# DREME 4.12.0 # command: dreme -v 1 -oc /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/GFI1B.IDR0.05.filt.narrowPeak.top3000.summitPlusMinus250bp.MemeChipResultsDefaultMax/dreme_out -png -dna -p /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/GFI1B.IDR0.05.filt.narrowPeak.top3000.summitPlusMinus250bp.MemeChipResultsDefaultMax/seqs-centered -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/GFI1B.IDR0.05.filt.narrowPeak.top3000.summitPlusMinus250bp.MemeChipResultsDefaultMax/seqs-shuffled # positives: 3000 from /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/GFI1B.IDR0.05.filt.narrowPeak.top3000.summitPlusMinus250bp.MemeChipResultsDefaultMax/seqs-centered (Mon Jan 01 19:09:15 PST 2018) # negatives: 3000 from /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/GFI1B.IDR0.05.filt.narrowPeak.top3000.summitPlusMinus250bp.MemeChipResultsDefaultMax/seqs-shuffled (Mon Jan 01 19:09:15 PST 2018) # host: kali # when: Mon Jan 01 19:32:44 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 0.283 C 0.217 G 0.218 T 0.282 MOTIF AATCWSD DREME-1 # Word RC Word Pos Neg P-value E-value # BEST AATCWSD HSWGATT 1662 547 1.6e-202 6.9e-198 # AATCTCA TGAGATT 297 54 2.4e-044 1.0e-039 # AATCACA TGTGATT 273 68 3.8e-032 1.6e-027 # AATCACT AGTGATT 215 43 4.2e-030 1.8e-025 # AATCTGT ACAGATT 201 52 5.5e-023 2.3e-018 # AATCTGG CCAGATT 186 49 5.5e-021 2.4e-016 # AATCAGT ACTGATT 189 57 1.1e-018 4.9e-014 # AATCAGA TCTGATT 196 68 1.8e-016 7.6e-012 # AATCTCT AGAGATT 184 63 8.9e-016 3.8e-011 # AATCTGA TCAGATT 175 64 7.2e-014 3.1e-009 # AATCACG CGTGATT 55 8 4.1e-010 1.7e-005 # AATCTCG CGAGATT 48 11 5.5e-007 2.4e-002 # AATCAGG CCTGATT 113 62 5.7e-005 2.4e+000 letter-probability matrix: alength= 4 w= 7 nsites= 2148 E= 6.9e-198 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 1.000000 0.000000 0.000000 0.490223 0.000000 0.000000 0.509777 0.000000 0.509311 0.490689 0.000000 0.438082 0.000000 0.189479 0.372439 MOTIF RTAAAY DREME-2 # Word RC Word Pos Neg P-value E-value # BEST RTAAAY RTTTAY 1085 568 3.4e-051 1.4e-046 # ATAAAC GTTTAT 383 172 1.5e-021 6.2e-017 # ATAAAT ATTTAT 458 232 2.2e-020 9.1e-016 # GTAAAC GTTTAC 212 98 1.4e-011 5.7e-007 # GTAAAT ATTTAC 239 128 1.2e-009 5.0e-005 letter-probability matrix: alength= 4 w= 6 nsites= 1644 E= 1.4e-046 0.718978 0.000000 0.281022 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 0.373479 0.000000 0.626521 MOTIF TGACTCAB DREME-3 # Word RC Word Pos Neg P-value E-value # BEST TGACTCAB VTGAGTCA 259 35 1.3e-045 5.4e-041 # TGACTCAT ATGAGTCA 122 10 2.2e-026 8.9e-022 # TGACTCAC GTGAGTCA 87 12 1.1e-015 4.3e-011 # TGACTCAG CTGAGTCA 54 13 1.9e-007 8.0e-003 letter-probability matrix: alength= 4 w= 8 nsites= 280 E= 5.4e-041 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 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 0.000000 0.321429 0.207143 0.471429 MOTIF BCTGGG DREME-4 # Word RC Word Pos Neg P-value E-value # BEST BCTGGG CCCAGV 684 415 1.3e-019 5.5e-015 # CCTGGG CCCAGG 282 146 4.4e-012 1.8e-007 # GCTGGG CCCAGC 262 160 1.5e-007 6.2e-003 # TCTGGG CCCAGA 204 140 2.3e-004 9.3e+000 