# DREME 4.12.0 # command: dreme -v 1 -oc /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF558.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/dreme_out -png -dna -p /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF558.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/seqs-centered -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF558.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/seqs-shuffled # positives: 600 from /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF558.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/seqs-centered (Thu May 10 17:58:37 PDT 2018) # negatives: 600 from /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF558.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/seqs-shuffled (Thu May 10 17:58:37 PDT 2018) # host: indra # when: Thu May 10 18:32:50 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 0.319 C 0.174 G 0.176 T 0.330 MOTIF AAAGAYAT DREME-1 # Word RC Word Pos Neg P-value E-value # BEST AAAGAYAT ATRTCTTT 266 14 6.2e-077 1.5e-072 # AAAGACAT ATGTCTTT 217 7 2.8e-065 7.0e-061 # AAAGATAT ATATCTTT 51 8 2.0e-009 5.1e-005 letter-probability matrix: alength= 4 w= 8 nsites= 270 E= 1.5e-072 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 0.000000 0.807407 0.000000 0.192593 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF ATYTGTR DREME-2 # Word RC Word Pos Neg P-value E-value # BEST ATYTGTR YACARAT 272 48 6.6e-052 1.6e-047 # ATCTGTG CACAGAT 87 9 1.2e-018 2.9e-014 # ATCTGTA TACAGAT 76 14 1.6e-012 3.9e-008 # ATTTGTA TACAAAT 69 13 2.8e-011 6.9e-007 # ATTTGTG CACAAAT 54 14 2.8e-007 6.8e-003 letter-probability matrix: alength= 4 w= 7 nsites= 292 E= 1.6e-047 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.575342 0.000000 0.424658 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.493151 0.000000 0.506849 0.000000 MOTIF CAAGHAG DREME-3 # Word RC Word Pos Neg P-value E-value # BEST CAAGHAG CTDCTTG 194 32 1.3e-035 3.1e-031 # CAAGAAG CTTCTTG 145 19 8.0e-029 1.9e-024 # CAAGTAG CTACTTG 35 6 1.7e-006 4.1e-002 # CAAGCAG CTGCTTG 37 7 1.8e-006 4.4e-002 letter-probability matrix: alength= 4 w= 7 nsites= 219 E= 3.1e-031 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 0.671233 0.168950 0.000000 0.159817 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF AAWTTTGG DREME-4 # Word RC Word Pos Neg P-value E-value # BEST AAWTTTGG CCAAAWTT 111 7 1.2e-027 2.8e-023 # AAATTTGG CCAAATTT 87 5 5.2e-022 1.2e-017 # AATTTTGG CCAAAATT 26 2 1.2e-006 2.9e-002 letter-probability matrix: alength= 4 w= 8 nsites= 113 E= 2.8e-023 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.778761 0.000000 0.000000 0.221239 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 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF ATRTGTRG DREME-5 # Word RC Word Pos Neg P-value E-value # BEST ATRTGTRG CYACAYAT 91 5 3.0e-023 7.0e-019 # ATGTGTAG CTACACAT 30 0 6.4e-010 1.5e-005 # ATATGTAG CTACATAT 34 1 6.7e-010 1.6e-005 # ATATGTGG CCACATAT 14 2 2.0e-003 4.7e+001 # ATGTGTGG CCACACAT 13 2 3.5e-003 8.4e+001 letter-probability matrix: alength= 4 w= 8 nsites= 91 E= 7.0e-019 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.527473 0.000000 0.472527 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 0.703297 0.000000 0.296703 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF ATTATYTC DREME-6 # Word RC Word Pos Neg P-value E-value # BEST ATTATYTC GARATAAT 94 7 2.4e-022 5.7e-018 # ATTATTTC GAAATAAT 77 6 4.5e-018 1.1e-013 # ATTATCTC GAGATAAT 17 1 6.5e-005 1.5e+000 letter-probability matrix: alength= 4 w= 8 nsites= 96 E= 5.7e-018 1.000000 0.000000 0.000000 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 0.000000 0.000000 1.000000 0.000000 0.187500 0.000000 0.812500 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 MOTIF TATTTGAA