# DREME 4.12.0 # command: dreme -v 1 -oc /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF18.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/dreme_out -png -dna -p /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF18.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/seqs-centered -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF18.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/seqs-shuffled # positives: 600 from /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF18.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/seqs-centered (Thu May 10 17:04:54 PDT 2018) # negatives: 600 from /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF18.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/seqs-shuffled (Thu May 10 17:04:55 PDT 2018) # host: indra # when: Thu May 10 17:44:22 PDT 2018 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 0.233 C 0.270 G 0.266 T 0.232 MOTIF RGTGDGAA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST RGTGDGAA TTCHCACY 371 20 3.1e-119 9.2e-115 # GGTGTGAA TTCACACC 199 4 2.8e-062 8.4e-058 # AGTGTGAA TTCACACT 105 4 8.6e-029 2.6e-024 # GGTGGGAA TTCCCACC 42 2 2.9e-011 8.6e-007 # GGTGAGAA TTCTCACC 22 2 1.5e-005 4.6e-001 # AGTGGGAA TTCCCACT 25 6 3.8e-004 1.1e+001 # AGTGAGAA TTCTCACT 14 2 2.0e-003 5.9e+001 letter-probability matrix: alength= 4 w= 8 nsites= 487 E= 9.2e-115 0.367556 0.000000 0.632444 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.075975 0.000000 0.162218 0.761807 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF GTGTGADY DREME-2 # Word RC Word Pos Neg P-value E-value # BEST GTGTGADY RHTCACAC 186 55 5.2e-022 1.5e-017 # GTGTGAGC GCTCACAC 60 9 3.6e-011 1.0e-006 # GTGTGATC GATCACAC 31 3 2.8e-007 8.0e-003 # GTGTGAAC GTTCACAC 29 5 1.5e-005 4.4e-001 # GTGTGAAT ATTCACAC 28 8 5.0e-004 1.5e+001 # GTGTGAGT ACTCACAC 64 33 6.9e-004 2.0e+001 # GTGTGATT AATCACAC 22 6 1.7e-003 4.8e+001 letter-probability matrix: alength= 4 w= 8 nsites= 330 E= 1.5e-017 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 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.245455 0.000000 0.563636 0.190909 0.000000 0.481818 0.000000 0.518182 MOTIF CCGCCYCC DREME-3 # Word RC Word Pos Neg P-value E-value # BEST CCGCCYCC GGRGGCGG 44 1 6.0e-013 1.7e-008 # CCGCCTCC GGAGGCGG 34 0 3.6e-011 1.0e-006 # CCGCCCCC GGGGGCGG 10 1 5.7e-003 1.6e+002 letter-probability matrix: alength= 4 w= 8 nsites= 44 E= 1.7e-008 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.227273 0.000000 0.772727 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF ACTGCAAG DREME-4 # Word RC Word Pos Neg P-value E-value # BEST ACTGCAAG CTTGCAGT 36 0 8.5e-012 2.4e-007 # ACTGCAAG CTTGCAGT 36 0 8.5e-012 2.4e-007 letter-probability matrix: alength= 4 w= 8 nsites= 36 E= 2.4e-007 1.000000 0.000000 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 1.000000 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 MOTIF CTCCHGCC DREME-5 # Word RC Word Pos Neg P-value E-value # BEST CTCCHGCC GGCDGGAG 56 8 1.0e-010 2.9e-006 # CTCCTGCC GGCAGGAG 30 3 5.2e-007 1.5e-002 # CTCCAGCC GGCTGGAG 24 5 2.4e-004 6.7e+000 # CTCCCGCC GGCGGGAG 11 0 4.7e-004 1.3e+001 letter-probability matrix: alength= 4 w= 8 nsites= 66 E= 2.9e-006 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 0.363636 0.181818 0.000000 0.454545 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF ARTCCCAG DREME-6 # Word RC Word Pos Neg P-value E-value # BEST ARTCCCAG CTGGGAYT 32 2 2.4e-008 6.8e-004 # AGTCCCAG CTGGGACT 21 2 2.9e-005 8.1e-001 # AATCCCAG CTGGGATT 11 0 4.7e-004 1.3e+001 letter-probability matrix: alength= 4 w= 8 nsites= 32 E= 6.8e-004 1.000000 0.000000 0.000000 0.000000 0.343750 0.000000 0.656250 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF CCHGGGA DREME-7 # Word RC Word Pos Neg P-value E-value # BEST CCHGGGA TCCCDGG 55 14 1.7e-007 4.7e-003 # CCCGGGA TCCCGGG 18 1 3.4e-005 9.6e-001 # CCTGGGA TCCCAGG 18 5 5.0e-003 1.4e+002 # CCAGGGA TCCCTGG 23 9 9.2e-003 2.6e+002 letter-probability matrix: alength= 4 w= 7 nsites= 70 E= 4.7e-003 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.414286 0.271429 0.000000 0.314286 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 MOTIF GAGGCTGA DREME-8 # Word RC Word Pos Neg P-value E-value # BEST GAGGCTGA TCAGCCTC 39 7 5.9e-007 1.7e-002 # GAGGCTGA TCAGCCTC 39 7 5.9e-007 1.7e-002 letter-probability matrix: alength= 4 w= 8 nsites= 39 E= 1.7e-002 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 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 MOTIF AAATWA DREME-9 # Word RC Word Pos Neg P-value E-value # BEST AAATWA TWATTT 53 15 1.1e-006 3.1e-002 # AAATTA TAATTT 29 7 1.3e-004 3.6e+000 # AAATAA TTATTT 26 8 1.3e-003 3.6e+001 letter-probability matrix: alength= 4 w= 6 nsites= 57 E= 3.1e-002 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 0.491228 0.000000 0.000000 0.508772 1.000000 0.000000 0.000000 0.000000 MOTIF CTACTCRG DREME-10 # Word RC Word Pos Neg P-value E-value # BEST CTACTCRG CYGAGTAG 26 2 1.2e-006 3.3e-002 # CTACTCAG CTGAGTAG 16 2 6.1e-004 1.7e+001 # CTACTCGG CCGAGTAG 10 0 9.4e-004 2.6e+001 letter-probability matrix: alength= 4 w= 8 nsites= 26 E= 3.3e-002 0.000000 1.000000 0.000000 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 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.615385 0.000000 0.384615 0.000000 0.000000 0.000000 1.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 87.88 seconds