# DREME 4.12.0 # command: dreme -v 1 -oc /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_L23_reproduciblePeaks_enhancerShort.MemeChipResults/dreme_out -png -dna -p /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_L23_reproduciblePeaks_enhancerShort.MemeChipResults/seqs-centered -n /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_L23_reproduciblePeaks_enhancerShort.MemeChipResults/control-centered # positives: 71638 from /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_L23_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_L23_reproduciblePeaks_enhancerShort.MemeChipResults/control-centered (Wed Jan 13 22:28:06 EST 2021) # host: compute-1-40.local # when: Thu Jan 14 00:03:56 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 DCCYAC DREME-1 # Word RC Word Pos Neg P-value E-value # BEST DCCYAC GTRGGH 29860 58765 2.4e-817 1.1e-812 # TCCCAC GTGGGA 10352 19147 2.7e-283 1.3e-278 # ACCCAC GTGGGT 8684 15394 2.2e-276 1.0e-271 # GCCCAC GTGGGC 6388 11121 2.4e-212 1.1e-207 # TCCTAC GTAGGA 4628 9835 1.9e-058 8.9e-054 # GCCTAC GTAGGC 3200 6722 2.5e-043 1.2e-038 # ACCTAC GTAGGT 2907 6066 5.3e-041 2.5e-036 letter-probability matrix: alength= 4 w= 6 nsites= 37714 E= 1.1e-812 0.318529 0.000000 0.263430 0.418041 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.710214 0.000000 0.289786 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CDCCNCC DREME-2 # Word RC Word Pos Neg P-value E-value # BEST CDCCNCC GGNGGHG 12998 27630 1.4e-178 6.3e-174 # CTCCTCC GGAGGAG 3722 7840 1.5e-049 6.9e-045 # CACCCCC GGGGGTG 1931 3795 8.0e-038 3.7e-033 # CGCCTCC GGAGGCG 840 1390 4.2e-033 1.9e-028 # CGCCCCC GGGGGCG 878 1479 1.3e-032 5.9e-028 # CACCTCC GGAGGTG 1989 4064 6.6e-032 3.0e-027 # CTCCCCC GGGGGAG 2172 4668 8.6e-026 3.9e-021 # CGCCACC GGTGGCG 596 1042 4.6e-020 2.1e-015 # CTCCACC GGTGGAG 1637 3699 4.9e-014 2.2e-009 # CGCCGCC GGCGGCG 220 317 6.0e-014 2.8e-009 # CACCGCC GGCGGTG 412 771 2.6e-011 1.2e-006 # CTCCGCC GGCGGAG 439 889 1.3e-008 6.0e-004 # CACCACC GGTGGTG 1279 3129 9.1e-006 4.2e-001 letter-probability matrix: alength= 4 w= 7 nsites= 15320 E= 6.3e-174 0.000000 1.000000 0.000000 0.000000 0.337402 0.000000 0.151828 0.510770 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.206332 0.313903 0.061423 0.418342 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF RTGASTMA DREME-3 # Word RC Word Pos Neg P-value E-value # BEST RTGASTMA TKASTCAY 6994 13702 6.3e-142 2.8e-137 # ATGACTCA TGAGTCAT 2071 3945 8.4e-047 3.8e-042 # GTGAGTCA TGACTCAC 1599 2896 7.4e-045 3.3e-040 # GTGACTCA TGAGTCAC 1867 3534 1.7e-043 7.8e-039 # ATGAGTCA TGACTCAT 2026 3907 2.5e-043 1.1e-038 # ATGACTAA TTAGTCAT 662 1352 1.1e-011 5.0e-007 # GTGACTAA TTAGTCAC 489 979 6.5e-010 2.9e-005 # ATGAGTAA TTACTCAT 490 1029 6.5e-008 2.9e-003 # GTGAGTAA TTACTCAC 287 643 7.4e-004 3.3e+001 letter-probability matrix: alength= 4 w= 8 nsites= 7371 E= 2.8e-137 0.564781 0.000000 0.435219 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 0.552300 0.447700 0.000000 0.000000 0.000000 0.000000 1.000000 0.263329 0.736671 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CGC DREME-4 # Word RC Word Pos Neg P-value E-value # BEST CGC GCG 25402 63839 1.2e-080 5.4e-076 # CGC GCG 25402 63839 1.2e-080 5.4e-076 letter-probability matrix: alength= 4 w= 3 nsites= 37290 E= 5.4e-076 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 TTATRYAA