******************************************************************************** STREME - Sensitive, Thorough, Rapid, Enriched Motif Elicitation ******************************************************************************** MEME version 5.4.1 (Release date: Sat Aug 21 19:23:23 2021 -0700) For further information on how to interpret these results please access https://meme-suite.org/meme. To get a copy of the MEME Suite software please access https://meme-suite.org. ******************************************************************************** ******************************************************************************** REFERENCE ******************************************************************************** If you use this program in your research, please cite: Timothy L. Bailey, "STREME: accurate and versatile sequence motif discovery", Bioinformatics, Mar. 24, 2021. ******************************************************************************** ALPHABET= ACGT strands: + - Background letter frequencies A 0.195 C 0.305 G 0.305 T 0.195 MOTIF 1-GGGAGGCYGAGGCRG STREME-1 letter-probability matrix: alength= 4 w= 15 nsites= 693 E= 1.2e-018 0.187521 0.022640 0.761721 0.028119 0.017778 0.001683 0.977270 0.003269 0.041959 0.000071 0.946641 0.011329 0.993365 0.000071 0.003295 0.003269 0.038733 0.003295 0.956315 0.001657 0.011329 0.008131 0.978883 0.001657 0.000045 0.930788 0.008131 0.061035 0.066838 0.295854 0.059732 0.577577 0.152297 0.009743 0.834691 0.003269 0.979376 0.003295 0.017284 0.000045 0.053913 0.004907 0.936299 0.004881 0.050022 0.013636 0.925014 0.011329 0.016165 0.687526 0.011355 0.284955 0.532299 0.001683 0.348522 0.117496 0.043570 0.019415 0.927298 0.009717 MOTIF 2-CTGTAATCCCAGCWM STREME-2 letter-probability matrix: alength= 4 w= 15 nsites= 604 E= 7.9e-017 0.007761 0.951636 0.009718 0.030885 0.005835 0.009718 0.003938 0.980509 0.080995 0.005865 0.905379 0.007761 0.005834 0.017425 0.005865 0.970876 0.974728 0.002011 0.019353 0.003908 0.764440 0.013571 0.216155 0.005834 0.005834 0.007791 0.003938 0.982436 0.005834 0.930439 0.013572 0.050155 0.017394 0.940076 0.005865 0.036665 0.003908 0.940070 0.002011 0.054011 0.976656 0.000085 0.017425 0.005834 0.036665 0.017425 0.938149 0.007761 0.009688 0.951640 0.007791 0.030881 0.424908 0.025132 0.013571 0.536389 0.501708 0.426863 0.036693 0.034736 MOTIF 3-CAGCCTGGSCAACA STREME-3 letter-probability matrix: alength= 4 w= 14 nsites= 524 E= 1.7e-012 0.008843 0.922934 0.002292 0.065932 0.999745 0.000096 0.000096 0.000062 0.028600 0.008877 0.876806 0.085716 0.011038 0.957158 0.005398 0.026406 0.000062 0.986608 0.000096 0.013233 0.006648 0.004487 0.000096 0.988769 0.048360 0.002292 0.938311 0.011038 0.101994 0.002292 0.893457 0.002257 0.028602 0.390108 0.563664 0.017626 0.013235 0.775684 0.002292 0.208790 0.724225 0.018572 0.246165 0.011038 0.979988 0.004487 0.015463 0.000062 0.004452 0.951481 0.008878 0.035189 0.979987 0.000096 0.019854 0.000062 MOTIF 4-CAGGAGTTYGAGA STREME-4 letter-probability matrix: alength= 4 w= 13 nsites= 306 E= 6.2e-010 0.018921 0.920597 0.007692 0.052790 0.950642 0.003928 0.041561 0.003869 0.037736 0.007691 0.946941 0.007632 0.069407 0.003928 0.915270 0.011395 0.913012 0.026506 0.045324 0.015158 0.061879 0.000165 0.930324 0.007632 0.064078 0.011455 0.011454 0.913013 0.000106 0.015217 0.003928 0.980749 0.026448 0.613946 0.045325 0.314281 0.327736 