 0.000000 1.000000 0.000000 0.534672 0.000000 0.465328 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 GGGYGGGR DREME-7 # Word RC Word Pos Neg P-value E-value # BEST GGGYGGGR YCCCRCCC 113 36 4.5e-011 1.8e-006 # GGGCGGGG CCCCGCCC 45 10 8.9e-007 3.5e-002 # GGGTGGGG CCCCACCC 34 12 7.7e-004 3.0e+001 # GGGTGGGA TCCCACCC 22 7 4.0e-003 1.5e+002 # GGGCGGGA TCCCGCCC 21 7 6.1e-003 2.4e+002 letter-probability matrix: alength= 4 w= 8 nsites= 127 E= 1.8e-006 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 0.543307 0.000000 0.456693 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.330709 0.000000 0.669291 0.000000 MOTIF AAATGY DREME-8 # Word RC Word Pos Neg P-value E-value # BEST AAATGY RCATTT 382 257 4.7e-008 1.8e-003 # AAATGC GCATTT 182 118 7.7e-005 3.0e+000 # AAATGT ACATTT 219 152 1.6e-004 6.3e+000 letter-probability matrix: alength= 4 w= 6 nsites= 425 E= 1.8e-003 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 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.461176 0.000000 0.538824 MOTIF CAGAAMCA DREME-9 # Word RC Word Pos Neg P-value E-value # BEST CAGAAMCA TGKTTCTG 48 11 5.3e-007 2.0e-002 # CAGAAACA TGTTTCTG 25 6 4.2e-004 1.6e+001 # CAGAACCA TGGTTCTG 23 5 4.4e-004 1.7e+001 letter-probability matrix: alength= 4 w= 8 nsites= 48 E= 2.0e-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 1.000000 0.000000 0.000000 0.000000 0.520833 0.479167 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 124.59 seconds