DREME-5 # Word RC Word Pos Neg P-value E-value # BEST TTATRYAA TTRYATAA 2723 5441 9.1e-049 3.5e-044 # TTATGTAA TTACATAA 1218 2224 2.0e-033 7.7e-029 # TTATGCAA TTGCATAA 733 1507 2.4e-012 9.2e-008 # TTATATAA TTATATAA 485 1002 1.7e-008 6.3e-004 # TTATACAA TTGTATAA 344 787 7.3e-004 2.8e+001 letter-probability matrix: alength= 4 w= 8 nsites= 2816 E= 3.5e-044 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 0.295099 0.000000 0.704901 0.000000 0.000000 0.387429 0.000000 0.612571 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF ACTAGRKG DREME-6 # Word RC Word Pos Neg P-value E-value # BEST ACTAGRKG CMYCTAGT 1334 2299 3.8e-045 1.4e-040 # ACTAGATG CATCTAGT 488 778 3.2e-022 1.2e-017 # ACTAGAGG CCTCTAGT 455 800 2.1e-015 7.8e-011 # ACTAGGTG CACCTAGT 242 423 4.0e-009 1.5e-004 # ACTAGGGG CCCCTAGT 160 306 5.7e-005 2.1e+000 letter-probability matrix: alength= 4 w= 8 nsites= 1352 E= 1.4e-040 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 0.702663 0.000000 0.297337 0.000000 0.000000 0.000000 0.459320 0.540680 0.000000 0.000000 1.000000 0.000000 MOTIF GTTRCYA DREME-7 # Word RC Word Pos Neg P-value E-value # BEST GTTRCYA TRGYAAC 4368 9717 3.8e-040 1.4e-035 # GTTGCTA TAGCAAC 1494 3000 1.4e-026 5.1e-022 # GTTGCCA TGGCAAC 1586 3661 1.5e-011 5.5e-007 # GTTACCA TGGTAAC 849 1923 6.8e-008 2.6e-003 # GTTACTA TAGTAAC 594 1417 3.5e-004 1.3e+001 letter-probability matrix: alength= 4 w= 7 nsites= 4629 E= 1.4e-035 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.315403 0.000000 0.684597 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.538777 0.000000 0.461223 1.000000 0.000000 0.000000 0.000000 MOTIF CHCCCTC DREME-8 # Word RC Word Pos Neg P-value E-value # BEST CHCCCTC GAGGGDG 4493 10326 1.0e-031 3.9e-027 # CTCCCTC GAGGGAG 2725 6252 7.6e-020 2.9e-015 # CACCCTC GAGGGTG 1251 2879 1.1e-009 4.3e-005 # CCCCCTC GAGGGGG 650 1499 1.1e-005 4.2e-001 letter-probability matrix: alength= 4 w= 7 nsites= 4999 E= 3.9e-027 0.000000 1.000000 0.000000 0.000000 0.253651 0.127626 0.000000 0.618724 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 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 MOTIF CTGCCMYC DREME-9 # Word RC Word Pos Neg P-value E-value # BEST CTGCCMYC GRKGGCAG 2398 5218 3.9e-026 1.5e-021 # CTGCCACC GGTGGCAG 731 1470 1.0e-013 3.8e-009 # CTGCCCCC GGGGGCAG 500 974 2.2e-011 8.4e-007 # CTGCCATC GATGGCAG 680 1609 7.1e-005 2.7e+000 # CTGCCCTC GAGGGCAG 510 1211 6.4e-004 2.4e+001 letter-probability matrix: alength= 4 w= 8 nsites= 2438 E= 1.5e-021 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 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.580804 0.419196 0.000000 0.000000 0.000000 0.507793 0.000000 0.492207 0.000000 1.000000 0.000000 0.000000 MOTIF GGAGGM DREME-10 # Word RC Word Pos Neg P-value E-value # BEST GGAGGM KCCTCC 8360 20909 5.3e-023 2.0e-018 # GGAGGA TCCTCC 4236 10509 2.7e-013 1.0e-008 # GGAGGC GCCTCC 4370 11004 3.7e-011 1.4e-006 letter-probability matrix: alength= 4 w= 6 nsites= 8950 E= 2.0e-018 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 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.492737 0.507263 0.000000 0.000000 MOTIF CCACHC DREME-11 # Word RC Word Pos Neg P-value E-value # BEST CCACHC GDGTGG 8477 21667 1.8e-016 6.8e-012 # CCACAC GTGTGG 4256 10676 1.7e-011 6.3e-007 # CCACCC GGGTGG 1741 4367 1.6e-005 5.9e-001 # CCACTC GAGTGG 2813 7448 1.7e-003 6.5e+001 