0.007692 0.656940 0.007632 0.984511 0.003928 0.003928 0.007632 0.011395 0.000165 0.969518 0.018922 0.928067 0.000165 0.052847 0.018921 MOTIF 5-KTAGAGAYRGGGTYT STREME-5 letter-probability matrix: alength= 4 w= 15 nsites= 474 E= 2.4e-009 0.053137 0.004716 0.611997 0.330150 0.009295 0.041636 0.004716 0.944352 0.676570 0.000101 0.023177 0.300152 0.034677 0.018562 0.946696 0.000065 0.985887 0.002409 0.011639 0.000065 0.036985 0.018561 0.935159 0.009295 0.967427 0.009331 0.020869 0.002373 0.006987 0.618872 0.009332 0.364809 0.362483 0.007024 0.618890 0.011602 0.092368 0.004716 0.884390 0.018525 0.288597 0.007024 0.697391 0.006987 0.055445 0.013946 0.907469 0.023140 0.000065 0.009331 0.013947 0.976657 0.006987 0.371715 0.002409 0.618889 0.000065 0.013947 0.004716 0.981272 MOTIF 6-AAAATTAGCCRGGCR STREME-6 letter-probability matrix: alength= 4 w= 15 nsites= 306 E= 1.8e-007 0.960705 0.007940 0.023477 0.007878 0.968474 0.007940 0.015708 0.007878 0.968474 0.019593 0.004055 0.007878 0.933514 0.011824 0.042900 0.011763 0.007878 0.019593 0.015708 0.956821 0.003994 0.004055 0.007940 0.984011 0.976243 0.004055 0.015708 0.003994 0.003994 0.011824 0.972419 0.011763 0.003994 0.945228 0.000171 0.050607 0.011763 0.661540 0.023477 0.303220 0.331200 0.011824 0.625791 0.031185 0.023416 0.004055 0.964650 0.007878 0.027301 0.007940 0.949112 0.015647 0.027301 0.716006 0.019594 0.237100 0.377141 0.011824 0.583735 0.027301 MOTIF 7-TCAAGYGATY STREME-7 letter-probability matrix: alength= 4 w= 10 nsites= 478 E= 6.2e-007 0.000066 0.000493 0.004774 0.994667 0.004737 0.979193 0.001772 0.014298 0.996424 0.000103 0.003408 0.000066 0.712656 0.022387 0.257883 0.007073 0.011963 0.010415 0.963542 0.014080 0.107023 0.356884 0.022713 0.513381 0.196431 0.015380 0.781220 0.006969 0.990385 0.000103 0.009446 0.000066 0.003371 0.000553 0.000103 0.995974 0.008043 0.568490 0.000103 0.423365 MOTIF 8-AGTGAGCCGAGAT STREME-8 letter-probability matrix: alength= 4 w= 13 nsites= 277 E= 1.5e-006 0.912875 0.009315 0.064010 0.013800 0.013800 0.018429 0.963085 0.004686 0.000128 0.029436 0.004757 0.965678 0.013800 0.009315 0.976757 0.000128 0.985799 0.000200 0.013872 0.000128 0.032031 0.018429 0.935740 0.013800 0.004686 0.963084 0.000200 0.032030 0.027475 0.680247 0.027544 0.264734 0.296649 0.016962 0.686260 0.000128 0.944782 0.000200 0.013872 0.041146 0.032030 0.009315 0.953970 0.004686 0.963012 0.013872 0.018430 0.004686 0.004686 0.027545 0.009315 0.958455 MOTIF 9-GCRTGAGCCAC STREME-9 letter-probability matrix: alength= 4 w= 11 nsites= 363 E= 5.8e-005 0.032747 0.000133 0.915764 0.051357 0.000085 0.701382 0.000133 0.298401 0.413688 0.000133 0.586094 0.000085 0.014193 0.001384 0.000133 0.984291 0.048339 0.003148 0.945413 0.003100 0.717084 0.142807 0.000133 0.139977 0.140876 0.000133 0.819696 0.039295 0.000085 0.971976 0.000133 0.027807 0.000085 0.983369 0.000133 0.016414 0.999650 0.000133 0.000133 0.000085 0.000085 0.972557 0.000133 0.027226 MOTIF 10-GCCGCCGCCGCCGCC STREME-10 letter-probability matrix: alength= 4 w= 15 nsites= 336 E= 9.0e-005 0.045648 0.027969 0.926277 0.000106 0.000106 0.999623 0.000165 0.000106 0.082850 0.766719 0.026469 0.123962 0.007622 0.033984 0.928867 0.029527 0.003863 0.934185 0.000165 0.061787 0.054588 0.840674 0.033039 0.071698 0.026409 0.000165 0.973320 0.000106 0.000106 0.977078 0.000165 0.022651 0.033924 0.940308 0.000165 0.025603 0.015137 0.003922 0.973319 