DREME-7 # Word RC Word Pos Neg P-value E-value # BEST TATTTGAA TTCAAATA 65 3 3.3e-017 7.9e-013 # TATTTGAA TTCAAATA 65 3 3.3e-017 7.9e-013 letter-probability matrix: alength= 4 w= 8 nsites= 66 E= 7.9e-013 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 0.000000 1.000000 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 MOTIF ATGAMAGR DREME-8 # Word RC Word Pos Neg P-value E-value # BEST ATGAMAGR YCTKTCAT 116 25 3.4e-017 7.9e-013 # ATGAAAGG CCTTTCAT 26 3 6.1e-006 1.4e-001 # ATGACAGA TCTGTCAT 28 4 7.6e-006 1.8e-001 # ATGACAGG CCTGTCAT 16 0 1.4e-005 3.2e-001 # ATGAAAGA TCTTTCAT 46 19 3.9e-004 9.3e+000 letter-probability matrix: alength= 4 w= 8 nsites= 117 E= 7.9e-013 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 0.623932 0.376068 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.632479 0.000000 0.367521 0.000000 MOTIF AAAACTYC DREME-9 # Word RC Word Pos Neg P-value E-value # BEST AAAACTYC GRAGTTTT 53 3 1.4e-013 3.3e-009 # AAAACTTC GAAGTTTT 45 3 3.1e-011 7.3e-007 # AAAACTCC GGAGTTTT 8 0 3.8e-003 8.9e+001 letter-probability matrix: alength= 4 w= 8 nsites= 53 E= 3.3e-009 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.150943 0.000000 0.849057 0.000000 1.000000 0.000000 0.000000 MOTIF ATAAACHC DREME-10 # Word RC Word Pos Neg P-value E-value # BEST ATAAACHC GDGTTTAT 58 6 1.4e-012 3.3e-008 # ATAAACTC GAGTTTAT 37 3 6.0e-009 1.4e-004 # ATAAACCC GGGTTTAT 8 0 3.8e-003 8.9e+001 # ATAAACAC GTGTTTAT 14 3 6.1e-003 1.4e+002 letter-probability matrix: alength= 4 w= 8 nsites= 60 E= 3.3e-008 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 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.233333 0.133333 0.000000 0.633333 0.000000 1.000000 0.000000 0.000000 MOTIF GAADCTCA DREME-11 # Word RC Word Pos Neg P-value E-value # BEST GAADCTCA TGAGHTTC 52 8 1.1e-009 2.6e-005 # GAAGCTCA TGAGCTTC 20 3 2.2e-004 5.0e+000 # GAAACTCA TGAGTTTC 18 3 6.8e-004 1.6e+001 # GAATCTCA TGAGATTC 14 2 2.0e-003 4.6e+001 letter-probability matrix: alength= 4 w= 8 nsites= 52 E= 2.6e-005 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.346154 0.000000 0.384615 0.269231 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AATRGCTG DREME-12 # Word RC Word Pos Neg P-value E-value # BEST AATRGCTG CAGCYATT 37 3 6.0e-009 1.4e-004 # AATGGCTG CAGCCATT 27 3 3.3e-006 7.7e-002 # AATAGCTG CAGCTATT 11 0 4.7e-004 1.1e+001 letter-probability matrix: alength= 4 w= 8 nsites= 38 E= 1.4e-004 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.289474 0.000000 0.710526 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 MOTIF AACTGATG DREME-13 # Word RC Word Pos Neg P-value E-value # BEST AACTGATG CATCAGTT 29 2 1.7e-007 4.0e-003 # AACTGATG CATCAGTT 29 2 1.7e-007 4.0e-003 letter-probability matrix: alength= 4 w= 8 nsites= 29 E= 4.0e-003 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 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 1.000000 0.000000 MOTIF AACTCYAA DREME-14 # Word RC Word Pos Neg P-value E-value # BEST AACTCYAA TTRGAGTT 37 6 5.5e-007 1.3e-002 # AACTCTAA TTAGAGTT 17 1 6.5e-005 1.5e+000 # AACTCCAA TTGGAGTT 20 5 1.9e-003 4.3e+001 letter-probability matrix: alength= 4 w= 8 nsites= 37 E= 1.3e-002 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.540541 0.000000 0.459459 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF GGCCAARA DREME-15 # Word RC Word Pos Neg P-value E-value # BEST GGCCAARA TYTTGGCC 19 0 1.7e-006 3.8e-002 # GGCCAAAA TTTTGGCC 11 0 4.7e-004 1.1e+001 # GGCCAAGA TCTTGGCC 9 0 1.9e-003 4.4e+001 letter-probability matrix: alength= 4 w= 8 nsites= 19 E= 3.8e-002 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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.578947 0.000000 0.421053 0.000000 1.000000 0.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 65.92 seconds