# DREME 4.12.0 # command: dreme -v 1 -oc cutrun_idr/dreme_out -png -dna -p cutrun_idr/seqs-centered -n cutrun_idr/seqs-shuffled # positives: 857 from cutrun_idr/seqs-centered (Mon Oct 21 03:41:14 PDT 2019) # negatives: 857 from cutrun_idr/seqs-shuffled (Mon Oct 21 03:41:14 PDT 2019) # host: surya.stanford.edu # when: Mon Oct 21 03:49:47 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 0.261 C 0.238 G 0.238 T 0.263 MOTIF ATGYWAAT DREME-1 # Word RC Word Pos Neg P-value E-value # BEST ATGYWAAT ATTWRCAT 268 18 3.9e-068 1.3e-063 # ATGCAAAT ATTTGCAT 142 6 1.1e-037 3.5e-033 # ATGCTAAT ATTAGCAT 68 2 5.7e-019 1.9e-014 # ATGTAAAT ATTTACAT 58 3 6.7e-015 2.2e-010 # ATGTTAAT ATTAACAT 40 7 3.9e-007 1.3e-002 letter-probability matrix: alength= 4 w= 8 nsites= 333 E= 1.3e-063 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 0.699700 0.000000 0.300300 0.651652 0.000000 0.000000 0.348348 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 GGTBCTGA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST GGTBCTGA TCAGVACC 185 8 1.2e-049 3.8e-045 # GGTGCTGA TCAGCACC 134 3 1.1e-038 3.6e-034 # GGTCCTGA TCAGGACC 38 2 5.1e-010 1.6e-005 # GGTTCTGA TCAGAACC 18 3 7.0e-004 2.2e+001 letter-probability matrix: alength= 4 w= 8 nsites= 206 E= 3.8e-045 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 0.184466 0.728155 0.087379 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 153 10 3.6e-037 1.1e-032 # GGACAGCG CGCTGTCC 60 0 3.0e-019 9.5e-015 # GGACAGCT AGCTGTCC 58 3 6.7e-015 2.1e-010 # GGACAGCA TGCTGTCC 43 7 7.2e-008 2.3e-003 letter-probability matrix: alength= 4 w= 8 nsites= 168 E= 1.1e-032 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 0.261905 0.000000 0.375000 0.363095 MOTIF TGMATAA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST TGMATAA TTATKCA 98 20 1.2e-014 3.6e-010 # TGAATAA TTATTCA 54 11 1.7e-008 5.5e-004 # TGCATAA TTATGCA 46 9 1.4e-007 4.6e-003 letter-probability matrix: alength= 4 w= 7 nsites= 102 E= 3.6e-010 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.539216 0.460784 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 1.000000 0.000000 0.000000 0.000000 MOTIF GGGYGGR DREME-5 # Word RC Word Pos Neg P-value E-value # BEST GGGYGGR YCCRCCC 118 39 1.3e-011 4.2e-007 # GGGCGGG CCCGCCC 44 13 1.8e-005 5.6e-001 # GGGTGGG CCCACCC 44 14 3.8e-005 1.2e+000 # GGGTGGA TCCACCC 30 9 4.7e-004 1.5e+001 # GGGCGGA TCCGCCC 15 3 3.6e-003 1.1e+002 letter-probability matrix: alength= 4 w= 7 nsites= 136 E= 4.2e-007 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 0.485294 0.000000 0.514706 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.316176 0.000000 0.683824 0.000000 MOTIF CCTGGMR DREME-6 # Word RC Word Pos Neg P-value E-value # BEST CCTGGMR YKCCAGG 138 58 6.4e-010 2.0e-005 # CCTGGAG CTCCAGG 46 19 4.4e-004 1.4e+001 # CCTGGCA TGCCAGG 50 22 5.1e-004 1.6e+001 # CCTGGAA TTCCAGG 33 12 1.1e-003 3.4e+001 # CCTGGCG CGCCAGG 21 5 1.2e-003 3.6e+001 letter-probability matrix: alength= 4 w= 7 nsites= 154 E= 2.0e-005 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 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.525974 0.474026 0.000000 0.000000 0.551948 0.000000 0.448052 0.000000 MOTIF AAGACAHT DREME-7 # Word RC Word Pos Neg P-value E-value # BEST AAGACAHT ADTGTCTT 46 5 7.1e-010 2.2e-005 # AAGACATT AATGTCTT 14 0 5.8e-005 1.8e+000 # AAGACACT AGTGTCTT 19 3 4.0e-004 1.2e+001 # AAGACAAT ATTGTCTT 15 2 1.1e-003 3.5e+001 letter-probability matrix: alength= 4 w= 8 nsites= 48 E= 2.2e-005 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 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.312500 0.395833 0.000000 0.291667 0.000000 0.000000 0.000000 1.000000 MOTIF ACAYGTG DREME-8 # Word RC Word Pos Neg P-value E-value # BEST ACAYGTG CACRTGT 42 4 1.7e-009 5.2e-005 # ACACGTG CACGTGT 26 1 1.7e-007 5.4e-003 # ACATGTG CACATGT 19 3 4.0e-004 1.2e+001 letter-probability matrix: alength= 4 w= 7 nsites= 45 E= 5.2e-005 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 0.577778 0.000000 0.422222 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 MOTIF CTTTCYCC DREME-9 # Word RC Word Pos Neg P-value E-value # BEST CTTTCYCC GGRGAAAG 32 1 3.0e-009 9.3e-005 # CTTTCTCC GGAGAAAG 15 0 2.9e-005 8.8e-001 # CTTTCCCC GGGGAAAG 17 1 6.7e-005 2.1e+000 letter-probability matrix: alength= 4 w= 8 nsites= 32 E= 9.3e-005 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.531250 0.000000 0.468750 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF GCCATGAY DREME-10 # Word RC Word Pos Neg P-value E-value # BEST GCCATGAY RTCATGGC 34 3 4.7e-008 1.4e-003 # GCCATGAT ATCATGGC 21 1 4.9e-006 1.5e-001 # GCCATGAC GTCATGGC 13 2 3.6e-003 1.1e+002 letter-probability matrix: alength= 4 w= 8 nsites= 34 E= 1.4e-003 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 0.000000 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 0.382353 0.000000 0.617647 # Stopping reason: E-value threshold exceeded # Running time: 56.78 seconds