letter-probability matrix: alength= 4 w= 6 nsites= 792 E= 5.5e-015 0.000000 0.375000 0.356061 0.268939 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 0.000000 0.000000 1.000000 0.000000 MOTIF AGATAA DREME-5 # Word RC Word Pos Neg P-value E-value # BEST AGATAA TTATCT 293 121 5.2e-019 2.1e-014 # AGATAA TTATCT 293 121 5.2e-019 2.1e-014 letter-probability matrix: alength= 4 w= 6 nsites= 312 E= 2.1e-014 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 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AAADCAAA DREME-6 # Word RC Word Pos Neg P-value E-value # BEST AAADCAAA TTTGHTTT 302 135 3.6e-017 1.5e-012 # AAAACAAA TTTGTTTT 159 59 1.8e-012 7.4e-008 # AAATCAAA TTTGATTT 93 47 5.2e-005 2.1e+000 # AAAGCAAA TTTGCTTT 75 39 4.3e-004 1.7e+001 letter-probability matrix: alength= 4 w= 8 nsites= 331 E= 1.5e-012 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.492447 0.000000 0.229607 0.277946 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 0.000000 MOTIF TGABGTCA DREME-7 # Word RC Word Pos Neg P-value E-value # BEST TGABGTCA TGACVTCA 105 23 2.9e-014 1.2e-009 # TGAGGTCA TGACCTCA 46 10 5.6e-007 2.3e-002 # TGATGTCA TGACATCA 48 12 1.4e-006 5.8e-002 # TGACGTCA TGACGTCA 13 1 9.1e-004 3.7e+001 letter-probability matrix: alength= 4 w= 8 nsites= 116 E= 1.2e-009 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 0.120690 0.413793 0.465517 0.000000 0.000000 1.000000 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 TTTTATGR DREME-8 # Word RC Word Pos Neg P-value E-value # BEST TTTTATGR YCATAAAA 109 27 2.0e-013 8.1e-009 # TTTTATGA TCATAAAA 66 13 4.3e-010 1.7e-005 # TTTTATGG CCATAAAA 44 14 4.7e-005 1.9e+000 letter-probability matrix: alength= 4 w= 8 nsites= 113 E= 8.1e-009 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 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.601770 0.000000 0.398230 0.000000 MOTIF ATTAC DREME-9 # Word RC Word Pos Neg P-value E-value # BEST ATTAC GTAAT 576 384 7.7e-012 3.1e-007 # ATTAC GTAAT 576 384 7.7e-012 3.1e-007 letter-probability matrix: alength= 4 w= 5 nsites= 626 E= 3.1e-007 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 MOTIF CWCWGC DREME-10 # Word RC Word Pos Neg P-value E-value # BEST CWCWGC GCWGWG 813 600 5.2e-011 2.1e-006 # CACTGC GCAGTG 232 153 1.9e-005 7.6e-001 # CACAGC GCTGTG 245 169 6.4e-005 2.6e+000 # CTCTGC GCAGAG 252 178 1.3e-004 5.0e+000 # CTCAGC GCTGAG 221 166 2.2e-003 9.0e+001 letter-probability matrix: alength= 4 w= 6 nsites= 997 E= 2.1e-006 0.000000 1.000000 0.000000 0.000000 0.505517 0.000000 0.000000 0.494483 0.000000 1.000000 0.000000 0.000000 0.483450 0.000000 0.000000 0.516550 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF AACCACAR DREME-11 # Word RC Word Pos Neg P-value E-value # BEST AACCACAR YTGTGGTT 78 20 1.1e-009 4.3e-005 # AACCACAG CTGTGGTT 33 5 2.0e-006 8.0e-002 # AACCACAA TTGTGGTT 45 15 6.2e-005 2.5e+000 letter-probability matrix: alength= 4 w= 8 nsites= 78 E= 4.3e-005 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 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 0.000000 0.576923 0.000000 0.423077 0.000000 MOTIF