# DREME 4.12.0 # command: dreme -v 1 -oc /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_L6.CT_reproduciblePeaks_enhancerShort.MemeChipResults/dreme_out -png -dna -p /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_L6.CT_reproduciblePeaks_enhancerShort.MemeChipResults/seqs-centered -n /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_L6.CT_reproduciblePeaks_enhancerShort.MemeChipResults/control-centered # positives: 63585 from /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_L6.CT_reproduciblePeaks_enhancerShort.MemeChipResults/seqs-centered (Wed Jan 13 22:28:01 EST 2021) # negatives: 202202 from /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_L6.CT_reproduciblePeaks_enhancerShort.MemeChipResults/control-centered (Wed Jan 13 22:28:06 EST 2021) # host: compute-1-40.local # when: Thu Jan 14 00:06:11 EST 2021 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 0.273 C 0.228 G 0.227 T 0.272 MOTIF CDCCY DREME-1 # Word RC Word Pos Neg P-value E-value # BEST CDCCY RGGHG 46812 131810 8.2e-351 3.9e-346 # CACCC GGGTG 15151 39080 4.3e-130 2.0e-125 # CTCCC GGGAG 19680 53042 4.2e-118 2.0e-113 # CACCT AGGTG 12936 33371 3.7e-107 1.7e-102 # CTCCT AGGAG 21942 60530 1.0e-103 4.8e-099 # CGCCC GGGCG 4082 9056 6.5e-082 3.0e-077 # CGCCT AGGCG 4478 10714 6.0e-059 2.8e-054 letter-probability matrix: alength= 4 w= 5 nsites= 89628 E= 3.9e-346 0.000000 1.000000 0.000000 0.000000 0.345283 0.000000 0.099154 0.555563 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.505132 0.000000 0.494868 MOTIF TSGCR DREME-2 # Word RC Word Pos Neg P-value E-value # BEST TSGCR YGCSA 25922 69246 1.6e-194 7.0e-190 # TGGCA TGCCA 21991 58545 1.2e-157 5.4e-153 # TGGCG CGCCA 3298 8205 3.1e-033 1.4e-028 # TCGCA TGCGA 2246 6082 3.5e-011 1.5e-006 # TCGCG CGCGA 438 1020 5.0e-008 2.2e-003 letter-probability matrix: alength= 4 w= 5 nsites= 33042 E= 7.0e-190 0.000000 0.000000 0.000000 1.000000 0.000000 0.083500 0.916500 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.881242 0.000000 0.118758 0.000000 MOTIF GGMDS DREME-3 # Word RC Word Pos Neg P-value E-value # BEST GGMDS SHKCC 54181 163559 9.9e-140 4.2e-135 # GGAAG CTTCC 20111 56845 1.1e-064 4.6e-060 # GGCTG CAGCC 18567 53176 1.2e-046 5.2e-042 # GGCTC GAGCC 11921 33713 1.7e-033 7.4e-029 # GGAGC GCTCC 6597 17818 3.6e-032 1.5e-027 # GGCAG CTGCC 13310 38195 7.5e-030 3.2e-025 # GGAAC GTTCC 12210 35150 1.5e-025 6.5e-021 # GGAGG CCTCC 5114 14364 2.3e-015 9.6e-011 # GGCGC GCGCC 284 521 2.9e-013 1.2e-008 # GGCGG CCGCC 360 708 3.1e-013 1.3e-008 # GGCAC GTGCC 6380 18587 1.5e-010 6.6e-006 # GGATC GATCC 6321 18413 1.8e-010 7.7e-006 # GGATG CATCC 12412 37702 4.8e-007 2.1e-002 letter-probability matrix: alength= 4 w= 5 nsites= 120633 E= 4.2e-135 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.550836 0.449164 0.000000 0.000000 0.471977 0.000000 0.091045 0.436978 0.000000 0.367843 0.632157 0.000000 MOTIF CNCRC DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CNCRC GYGNG 30003 87081 1.8e-074 7.2e-070 # CTCAC GTGAG 12543 35384 6.9e-037 2.7e-032 # CACAC GTGTG 14290 41870 1.5e-021 5.7e-017 # CCCAC GTGGG 7032 20027 4.3e-017 1.7e-012 # CGCGC GCGCG 476 992 8.4e-014 3.3e-009 # CACGC GCGTG 2528 6976 4.0e-010 1.6e-005 # CCCGC GCGGG 870 2214 2.0e-008 7.8e-004 # CTCGC GCGAG 1064 2915 1.8e-005 7.1e-001 # CGCAC GTGCG 1492 4319 8.8e-004 3.4e+001 letter-probability matrix: alength= 4 w= 5 nsites= 41980 E= 7.2e-070 0.000000 1.000000 0.000000 0.000000 0.439209 0.181372 0.040448 0.338971 0.000000 1.000000 0.000000 0.000000 0.894164 0.000000 0.105836 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CDSC DREME-5 # Word RC Word Pos Neg P-value E-value # BEST CDSC GSHG 51702 158899 1.3e-050 4.9e-046 # CTGC GCAG 31617 94759 1.2e-036 4.5e-032 # CACC GGTG 12220 35392 7.6e-023 2.8e-018 # CAGC GCTG 33528 102496 1.5e-019 5.4e-015 # CTCC GGAG 11838 35436 2.0e-010 7.4e-006 # CGGC GCCG 3716 