0.007622 0.003863 0.930430 0.000165 0.065542 0.000106 0.953102 0.015196 0.031595 0.157945 0.047027 0.738110 0.056919 0.000106 0.952922 0.009290 0.037682 0.030613 0.722196 0.093966 0.153225 MOTIF 11-GAGTGCAGTGGCRC STREME-11 letter-probability matrix: alength= 4 w= 14 nsites= 239 E= 2.8e-004 0.018629 0.032576 0.920917 0.027878 0.962466 0.000203 0.027951 0.009380 0.055628 0.004828 0.925540 0.014005 0.000130 0.004828 0.009452 0.985589 0.051004 0.004828 0.944038 0.000130 0.000130 0.971788 0.004828 0.023253 0.967089 0.004828 0.027952 0.000130 0.166631 0.000203 0.833036 0.000130 0.004755 0.032577 0.000203 0.962465 0.032503 0.000203 0.962539 0.004755 0.004755 0.000203 0.994911 0.000130 0.014004 0.703491 0.000203 0.282301 0.448929 0.004828 0.513740 0.032503 0.023254 0.722029 0.009452 0.245265 MOTIF 12-GTATTTTTA STREME-12 letter-probability matrix: alength= 4 w= 9 nsites= 197 E= 3.8e-003 0.017764 0.027691 0.936782 0.017764 0.017764 0.027691 0.027691 0.926855 0.926855 0.027691 0.027691 0.017764 0.017764 0.027691 0.027691 0.926855 0.017764 0.027691 0.027691 0.926855 0.017764 0.027691 0.027691 0.926855 0.017764 0.027691 0.027691 0.926855 0.017764 0.027691 0.027691 0.926855 0.926855 0.027691 0.027691 0.017764 MOTIF 13-GCRCCCRCCACCA STREME-13 letter-probability matrix: alength= 4 w= 13 nsites= 140 E= 3.8e-003 0.000223 0.024129 0.959571 0.016077 0.000223 0.690040 0.008275 0.301462 0.404514 0.008275 0.571134 0.016077 0.000223 0.975424 0.000348 0.024004 0.190475 0.626636 0.135105 0.047784 0.000223 0.753452 0.000348 0.245977 0.404501 0.000348 0.587001 0.008150 0.000223 0.983351 0.000348 0.016077 0.008150 0.935791 0.008275 0.047784 0.999080 0.000348 0.000348 0.000223 0.016077 0.880302 0.008275 0.095346 0.016077 0.943717 0.016202 0.024004 0.991153 0.000348 0.008275 0.000223 MOTIF 14-AGGAAG STREME-14 letter-probability matrix: alength= 4 w= 6 nsites= 948 E= 1.4e-001 0.926855 0.027691 0.027691 0.017764 0.017764 0.027691 0.936782 0.017764 0.017764 0.027691 0.936782 0.017764 0.926855 0.027691 0.027691 0.017764 0.926855 0.027691 0.027691 0.017764 0.017764 0.027691 0.936782 0.017764 MOTIF 15-AAGATGGCGGCG STREME-15 letter-probability matrix: alength= 4 w= 12 nsites= 162 E= 1.5e-001 0.893999 0.052415 0.041606 0.011980 0.761598 0.099670 0.061777 0.076954 0.067591 0.126755 0.799580 0.006073 0.823115 0.047514 0.079500 0.049871 0.017887 0.034695 0.028789 0.918629 0.006073 0.035699 0.958061 0.000167 0.041513 0.023886 0.898995 0.035606 0.070043 0.826667 0.012073 0.091218 0.029700 0.047513 0.878823 0.043964 0.071046 0.032244 0.766596 0.130114 0.059233 0.807943 0.049964 0.082860 0.041513 0.221266 0.604649 0.132572 MOTIF 16-CCCCTTCCC STREME-16 letter-probability matrix: alength= 4 w= 9 nsites= 853 E= 2.5e-001 0.025482 0.710121 0.000512 0.263885 0.078659 0.847644 0.000512 0.073186 0.000329 0.916914 0.028032 0.054725 0.000329 0.962860 0.036483 0.000329 0.035220 0.000512 0.000512 0.963756 0.091780 0.188777 0.000512 0.718931 0.010687 0.988472 0.000512 0.000329 0.000329 0.998831 0.000512 0.000329 0.000329 0.953565 0.000512 0.045595 MOTIF 17-CTCSGCSTCC STREME-17 letter-probability matrix: alength= 4 w= 10 nsites= 1129 E= 3.1e-001 0.036885 0.914533 0.040155 0.008426 0.000047 0.039597 0.264227 0.696128 0.083358 0.723145 0.000074 0.193423 0.086708 0.407492 0.331449 0.174351 0.102792 0.000074 0.701246 0.195888 0.138963 0.714257 0.028624 0.118155 0.069291 0.520876 