# DREME 4.12.0 # command: dreme -v 1 -oc /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/KLF13.IDR0.05.filt.narrowPeak.top3000.summitPlusMinus250bp.MemeChipResultsDefaultMax/dreme_out -png -dna -p /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/KLF13.IDR0.05.filt.narrowPeak.top3000.summitPlusMinus250bp.MemeChipResultsDefaultMax/seqs-centered -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/KLF13.IDR0.05.filt.narrowPeak.top3000.summitPlusMinus250bp.MemeChipResultsDefaultMax/seqs-shuffled # positives: 3000 from /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/KLF13.IDR0.05.filt.narrowPeak.top3000.summitPlusMinus250bp.MemeChipResultsDefaultMax/seqs-centered (Mon Jan 01 19:09:14 PST 2018) # negatives: 3000 from /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/KLF13.IDR0.05.filt.narrowPeak.top3000.summitPlusMinus250bp.MemeChipResultsDefaultMax/seqs-shuffled (Mon Jan 01 19:09:15 PST 2018) # host: kali # when: Mon Jan 01 19:33:24 PST 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 0.203 C 0.301 G 0.296 T 0.200 MOTIF CMCGCCCH DREME-1 # Word RC Word Pos Neg P-value E-value # BEST CMCGCCCH DGGGCGKG 607 222 1.3e-048 5.4e-044 # CCCGCCCC GGGGCGGG 257 85 1.2e-022 4.9e-018 # CACGCCCC GGGGCGTG 132 34 1.7e-015 7.3e-011 # CACGCCCA TGGGCGTG 86 15 9.3e-014 3.9e-009 # CCCGCCCA TGGGCGGG 108 39 3.7e-009 1.6e-004 # CACGCCCT AGGGCGTG 46 12 3.7e-006 1.6e-001 # CCCGCCCT AGGGCGGG 80 42 3.3e-004 1.4e+001 letter-probability matrix: alength= 4 w= 8 nsites= 779 E= 5.4e-044 0.000000 1.000000 0.000000 0.000000 0.403081 0.596919 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 1.000000 0.000000 0.000000 0.286264 0.544288 0.000000 0.169448 MOTIF TGABTCA DREME-2 # Word RC Word Pos Neg P-value E-value # BEST TGABTCA TGAVTCA 192 48 1.2e-022 4.9e-018 # TGACTCA TGAGTCA 162 36 3.5e-021 1.5e-016 # TGATTCA TGAATCA 38 12 1.4e-004 6.1e+000 letter-probability matrix: alength= 4 w= 7 nsites= 259 E= 4.9e-018 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 0.428571 0.405405 0.166023 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 CMGCCKCC DREME-3 # Word RC Word Pos Neg P-value E-value # BEST CMGCCKCC GGMGGCKG 336 144 1.7e-020 7.2e-016 # CCGCCTCC GGAGGCGG 132 49 1.5e-010 6.4e-006 # CAGCCTCC GGAGGCTG 77 19 7.0e-010 3.0e-005 # CCGCCGCC GGCGGCGG 110 55 8.6e-006 3.6e-001 # CAGCCGCC GGCGGCTG 54 30 5.5e-003 2.3e+002 letter-probability matrix: alength= 4 w= 8 nsites= 374 E= 7.2e-016 0.000000 1.000000 0.000000 0.000000 0.342246 0.657754 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 0.000000 0.427807 0.572193 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF ACTTCCGB DREME-4 # Word RC Word Pos Neg P-value E-value # BEST ACTTCCGB VCGGAAGT 104 15 3.7e-018 1.6e-013 # ACTTCCGG CCGGAAGT 69 8 1.2e-013 4.8e-009 # ACTTCCGC GCGGAAGT 28 5 3.2e-005 1.3e+000 # ACTTCCGT ACGGAAGT 13 2 3.7e-003 1.5e+002 letter-probability matrix: alength= 4 w= 8 nsites= 115 E= 1.6e-013 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 0.000000 1.000000 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 0.252174 0.634783 0.113043 MOTIF GGGYGGAK DREME-5 # Word RC Word Pos Neg P-value E-value # BEST GGGYGGAK MTCCRCCC 259 110 3.9e-016 1.6e-011 # GGGCGGAG CTCCGCCC 125 50 4.1e-009 1.7e-004 # GGGTGGAT ATCCACCC 46 14 1.9e-005 8.1e-001 # GGGCGGAT ATCCGCCC 33 10 2.9e-004 1.2e+001 # GGGTGGAG CTCCACCC 70 38 1.2e-003 5.2e+001 letter-probability matrix: alength= 4 w= 8 nsites= 335 E= 1.6e-011 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 0.501493 0.000000 0.498507 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 0.000000 0.656716 0.343284 MOTIF ATTACAGG DREME-6 # Word RC Word Pos Neg P-value E-value # BEST ATTACAGG CCTGTAAT 52 1 4.8e-015 2.0e-010 # ATTACAGG CCTGTAAT 52 1 4.8e-015 2.0e-010 letter-probability matrix: alength= 4 w= 8 nsites= 52 E= 2.0e-010 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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF CASGTGR DREME-7 # Word RC Word Pos Neg P-value E-value # BEST CASGTGR YCACSTG 275 128 1.4e-014 5.8e-010 # CACGTGG CCACGTG 78 22 6.1e-009 2.6e-004 # CACGTGA TCACGTG 66 26 1.6e-005 6.7e-001 # CAGGTGG CCACCTG 94 52 2.7e-004 1.1e+001 # CAGGTGA TCACCTG 70 40 2.5e-003 1.1e+002 letter-probability matrix: alength= 4 w= 7 nsites= 325 E= 5.8e-010 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.430769 0.569231 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 0.455385 0.000000 0.544615 0.000000 MOTIF RGRAA DREME-8 # Word RC Word Pos