# 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: 3002 from cutnotseq_memechip_out/seqs-centered (Mon Oct 21 19:03:35 PDT 2019) # negatives: 3002 from cutnotseq_memechip_out/seqs-shuffled (Mon Oct 21 19:03:35 PDT 2019) # host: surya.stanford.edu # when: Mon Oct 21 19:17:00 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 0.282 C 0.217 G 0.221 T 0.280 MOTIF ATGYWAAT DREME-1 # Word RC Word Pos Neg P-value E-value # BEST ATGYWAAT ATTWRCAT 589 69 4.1e-115 1.7e-110 # ATGCAAAT ATTTGCAT 242 27 2.0e-046 8.5e-042 # ATGCTAAT ATTAGCAT 142 13 1.7e-029 6.9e-025 # ATGTAAAT ATTTACAT 149 20 1.7e-026 7.1e-022 # ATGTTAAT ATTAACAT 114 10 3.4e-024 1.4e-019 letter-probability matrix: alength= 4 w= 8 nsites= 690 E= 1.7e-110 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 0.598551 0.000000 0.401449 0.610145 0.000000 0.000000 0.389855 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 260 27 2.4e-051 9.8e-047 # GGTGCTGA TCAGCACC 187 11 6.4e-044 2.7e-039 # GGTCCTGA TCAGGACC 56 12 2.6e-008 1.1e-003 # GGTACTGA TCAGTACC 20 4 7.6e-004 3.1e+001 letter-probability matrix: alength= 4 w= 8 nsites= 275 E= 9.8e-047 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.072727 0.207273 0.720000 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 198 25 5.2e-036 2.2e-031 # GGACAGCG CGCTGTCC 63 3 4.8e-016 2.0e-011 # GGACAGCT AGCTGTCC 79 11 2.6e-014 1.1e-009 # GGACAGCA TGCTGTCC 63 12 6.8e-010 2.8e-005 letter-probability matrix: alength= 4 w= 8 nsites= 209 E= 2.2e-031 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 0.301435 0.000000 0.311005 0.387560 MOTIF DTATGCA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST DTATGCA TGCATAH 329 109 6.4e-029 2.6e-024 # TTATGCA TGCATAA 167 45 1.5e-018 6.2e-014 # ATATGCA TGCATAT 129 50 9.1e-010 3.7e-005 # GTATGCA TGCATAC 54 20 4.4e-005 1.8e+000 letter-probability matrix: alength= 4 w= 7 nsites= 353 E= 2.6e-024 0.365439 0.000000 0.152975 0.481586 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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF RRGRAA DREME-5 # Word RC Word Pos Neg P-value E-value # BEST RRGRAA TTYCYY 1778 1370 3.0e-026 1.2e-021 # AGGAAA TTTCCT 450 281 1.4e-011 5.8e-007 # AAGGAA TTCCTT 416 267 7.9e-010 3.2e-005 # AAGAAA TTTCTT 559 403 2.3e-008 9.6e-004 # AGGGAA TTCCCT 326 220 1.1e-006 4.7e-002 # GGGAAA TTTCCC 309 214 8.1e-006 3.3e-001 # GAGGAA TTCCTC 328 232 1.2e-005 4.9e-001 # GAGAAA TTTCTC 385 283 1.6e-005 6.8e-001 # GGGGAA TTCCCC 254 205 9.8e-003 4.0e+002 letter-probability matrix: alength= 4 w= 6 nsites= 2720 E= 1.2e-021 0.584559 0.000000 0.415441 0.000000 0.609926 0.000000 0.390074 0.000000 0.000000 0.000000 1.000000 0.000000 0.583824 0.000000 0.416176 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ACAAAWG DREME-6 # Word RC Word Pos Neg P-value E-value # BEST ACAAAWG CWTTTGT 239 114 3.2e-012 1.3e-007 # ACAAATG CATTTGT 109 47 2.7e-007 1.1e-002 # ACAAAAG CTTTTGT 137 67 3.5e-007 1.4e-002 letter-probability matrix: alength= 4 w= 7 nsites= 252 E= 1.3e-007 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 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.567460 0.000000 0.000000 0.432540 0.000000 0.000000 1.000000 0.000000 MOTIF AMATWCC DREME-7 # Word RC Word Pos Neg P-value E-value # BEST AMATWCC GGWATKT 241 110 2.4e-013 9.7e-009 # ACATTCC GGAATGT 72 25 8.0e-007 3.2e-002 # ACATACC GGTATGT 35 11 2.6e-004 1.0e+001 # AAATTCC GGAATTT 84 47 6.9e-004 2.8e+001 # AAATACC GGTATTT 56 27 9.0e-004 3.6e+001 letter-probability matrix: alength= 4 w= 7 nsites= 247 E= 9.7e-009 1.000000 0.000000 0.000000 0.000000 0.566802 0.433198 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.368421 0.000000 0.000000 0.631579 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CCCCRCCC DREME-8 # Word RC Word Pos Neg P-value E-value # BEST CCCCRCCC GGGYGGGG 93 22 4.6e-012 1.8e-007 # CCCCGCCC GGGCGGGG 55 11 1.5e-008 6.1e-004 # CCCCACCC GGGTGGGG 44 12 9.6e-006 3.8e-001 letter-probability matrix: alength= 4 w= 8 nsites= 112 E= 1.8e-007 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 1.000000 0.000000 0.000000 0.455357 0.000000 0.544643 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 ATKYAAA DREME-9 # Word RC Word Pos Neg P-value E-value # BEST ATKYAAA TTTRMAT 365 228 1.8e-009 7.0e-005 # ATTTAAA TTTAAAT 133 84 4.3e-004 1.7e+001 # ATGCAAA TTTGCAT 75 40 6.4e-004 2.5e+001 # ATGTAAA TTTACAT 77 43 1.1e-003 4.4e+001 # ATTCAAA TTTGAAT 100 68 7.5e-003 3.0e+002 letter-probability matrix: alength= 4 w= 7 nsites= 397 E= 7.0e-005 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.390428 0.609572 0.000000 0.453401 0.000000 0.546599 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 ATGAATA DREME-10 # Word RC Word Pos Neg P-value E-value # BEST ATGAATA TATTCAT 129 53 5.2e-009 2.1e-004 # ATGAATA TATTCAT 129 53 5.2e-009 2.1e-004 letter-probability matrix: alength= 4 w= 7 nsites= 130 E= 2.1e-004 1.000000 0.000000 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AHGGACAG DREME-11 # Word RC Word Pos Neg P-value E-value # BEST AHGGACAG CTGTCCDT 68 20 1.1e-007 4.6e-003 # ATGGACAG CTGTCCAT 30 9 5.1e-004 2.1e+001 # ACGGACAG CTGTCCGT 10 0 9.7e-004 3.9e+001 # AAGGACAG CTGTCCTT 28 11 4.6e-003 1.8e+002 letter-probability matrix: alength= 4 w= 8 nsites= 68 E= 4.6e-003 1.000000 0.000000 0.000000 0.000000 0.411765 0.147059 0.000000 0.441176 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 MOTIF GAAGTTAC DREME-12 # Word RC Word Pos Neg P-value E-value # BEST GAAGTTAC GTAACTTC 22 0 2.3e-007 9.2e-003 # GAAGTTAC GTAACTTC 22 0 2.3e-007 9.2e-003 letter-probability matrix: alength= 4 w= 8 nsites= 24 E= 9.2e-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 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF TATGSTAA DREME-13 # Word RC Word Pos Neg P-value E-value # BEST TATGSTAA TTASCATA 51 12 3.3e-007 1.3e-002 # TATGCTAA TTAGCATA 30 7 9.1e-005 3.7e+000 # TATGGTAA TTACCATA 22 5 7.4e-004 3.0e+001 letter-probability matrix: alength= 4 w= 8 nsites= 52 E= 1.3e-002 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 1.000000 0.000000 0.000000 0.576923 0.423077 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 GCTGATTK DREME-14 # Word RC Word Pos Neg P-value E-value # BEST GCTGATTK MAATCAGC 38 6 4.3e-007 1.7e-002 # GCTGATTG CAATCAGC 20 3 2.4e-004 9.5e+000 # GCTGATTT AAATCAGC 18 3 7.3e-004 2.9e+001 letter-probability matrix: alength= 4 w= 8 nsites= 38 E= 1.7e-002 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 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 0.526316 0.473684 MOTIF AGAGASA DREME-15 # Word RC Word Pos Neg P-value E-value # BEST AGAGASA TSTCTCT 186 104 4.7e-007 1.9e-002 # AGAGAGA TCTCTCT 113 66 2.3e-004 9.0e+000 # AGAGACA TGTCTCT 80 42 3.3e-004 1.3e+001 letter-probability matrix: alength= 4 w= 7 nsites= 222 E= 1.9e-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 1.000000 0.000000 0.000000 0.000000 0.000000 0.351351 0.648649 0.000000 1.000000 0.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 243.59 seconds