# DREME 4.12.0 # command: dreme -v 1 -oc /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/PRDM4.IDR0.05.filt.narrowPeak.top3000.summitPlusMinus250bp.MemeChipResultsDefaultMax/dreme_out -png -dna -p /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/PRDM4.IDR0.05.filt.narrowPeak.top3000.summitPlusMinus250bp.MemeChipResultsDefaultMax/seqs-centered -n /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/PRDM4.IDR0.05.filt.narrowPeak.top3000.summitPlusMinus250bp.MemeChipResultsDefaultMax/seqs-shuffled # positives: 3000 from /srv/scratch/shared/surya/imk1/TFBindingPredictionProject/EncodeOtherZnfData/Encode3Datahg38/PRDM4.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/PRDM4.IDR0.05.filt.narrowPeak.top3000.summitPlusMinus250bp.MemeChipResultsDefaultMax/seqs-shuffled (Mon Jan 01 19:09:15 PST 2018) # host: kali # when: Mon Jan 01 19:31:41 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 0.268 C 0.229 G 0.234 T 0.269 MOTIF GAAAC DREME-1 # Word RC Word Pos Neg P-value E-value # BEST GAAAC GTTTC 1860 574 1.5e-260 6.3e-256 # GAAAC GTTTC 1860 574 1.5e-260 6.3e-256 letter-probability matrix: alength= 4 w= 5 nsites= 2546 E= 6.3e-256 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 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF DTTTATD DREME-2 # Word RC Word Pos Neg P-value E-value # BEST DTTTATD HATAAAH 845 377 5.5e-052 2.3e-047 # TTTTATG CATAAAA 188 67 2.5e-015 1.1e-010 # TTTTATT AATAAAA 180 76 1.3e-011 5.4e-007 # GTTTATT AATAAAC 130 47 9.4e-011 3.9e-006 # ATTTATT AATAAAT 125 49 2.3e-009 9.6e-005 # ATTTATG CATAAAT 111 41 4.0e-009 1.7e-004 # TTTTATA TATAAAA 107 48 9.0e-007 3.8e-002 # GTTTATG CATAAAC 82 33 2.3e-006 9.5e-002 # ATTTATA TATAAAT 72 28 5.3e-006 2.2e-001 # GTTTATA TATAAAC 65 34 1.1e-003 4.6e+001 letter-probability matrix: alength= 4 w= 7 nsites= 1073 E= 2.3e-047 0.285182 0.000000 0.258155 0.456664 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 0.224604 0.000000 0.368127 0.407269 MOTIF RTGASTCA DREME-3 # Word RC Word Pos Neg P-value E-value # BEST RTGASTCA TGASTCAY 130 25 5.0e-019 2.1e-014 # ATGAGTCA TGACTCAT 58 9 2.8e-010 1.2e-005 # ATGACTCA TGAGTCAT 52 7 5.7e-010 2.4e-005 # GTGAGTCA TGACTCAC 43 6 2.6e-008 1.1e-003 # GTGACTCA TGAGTCAC 45 7 3.1e-008 1.3e-003 letter-probability matrix: alength= 4 w= 8 nsites= 133 E= 2.1e-014 0.548872 0.000000 0.451128 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 0.488722 0.511278 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 RWTTACA DREME-4 # Word RC Word Pos Neg P-value E-value # BEST RWTTACA TGTAAWY 318 145 2.0e-017 8.2e-013 # ATTTACA TGTAAAT 101 41 1.9e-007 7.7e-003 # GATTACA TGTAATC 59 22 2.1e-005 8.8e-001 # AATTACA TGTAATT 93 45 2.2e-005 9.1e-001 # GTTTACA TGTAAAC 83 38 2.2e-005 9.1e-001 letter-probability matrix: alength= 4 w= 7 nsites= 344 E= 8.2e-013 0.581395 0.000000 0.418605 0.000000 0.453488 0.000000 0.000000 0.546512 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 MOTIF CMCAGM DREME-5 # Word RC Word Pos Neg P-value E-value # BEST CMCAGM KCTGKG 968 701 8.2e-015 3.4e-010 # CCCAGC GCTGGG 315 191 4.7e-009 1.9e-004 # CACAGC GCTGTG 291 185 2.4e-007 9.9e-003 # CCCAGA TCTGGG 263 196 6.6e-004 2.7e+001 # CACAGA TCTGTG 236 188 8.9e-003 3.7e+002 letter-probability matrix: alength= 4 w= 6 nsites= 1157 E= 3.4e-010 0.000000 1.000000 0.000000 0.000000 0.465860 0.534140 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 0.448574 0.551426 0.000000 0.000000 MOTIF TTATCW DREME-6 # Word RC Word Pos Neg P-value E-value # BEST TTATCW WGATAA 454 265 2.9e-014 1.2e-009 # TTATCT AGATAA 276 139 1.5e-012 6.1e-008 # TTATCA TGATAA 193 136 7.3e-004 3.0e+001 letter-probability matrix: alength= 4 w= 6 nsites= 496 E= 1.2e-009 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 1.000000 0.000000 0.000000 0.405242 0.000000 0.000000 