11024 9.2e-005 3.4e+000 # CGCC GGCG 323 807 1.7e-004 6.4e+000 letter-probability matrix: alength= 4 w= 4 nsites= 106022 E= 4.9e-046 0.000000 1.000000 0.000000 0.000000 0.498472 0.000000 0.037370 0.464158 0.000000 0.242459 0.757541 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CCACTAGR DREME-6 # Word RC Word Pos Neg P-value E-value # BEST CCACTAGR YCTAGTGG 435 683 5.5e-029 1.8e-024 # CCACTAGA TCTAGTGG 334 498 2.6e-025 8.4e-021 # CCACTAGG CCTAGTGG 101 186 1.2e-005 3.7e-001 letter-probability matrix: alength= 4 w= 8 nsites= 435 E= 1.8e-024 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 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.767816 0.000000 0.232184 0.000000 MOTIF CGH DREME-7 # Word RC Word Pos Neg P-value E-value # BEST CGH DCG 24808 74562 1.4e-022 4.5e-018 # CGC GCG 6321 17777 1.5e-018 4.7e-014 # CGA TCG 14809 44307 2.0e-013 6.4e-009 # CGT ACG 16851 51452 5.9e-008 1.9e-003 letter-probability matrix: alength= 4 w= 3 nsites= 33292 E= 4.5e-018 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.387601 0.146432 0.000000 0.465968 MOTIF CTGWSA DREME-8 # Word RC Word Pos Neg P-value E-value # BEST CTGWSA TSWCAG 12796 38143 1.2e-012 2.8e-008 # CTGTCA TGACAG 3312 9574 7.7e-007 1.8e-002 # CTGTGA TCACAG 3852 11282 3.4e-006 7.7e-002 # CTGACA TGTCAG 2913 8535 5.5e-005 1.3e+000 # CTGAGA TCTCAG 4619 13927 6.2e-004 1.4e+001 letter-probability matrix: alength= 4 w= 6 nsites= 14287 E= 2.8e-008 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.515924 0.000000 0.000000 0.484076 0.000000 0.385455 0.614545 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF AGCWC DREME-9 # Word RC Word Pos Neg P-value E-value # BEST AGCWC GWGCT 11692 34996 2.6e-010 5.9e-006 # AGCTC GAGCT 5894 17226 3.1e-009 7.1e-005 # AGCAC GTGCT 6376 19343 3.2e-004 7.3e+000 letter-probability matrix: alength= 4 w= 5 nsites= 12943 E= 5.9e-006 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.521672 0.000000 0.000000 0.478328 0.000000 1.000000 0.000000 0.000000 MOTIF AGTGTTA DREME-10 # Word RC Word Pos Neg P-value E-value # BEST AGTGTTA TAACACT 936 2381 5.6e-009 1.3e-004 # AGTGTTA TAACACT 936 2381 5.6e-009 1.3e-004 letter-probability matrix: alength= 4 w= 7 nsites= 943 E= 1.3e-004 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 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF GAADCC DREME-11 # Word RC Word Pos Neg P-value E-value # BEST GAADCC GGHTTC 6510 19145 6.2e-009 1.4e-004 # GAAGCC GGCTTC 2132 6157 5.8e-005 1.3e+000 # GAAACC GGTTTC 2565 7478 6.3e-005 1.4e+000 # GAATCC GGATTC 2044 6121 9.0e-003 2.0e+002 letter-probability matrix: alength= 4 w= 6 nsites= 6889 E= 1.4e-004 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.381333 0.000000 0.316011 0.302656 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CCG DREME-12 # Word RC Word Pos Neg P-value E-value # BEST CCG CGG 2022 5571 1.6e-008 3.6e-004 # CCG CGG 2022 5571 1.6e-008 3.6e-004 letter-probability matrix: alength= 4 w= 3 nsites= 2110 E= 3.6e-004 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 MOTIF CTGTKC DREME-13 # Word RC Word Pos Neg P-value E-value # BEST CTGTKC GMACAG 3489 10097 5.2e-007 1.1e-002 # CTGTTC GAACAG 2440 7022 9.3e-006 2.0e-001 # CTGTGC GCACAG 1099 3185 4.1e-003 8.9e+001 letter-probability matrix: alength= 4 w= 6 nsites= 3609 E= 1.1e-002 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 0.000000 0.309227 0.690773 0.000000 1.000000 0.000000 0.000000 MOTIF AGSCAAG DREME-14 # Word RC Word Pos Neg P-value E-value # BEST AGSCAAG CTTGSCT 1751 4896 1.9e-006 4.1e-002 # AGCCAAG CTTGGCT 702 1896 1.3e-004 2.8e+000 # AGGCAAG CTTGCCT 1068 3031 7.4e-004 1.6e+001 letter-probability matrix: alength= 4 w= 7 nsites= 1788 E= 4.1e-002 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.393736 0.606264 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 # Stopping reason: E-value threshold exceeded # Running time: 9259.90 seconds