Neg P-value E-value # BEST RGRAA TTYCY 1629 1341 6.0e-014 2.5e-009 # AGGAA TTCCT 679 512 3.7e-008 1.6e-003 # AGAAA TTTCT 520 399 8.3e-006 3.5e-001 # GGAAA TTTCC 641 509 8.5e-006 3.6e-001 # GGGAA TTCCC 816 700 3.2e-004 1.3e+001 letter-probability matrix: alength= 4 w= 5 nsites= 2896 E= 2.5e-009 0.512086 0.000000 0.487914 0.000000 0.000000 0.000000 1.000000 0.000000 0.414710 0.000000 0.585290 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF TGAYGTMA DREME-9 # Word RC Word Pos Neg P-value E-value # BEST TGAYGTMA TKACRTCA 77 13 1.1e-012 4.5e-008 # TGACGTCA TGACGTCA 23 1 1.4e-006 5.8e-002 # TGATGTAA TTACATCA 13 0 1.2e-004 4.9e+000 # TGATGTCA TGACATCA 34 10 1.9e-004 7.5e+000 # TGACGTAA TTACGTCA 12 2 6.4e-003 2.6e+002 letter-probability matrix: alength= 4 w= 8 nsites= 104 E= 4.5e-008 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 0.355769 0.000000 0.644231 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.298077 0.701923 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AAAGTGCT DREME-10 # Word RC Word Pos Neg P-value E-value # BEST AAAGTGCT AGCACTTT 41 2 9.5e-011 3.8e-006 # AAAGTGCT AGCACTTT 41 2 9.5e-011 3.8e-006 letter-probability matrix: alength= 4 w= 8 nsites= 41 E= 3.8e-006 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 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF AAATAMA DREME-11 # Word RC Word Pos Neg P-value E-value # BEST AAATAMA TKTATTT 84 26 9.8e-009 4.0e-004 # AAATACA TGTATTT 47 11 9.1e-007 3.7e-002 # AAATAAA TTTATTT 37 15 1.5e-003 6.2e+001 letter-probability matrix: alength= 4 w= 7 nsites= 91 E= 4.0e-004 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 0.439560 0.560440 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ATGGCGGC DREME-12 # Word RC Word Pos Neg P-value E-value # BEST ATGGCGGC GCCGCCAT 32 2 3.2e-008 1.3e-003 # ATGGCGGC GCCGCCAT 32 2 3.2e-008 1.3e-003 letter-probability matrix: alength= 4 w= 8 nsites= 32 E= 1.3e-003 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 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF GCGCRCGC DREME-13 # Word RC Word Pos Neg P-value E-value # BEST GCGCRCGC GCGYGCGC 76 24 7.2e-008 2.9e-003 # GCGCACGC GCGTGCGC 45 13 1.4e-005 5.6e-001 # GCGCGCGC GCGCGCGC 36 11 1.6e-004 6.6e+000 letter-probability matrix: alength= 4 w= 8 nsites= 81 E= 2.9e-003 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 0.000000 0.530864 0.000000 0.469136 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 MOTIF AAATTAGC DREME-14 # Word RC Word Pos Neg P-value E-value # BEST AAATTAGC GCTAATTT 23 0 1.1e-007 4.6e-003 # AAATTAGC GCTAATTT 23 0 1.1e-007 4.6e-003 letter-probability matrix: alength= 4 w= 8 nsites= 24 E= 4.6e-003 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 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF ACWCACCC DREME-15 # Word RC Word Pos Neg P-value E-value # BEST ACWCACCC GGGTGWGT 203 114 1.6e-007 6.5e-003 # ACACACCC GGGTGTGT 162 93 6.0e-006 2.4e-001 # ACTCACCC GGGTGAGT 48 22 1.2e-003 4.8e+001 letter-probability matrix: alength= 4 w= 8 nsites= 323 E= 6.5e-003 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.817337 0.000000 0.000000 0.182663 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF ATAAAAH DREME-16 # Word RC Word Pos Neg P-value E-value # BEST ATAAAAH DTTTTAT 59 16 2.6e-007 1.1e-002 # ATAAAAT ATTTTAT 22 6 1.8e-003 7.3e+001 # ATAAAAA TTTTTAT 14 2 2.1e-003 8.3e+001 # ATAAAAC GTTTTAT 24 8 3.4e-003 1.4e+002 letter-probability matrix: alength= 4 w= 7 nsites= 66 E= 1.1e-002 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 1.000000 0.000000 0.000000 0.000000 0.212121 0.363636 0.000000 0.424242 MOTIF CTSCGGA DREME-17 # Word RC Word Pos Neg P-value E-value # BEST CTSCGGA TCCGSAG 103 44 4.7e-007 1.9e-002 # CTCCGGA TCCGGAG 43 16 2.7e-004 1.1e+001 # CTGCGGA TCCGCAG 60 28 3.9e-004 1.6e+001 letter-probability matrix: alength= 4 w= 7 nsites= 106 E= 1.9e-002 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.415094 0.584906 0.000000 0.000000 1.000000 0.000000 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 CACGCCTS DREME-18 # Word RC Word Pos Neg P-value E-value # BEST CACGCCTS SAGGCGTG 63 20 1.0e-006 4.2e-002 # CACGCCTC GAGGCGTG 41 13 8.2e-005 3.3e+000 # CACGCCTG CAGGCGTG 24 7 1.6e-003 6.5e+001 letter-probability matrix: alength= 4 w= 8 nsites= 78 E= 4.2e-002 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 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 0.692308 0.307692 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 404.90 seconds