0.594758 MOTIF GGSAGS DREME-7 # Word RC Word Pos Neg P-value E-value # BEST GGSAGS SCTSCC 887 679 5.6e-010 2.3e-005 # GGGAGG CCTCCC 355 232 5.2e-008 2.1e-003 # GGCAGC GCTGCC 253 185 4.3e-004 1.8e+001 # GGCAGG CCTGCC 271 214 4.0e-003 1.6e+002 # GGGAGC GCTCCC 219 168 4.3e-003 1.7e+002 letter-probability matrix: alength= 4 w= 6 nsites= 1154 E= 2.3e-005 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.466205 0.533795 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.420277 0.579723 0.000000 MOTIF ATKACATC DREME-8 # Word RC Word Pos Neg P-value E-value # BEST ATKACATC GATGTMAT 43 6 2.6e-008 1.0e-003 # ATTACATC GATGTAAT 16 0 1.5e-005 6.0e-001 # ATGACATC GATGTCAT 27 6 1.6e-004 6.3e+000 letter-probability matrix: alength= 4 w= 8 nsites= 46 E= 1.0e-003 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.652174 0.347826 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 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 MOTIF AAACAAAC DREME-9 # Word RC Word Pos Neg P-value E-value # BEST AAACAAAC GTTTGTTT 59 15 1.1e-007 4.3e-003 # AAACAAAC GTTTGTTT 59 15 1.1e-007 4.3e-003 letter-probability matrix: alength= 4 w= 8 nsites= 60 E= 4.3e-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 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 0.000000 1.000000 0.000000 0.000000 MOTIF GCWATTA DREME-10 # Word RC Word Pos Neg P-value E-value # BEST GCWATTA TAATWGC 97 38 1.5e-007 5.9e-003 # GCTATTA TAATAGC 44 16 1.8e-004 7.4e+000 # GCAATTA TAATTGC 53 22 2.1e-004 8.3e+000 letter-probability matrix: alength= 4 w= 7 nsites= 97 E= 5.9e-003 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.546392 0.000000 0.000000 0.453608 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 MOTIF CTCCAGS DREME-11 # Word RC Word Pos Neg P-value E-value # BEST CTCCAGS SCTGGAG 171 90 1.7e-007 6.8e-003 # CTCCAGG CCTGGAG 100 48 9.1e-006 3.7e-001 # CTCCAGC GCTGGAG 75 42 1.3e-003 5.3e+001 letter-probability matrix: alength= 4 w= 7 nsites= 179 E= 6.8e-003 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.418994 0.581006 0.000000 MOTIF CCCCAYCC DREME-12 # Word RC Word Pos Neg P-value E-value # BEST CCCCAYCC GGRTGGGG 67 21 3.9e-007 1.5e-002 # CCCCACCC GGGTGGGG 45 17 2.3e-004 9.3e+000 # CCCCATCC GGATGGGG 22 4 2.6e-004 1.0e+001 letter-probability matrix: alength= 4 w= 8 nsites= 67 E= 1.5e-002 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 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.671642 0.000000 0.328358 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CAGATKA DREME-13 # Word RC Word Pos Neg P-value E-value # BEST CAGATKA TMATCTG 94 38 4.5e-007 1.8e-002 # CAGATGA TCATCTG 59 21 1.1e-005 4.5e-001 # CAGATTA TAATCTG 35 17 8.5e-003 3.4e+002 letter-probability matrix: alength= 4 w= 7 nsites= 95 E= 1.8e-002 0.000000 1.000000 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 0.000000 0.000000 1.000000 0.000000 0.000000 0.621053 0.378947 1.000000 0.000000 0.000000 0.000000 MOTIF RTTTTAA DREME-14 # Word RC Word Pos Neg P-value E-value # BEST RTTTTAA TTAAAAY 204 119 6.8e-007 2.7e-002 # GTTTTAA TTAAAAC 116 59 7.4e-006 3.0e-001 # ATTTTAA TTAAAAT 95 64 7.8e-003 3.1e+002 letter-probability matrix: alength= 4 w= 7 nsites= 210 E= 2.7e-002 0.452381 0.000000 0.547619 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 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ACACACTY DREME-15 # Word RC Word Pos Neg P-value E-value # BEST ACACACTY RAGTGTGT 41 8 9.0e-007 3.6e-002 # ACACACTC GAGTGTGT 21 3 1.4e-004 5.4e+000 # ACACACTT AAGTGTGT 20 5 2.0e-003 8.0e+001 letter-probability matrix: alength= 4 w= 8 nsites= 41 E= 3.6e-002 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 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.512195 0.000000 0.487805 # Stopping reason: E-value threshold exceeded # Running time: 340.75 seconds