0.328667 0.081166 0.000047 0.000074 0.000074 0.999805 0.012975 0.986904 0.000074 0.000047 0.000047 0.730678 0.269227 0.000047 MOTIF 18-CAGCCCCGGG STREME-18 letter-probability matrix: alength= 4 w= 10 nsites= 340 E= 3.6e-001 0.000409 0.943762 0.051508 0.004321 0.875590 0.000580 0.123459 0.000372 0.008385 0.003548 0.985905 0.002162 0.009688 0.895960 0.057173 0.037180 0.013559 0.893280 0.055784 0.037376 0.033883 0.873457 0.070276 0.022383 0.000372 0.889377 0.044898 0.065354 0.021366 0.023679 0.946715 0.008240 0.018033 0.074647 0.893760 0.013559 0.046347 0.056198 0.863572 0.033883 MOTIF 19-AAATGC STREME-19 letter-probability matrix: alength= 4 w= 6 nsites= 380 E= 4.0e-001 0.926855 0.027691 0.027691 0.017764 0.926855 0.027691 0.027691 0.017764 0.926855 0.027691 0.027691 0.017764 0.017764 0.027691 0.027691 0.926855 0.017764 0.027691 0.936782 0.017764 0.017764 0.936782 0.027691 0.017764 MOTIF 20-CWCGTGAYCSG STREME-20 letter-probability matrix: alength= 4 w= 11 nsites= 53 E= 5.6e-001 0.027733 0.914692 0.057255 0.000320 0.603266 0.000499 0.079960 0.316275 0.000320 0.998861 0.000499 0.000320 0.000320 0.000499 0.998861 0.000320 0.000320 0.000499 0.000499 0.998682 0.011671 0.023201 0.964808 0.000320 0.816004 0.160474 0.000499 0.023023 0.045725 0.558041 0.000499 0.395735 0.027733 0.710109 0.093497 0.168661 0.000320 0.561724 0.324114 0.113841 0.175303 0.102669 0.614836 0.107193 MOTIF 21-GGGAYTACA STREME-21 letter-probability matrix: alength= 4 w= 9 nsites= 46 E= 9.0e-001 0.000816 0.001272 0.997095 0.000816 0.000816 0.088138 0.910229 0.000816 0.000816 0.001272 0.904644 0.093268 0.996639 0.001272 0.001272 0.000816 0.000816 0.511216 0.001272 0.486696 0.000816 0.001272 0.001272 0.996639 0.996639 0.001272 0.001272 0.000816 0.000816 0.997095 0.001272 0.000816 0.955670 0.001272 0.042241 0.000816 MOTIF 22-AAAAAAAAAGAAA STREME-22 letter-probability matrix: alength= 4 w= 13 nsites= 167 E= 9.0e-001 0.960482 0.008300 0.017318 0.013899 0.922910 0.017317 0.053923 0.005849 0.908883 0.031059 0.029955 0.030103 0.807180 0.028621 0.068280 0.095919 0.830631 0.035397 0.042778 0.091193 0.887745 0.048125 0.026797 0.037333 0.880833 0.031056 0.057144 0.030967 0.909341 0.013989 0.040604 0.036066 0.919692 0.023006 0.034385 0.022917 0.064534 0.132110 0.703027 0.100329 0.905947 0.011628 0.062835 0.019590 0.933577 0.017317 0.009121 0.039984 0.899726 0.040076 0.045769 0.014430 MOTIF 23-CCCAGCCCCGCS STREME-23 letter-probability matrix: alength= 4 w= 12 nsites= 1305 E= 1.0e+000 0.001396 0.959936 0.002060 0.036608 0.010295 0.917578 0.068441 0.003686 0.036364 0.879348 0.079593 0.004696 0.692073 0.111883 0.188259 0.007785 0.120386 0.083607 0.740685 0.055321 0.000539 0.949960 0.006061 0.043440 0.068156 0.871903 0.027080 0.032861 0.035395 0.932531 0.013047 0.019027 0.095844 0.676177 0.124492 0.103487 0.140951 0.007965 0.698848 0.152236 0.078265 0.710478 0.140519 0.070737 0.108796 0.359208 0.364617 0.167379 MOTIF 24-CGGGGTCKCG STREME-24 letter-probability matrix: alength= 4 w= 10 nsites= 527 E= 1.3e+000 0.017571 0.717860 0.032976 0.231593 0.005309 0.031740 0.920196 0.042756 0.103118 0.003847 0.765556 0.127479 0.003199 0.015152 0.981562 0.000088 0.007199 0.000137 0.871321 0.121343 0.155976 0.000137 0.000137 0.843751 0.034981 0.886534 0.015598 0.062887 0.200666 0.111372 0.240900 0.447062 0.004951 0.783832 0.103367 0.107850 0.115763 0.080199 0.720811 0.083227 MOTIF 25-GGAAASTGAKK