letter-probability matrix: alength= 4 w= 6 nsites= 9048 E= 6.8e-012 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 0.490164 0.194408 0.000000 0.315429 0.000000 1.000000 0.000000 0.000000 MOTIF AGCTY DREME-12 # Word RC Word Pos Neg P-value E-value # BEST AGCTY RAGCT 28574 77256 1.2e-015 4.5e-011 # AGCTC GAGCT 17511 46934 1.4e-011 5.2e-007 # AGCTT AAGCT 18111 49100 5.2e-008 1.9e-003 letter-probability matrix: alength= 4 w= 5 nsites= 36357 E= 4.5e-011 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 0.000000 1.000000 0.000000 0.491322 0.000000 0.508678 MOTIF ACAST DREME-13 # Word RC Word Pos Neg P-value E-value # BEST ACAST ASTGT 29418 79946 4.0e-013 1.5e-008 # ACAGT ACTGT 17770 48025 7.7e-009 2.8e-004 # ACACT AGTGT 16699 45143 3.4e-008 1.2e-003 letter-probability matrix: alength= 4 w= 5 nsites= 37483 E= 1.5e-008 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 0.482245 0.517755 0.000000 0.000000 0.000000 0.000000 1.000000 MOTIF TGABTCA DREME-14 # Word RC Word Pos Neg P-value E-value # BEST TGABTCA TGAVTCA 2718 6579 6.3e-012 2.3e-007 # TGACTCA TGAGTCA 790 1680 5.4e-011 1.9e-006 # TGATTCA TGAATCA 1953 4947 2.5e-005 8.9e-001 letter-probability matrix: alength= 4 w= 7 nsites= 2794 E= 2.3e-007 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 0.143522 0.141016 0.715462 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 RCAGCA DREME-15 # Word RC Word Pos Neg P-value E-value # BEST RCAGCA TGCTGY 14004 37354 1.4e-010 5.2e-006 # ACAGCA TGCTGT 8183 21841 2.7e-006 9.7e-002 # GCAGCA TGCTGC 6823 18159 7.9e-006 2.8e-001 letter-probability matrix: alength= 4 w= 6 nsites= 15771 E= 5.2e-006 0.545241 0.000000 0.454759 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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CTAAAA DREME-16 # Word RC Word Pos Neg P-value E-value # BEST CTAAAA TTTTAG 5084 13067 3.0e-009 1.1e-004 # CTAAAA TTTTAG 5084 13067 3.0e-009 1.1e-004 letter-probability matrix: alength= 4 w= 6 nsites= 5331 E= 1.1e-004 0.000000 1.000000 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 MOTIF TATTTTWA DREME-17 # Word RC Word Pos Neg P-value E-value # BEST TATTTTWA TWAAAATA 2242 5505 1.2e-008 4.4e-004 # TATTTTTA TAAAAATA 1254 3087 2.4e-005 8.7e-001 # TATTTTAA TTAAAATA 1009 2482 1.3e-004 4.6e+000 letter-probability matrix: alength= 4 w= 8 nsites= 2287 E= 4.4e-004 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 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.445562 0.000000 0.000000 0.554438 1.000000 0.000000 0.000000 0.000000 MOTIF AGBAAC DREME-18 # Word RC Word Pos Neg P-value E-value # BEST AGBAAC GTTVCT 7788 20564 7.1e-008 2.5e-003 # AGCAAC GTTGCT 2432 6245 3.4e-005 1.2e+000 # AGTAAC GTTACT 1496 3887 3.3e-003 1.2e+002 # AGGAAC GTTCCT 4096 11024 3.9e-003 1.4e+002 letter-probability matrix: alength= 4 w= 6 nsites= 8206 E= 2.5e-003 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.302340 0.512430 0.185230 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 CGKC DREME-19 # Word RC Word Pos Neg P-value E-value # BEST CGKC GMCG 10821 29050 8.2e-007 2.9e-002 # CGTC GACG 5810 15510 8.8e-005 3.1e+000 # CGGC GCCG 6040 16154 1.1e-004 3.8e+000 letter-probability matrix: alength= 4 w= 4 nsites= 12291 E= 2.9e-002 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.514523 0.485477 0.000000 1.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 15687.44 seconds