GCARTAAA DREME-12 # Word RC Word Pos Neg P-value E-value # BEST GCARTAAA TTTAYTGC 53 8 1.3e-009 5.0e-005 # GCAATAAA TTTATTGC 39 6 2.5e-007 9.9e-003 # GCAGTAAA TTTACTGC 14 2 2.1e-003 8.2e+001 letter-probability matrix: alength= 4 w= 8 nsites= 53 E= 5.0e-005 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.735849 0.000000 0.264151 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 CTTTGGGA DREME-13 # Word RC Word Pos Neg P-value E-value # BEST CTTTGGGA TCCCAAAG 50 7 1.8e-009 7.2e-005 # CTTTGGGA TCCCAAAG 50 7 1.8e-009 7.2e-005 letter-probability matrix: alength= 4 w= 8 nsites= 50 E= 7.2e-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 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 BAAATC DREME-14 # Word RC Word Pos Neg P-value E-value # BEST BAAATC GATTTV 491 336 3.7e-009 1.5e-004 # GAAATC GATTTC 191 124 6.3e-005 2.5e+000 # TAAATC GATTTA 122 75 4.1e-004 1.6e+001 # CAAATC GATTTG 202 151 3.0e-003 1.2e+002 letter-probability matrix: alength= 4 w= 6 nsites= 531 E= 1.5e-004 0.000000 0.397363 0.367232 0.235405 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 1.000000 0.000000 0.000000 MOTIF STTGTAAA DREME-15 # Word RC Word Pos Neg P-value E-value # BEST STTGTAAA TTTACAAS 41 5 2.0e-008 7.8e-004 # CTTGTAAA TTTACAAG 27 3 4.0e-006 1.6e-001 # GTTGTAAA TTTACAAC 14 2 2.1e-003 8.2e+001 letter-probability matrix: alength= 4 w= 8 nsites= 43 E= 7.8e-004 0.000000 0.651163 0.348837 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 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 ACACGY DREME-16 # Word RC Word Pos Neg P-value E-value # BEST ACACGY RCGTGT 126 57 1.2e-007 4.8e-003 # ACACGC GCGTGT 71 29 1.4e-005 5.5e-001 # ACACGT ACGTGT 55 30 4.2e-003 1.7e+002 letter-probability matrix: alength= 4 w= 6 nsites= 133 E= 4.8e-003 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 0.000000 0.000000 1.000000 0.000000 0.000000 0.586466 0.000000 0.413534 MOTIF AGGSAG DREME-17 # Word RC Word Pos Neg P-value E-value # BEST AGGSAG CTSCCT 437 305 1.3e-007 5.2e-003 # AGGGAG CTCCCT 254 164 3.0e-006 1.2e-001 # AGGCAG CTGCCT 206 151 1.6e-003 6.2e+001 letter-probability matrix: alength= 4 w= 6 nsites= 480 E= 5.2e-003 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 0.443750 0.556250 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF CYGTCTCA DREME-18 # Word RC Word Pos Neg P-value E-value # BEST CYGTCTCA TGAGACRG 55 14 3.0e-007 1.2e-002 # CTGTCTCA TGAGACAG 42 14 1.1e-004 4.3e+000 # CCGTCTCA TGAGACGG 13 0 1.2e-004 4.7e+000 letter-probability matrix: alength= 4 w= 8 nsites= 55 E= 1.2e-002 0.000000 1.000000 0.000000 0.000000 0.000000 0.236364 0.000000 0.763636 0.000000 0.000000 1.000000 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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AGGCGTG DREME-19 # Word RC Word Pos Neg P-value E-value # BEST AGGCGTG CACGCCT 30 3 6.6e-007 2.6e-002 # AGGCGTG CACGCCT 30 3 6.6e-007 2.6e-002 letter-probability matrix: alength= 4 w= 7 nsites= 30 E= 2.6e-002 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 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 436.83 seconds