STREME-25 letter-probability matrix: alength= 4 w= 11 nsites= 108 E= 1.3e+000 0.074511 0.000508 0.866833 0.058148 0.000326 0.000508 0.998840 0.000326 0.936038 0.000508 0.000508 0.062946 0.998658 0.000508 0.000508 0.000326 0.970730 0.000508 0.028436 0.000326 0.000326 0.651644 0.347704 0.000326 0.133789 0.000508 0.000508 0.865195 0.058148 0.051565 0.889961 0.000326 0.820389 0.155648 0.000508 0.023455 0.069716 0.155649 0.429340 0.345295 0.056187 0.000508 0.510806 0.432499 MOTIF 26-CAACATGGT STREME-26 letter-probability matrix: alength= 4 w= 9 nsites= 125 E= 1.4e+000 0.021623 0.917183 0.029679 0.031516 0.877113 0.020516 0.073241 0.029129 0.945689 0.041165 0.007356 0.005790 0.007597 0.854630 0.102292 0.035480 0.849314 0.021852 0.119602 0.009232 0.043650 0.000638 0.025005 0.930707 0.043971 0.126649 0.822944 0.006435 0.043973 0.012738 0.938530 0.004758 0.040341 0.052670 0.031745 0.875244 MOTIF 27-AGTAGCTGGGACT STREME-27 letter-probability matrix: alength= 4 w= 13 nsites= 43 E= 3.6e+000 0.887707 0.000965 0.066812 0.044517 0.000619 0.000965 0.997798 0.000619 0.022568 0.044864 0.000965 0.931603 0.975503 0.022914 0.000965 0.000619 0.000619 0.000965 0.997798 0.000619 0.000619 0.953900 0.022914 0.022568 0.000619 0.022914 0.000965 0.975503 0.132313 0.044863 0.756359 0.066466 0.132313 0.000965 0.734406 0.132316 0.066468 0.066812 0.844153 0.022568 0.856649 0.053972 0.044863 0.044517 0.031677 0.659443 0.044863 0.264017 0.132315 0.220458 0.000965 0.646263 MOTIF 28-CTCCTGCCTCAGC STREME-28 letter-probability matrix: alength= 4 w= 13 nsites= 45 E= 1.5e+001 0.000595 0.892380 0.043128 0.063898 0.021695 0.000927 0.000927 0.976450 0.000595 0.913478 0.043130 0.042797 0.063896 0.871279 0.064230 0.000595 0.021695 0.022028 0.030784 0.925493 0.000595 0.043130 0.934580 0.021695 0.021695 0.913482 0.022028 0.042796 0.042796 0.850181 0.064228 0.042796 0.021695 0.009684 0.022028 0.946593 0.042796 0.871281 0.000927 0.084996 0.955350 0.000927 0.000927 0.042796 0.084996 0.106431 0.744677 0.063896 0.042796 0.871281 0.022028 0.063896 MOTIF 29-CTGTCTCAAAAAA STREME-29 letter-probability matrix: alength= 4 w= 13 nsites= 35 E= 1.5e+001 0.035274 0.927944 0.001508 0.035274 0.035274 0.138752 0.001508 0.824466 0.000967 0.035815 0.962251 0.000967 0.000967 0.070125 0.001508 0.927401 0.000967 0.962251 0.035815 0.000967 0.000967 0.035815 0.001508 0.961711 0.000967 0.996558 0.001508 0.000967 0.927403 0.035815 0.035815 0.000967 0.893094 0.070125 0.035815 0.000967 0.996018 0.001508 0.001508 0.000967 0.996018 0.001508 0.001508 0.000967 0.996018 0.001508 0.001508 0.000967 0.927403 0.035815 0.001508 0.035274 ******************************************************************************** Stopped because 3 consecutive motifs exceeded the p-value threshold (0.05). ******************************************************************************** COMMAND: streme --verbosity 1 --oc /scratch/jngalang/MotifAnalysis/NewMemeChip/GRCh38-107_AZ_exp1_d1_LPS_TRIM1_5_peaks/streme_out -dna --p /scratch/jngalang/MotifAnalysis/NewMemeChip/GRCh38-107_AZ_exp1_d1_LPS_TRIM1_5_peaks/seqs-centered --minw 6 --maxw 15 --order 2 ******************************************************************************** CPU: cn45 ******************************************************************************** FINALTIME: 467.67 seconds ********************************************************************************