# DREME 4.12.0 # command: dreme -v 1 -oc /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF404.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/dreme_out -png -dna -p /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF404.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/seqs-centered -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF404.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/seqs-shuffled # positives: 600 from /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF404.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/seqs-centered (Thu May 10 17:25:24 PDT 2018) # negatives: 600 from /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/ZNF404.IDR0.05.filt.narrowPeak.top600.summitPlusMinus250bp.MemeChipResults/seqs-shuffled (Thu May 10 17:25:25 PDT 2018) # host: kali # when: Thu May 10 18:15:20 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 0.367 C 0.143 G 0.144 T 0.345 MOTIF TAAATAAA DREME-1 # Word RC Word Pos Neg P-value E-value # BEST TAAATAAA TTTATTTA 498 97 6.3e-129 1.5e-124 # TAAATAAA TTTATTTA 498 97 6.3e-129 1.5e-124 letter-probability matrix: alength= 4 w= 8 nsites= 2458 E= 1.5e-124 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 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 MOTIF GAGWC DREME-2 # Word RC Word Pos Neg P-value E-value # BEST GAGWC GWCTC 381 64 5.3e-086 1.3e-081 # GAGAC GTCTC 314 42 3.2e-072 7.8e-068 # GAGTC GACTC 220 27 1.3e-047 3.2e-043 letter-probability matrix: alength= 4 w= 5 nsites= 574 E= 1.3e-081 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.667247 0.000000 0.000000 0.332753 0.000000 1.000000 0.000000 0.000000 MOTIF CTCTGTY DREME-3 # Word RC Word Pos Neg P-value E-value # BEST CTCTGTY RACAGAG 165 6 5.2e-047 1.2e-042 # CTCTGTC GACAGAG 113 3 1.2e-032 2.8e-028 # CTCTGTT AACAGAG 53 3 1.4e-013 3.2e-009 letter-probability matrix: alength= 4 w= 7 nsites= 171 E= 1.2e-042 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 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.684211 0.000000 0.315789 MOTIF CHTCTCA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CHTCTCA TGAGADG 117 6 1.4e-030 3.3e-026 # CATCTCA TGAGATG 96 4 7.1e-026 1.6e-021 # CCTCTCA TGAGAGG 12 1 1.6e-003 3.7e+001 # CTTCTCA TGAGAAG 10 1 5.7e-003 1.3e+002 letter-probability matrix: alength= 4 w= 7 nsites= 120 E= 3.3e-026 0.000000 1.000000 0.000000 0.000000 0.816667 0.100000 0.000000 0.083333 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 1.000000 0.000000 0.000000 0.000000 MOTIF CCWGSC DREME-5 # Word RC Word Pos Neg P-value E-value # BEST CCWGSC GSCWGG 151 35 1.5e-021 3.4e-017 # CCAGGC GCCTGG 85 13 1.9e-015 4.4e-011 # CCAGCC GGCTGG 61 9 2.0e-011 4.5e-007 # CCTGCC GGCAGG 26 8 1.3e-003 2.9e+001 # CCTGGC GCCAGG 35 14 1.6e-003 3.6e+001 letter-probability matrix: alength= 4 w= 6 nsites= 169 E= 3.4e-017 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.686391 0.000000 0.000000 0.313609 0.000000 0.000000 1.000000 0.000000 0.000000 0.408284 0.591716 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF GAGCVA DREME-6 # Word RC Word Pos Neg P-value E-value # BEST GAGCVA TBGCTC 103 28 1.0e-012 2.3e-008 # GAGCAA TTGCTC 52 16 4.0e-006 8.8e-002 # GAGCGA TCGCTC 29 4 4.2e-006 9.3e-002 # GAGCCA TGGCTC 24 8 3.1e-003 6.9e+001 letter-probability matrix: alength= 4 w= 6 nsites= 111 E= 2.3e-008 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 1.000000 0.000000 0.000000 0.477477 0.216216 0.306306 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF GTGAS DREME-7 # Word RC Word Pos Neg P-value E-value # BEST GTGAS STCAC 112 45 5.2e-009 1.1e-004 # GTGAC GTCAC 60 19 1.0e-006 2.2e-002 # GTGAG CTCAC 56 27 6.6e-004 1.4e+001 letter-probability matrix: alength= 4 w= 5 nsites= 132 E= 1.1e-004 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 0.000000 0.530303 0.469697 0.000000 MOTIF GGCRACA DREME-8 # Word RC Word Pos Neg P-value E-value # BEST GGCRACA TGTYGCC 29 2 1.7e-007 3.6e-003 # GGCAACA TGTTGCC 22 2 1.5e-005 3.2e-001 # GGCGACA TGTCGCC 7 0 7.7e-003 1.6e+002 letter-probability matrix: alength= 4 w= 7 nsites= 29 E= 3.6e-003 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.758621 0.000000 0.241379 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 # Stopping reason: E-value threshold exceeded # Running time: 39.43 seconds