******************************************************************************** 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-GCCTGTAATCCCAGCWMYT STREME-1 letter-probability matrix: alength= 4 w= 19 nsites= 618 E= 2.2e-018 0.262317 0.015977 0.705761 0.015946 0.006015 0.964049 0.008032 0.021905 0.006015 0.958088 0.004060 0.031837 0.002042 0.010018 0.004060 0.983880 0.083483 0.004060 0.906443 0.006015 0.002042 0.012004 0.002073 0.983880 0.966004 0.004060 0.023922 0.006015 0.755345 0.006046 0.232595 0.006015 0.004028 0.012004 0.004060 0.979908 0.009987 0.924322 0.013991 0.051701 0.021904 0.920351 0.008032 0.049713 0.006015 0.932264 0.004060 0.057661 0.962032 0.000087 0.023922 0.013959 0.037796 0.015977 0.936241 0.009987 0.011973 0.942201 0.008032 0.037794 0.429452 0.031866 0.015977 0.522704 0.502842 0.437427 0.031867 0.027864 0.015946 0.506846 0.013990 0.463218 0.011973 0.033856 0.002073 0.952098 MOTIF 2-GAGGCTGAGGCRGGAGRAT STREME-2 letter-probability matrix: alength= 4 w= 19 nsites= 604 E= 4.9e-015 0.042001 0.003897 0.936889 0.017213 0.986432 0.000084 0.005804 0.007680 0.032467 0.000084 0.963582 0.003867 0.022933 0.005804 0.967396 0.003867 0.007680 0.946423 0.007710 0.038187 0.013400 0.303260 0.011524 0.671816 0.162125 0.007710 0.824391 0.005774 0.980712 0.001990 0.013430 0.003867 0.068694 0.013431 0.912102 0.005774 0.062977 0.003897 0.921632 0.011494 0.017213 0.729055 0.022964 0.230768 0.605081 0.007710 0.379528 0.007680 0.045814 0.021058 0.915915 0.017214 0.074415 0.007710 0.902568 0.015307 0.597449 0.204106 0.011524 0.186922 0.148778 0.011524 0.812951 0.026747 0.441097 0.001990 0.551139 0.005774 0.965459 0.015337 0.013430 0.005774 0.017213 0.040124 0.005804 0.936859 MOTIF 3-CCAGCCTGGSCAACAKRG STREME-3 letter-probability matrix: alength= 4 w= 18 nsites= 522 E= 6.3e-015 0.018994 0.938778 0.014819 0.027409 0.008474 0.911426 0.002196 0.077903 0.995548 0.000092 0.004300 0.000059 0.035824 0.010611 0.867239 0.086326 0.018993 0.951402 0.002196 0.027409 0.000059 0.980855 0.002196 0.016890 0.006371 0.014819 0.000092 0.978718 0.058966 0.008508 0.917740 0.014786 0.113680 0.004300 0.877753 0.004267 0.031617 0.379039 0.568246 0.021098 0.023203 0.740966 0.012715 0.223116 0.694622 0.021131 0.269462 0.014786 0.972406 0.004300 0.021131 0.002163 0.012682 0.932467 0.008508 0.046343 0.968198 0.000092 0.027443 0.004267 0.101052 0.080047 0.334691 0.484210 0.448272 0.010611 0.522123 0.018993 0.113675 0.010612 0.860927 0.014786 MOTIF 4-WTTTTTWKTAGAGAYRGRGT STREME-4 letter-probability matrix: alength= 4 w= 20 nsites= 484 E= 1.4e-012 0.523387 0.022844 0.041039 0.412730 0.045552 0.025118 0.031941 0.897388 0.036455 0.011472 0.018295 0.933779 0.034180 0.022844 0.022844 0.920132 0.020534 0.002374 0.013746 0.963346 0.013711 0.025119 0.013746 0.947424 0.471075 0.011472 0.043314 0.474140 0.038729 0.013746 0.589380 0.358145 0.009162 0.038765 0.006923 0.945151 0.646204 0.006923 0.031941 0.314931 0.027357 0.027393 0.945186 0.000064 0.981541 0.004649 0.013746 0.000064 0.031906 0.013746 0.940638 0.013710 0.940601 0.011472 0.031942 0.015985 0.011436 0.623458 0.016965 0.348141 0.379939 0.011472 0.588055 0.020534 0.100139 0.018295 0.854210 0.027357 0.326303 0.004649 0.650789 0.018259 0.063747 0.002374 0.908796 0.025082 0.009162 0.020569 0.029667 0.940602 MOTIF 5-AAATTAGCYRGGCRTGGTGG STREME-5 letter-probability matrix: alength= 4 w= 20 nsites= 484 E= 2.8e-012 0.781017 0.061340 0.089775 0.067868 0.763519 0.046029 0.065715 0.124737 0.693526 0.096337 0.096337 0.113801 0.113801 0.083213 0.096337 0.706649 0.155359 0.050404 0.076651 0.717586 0.669465 0.004471 0.310691 0.015373 0.019747 0.008845 0.949473 0.021935 0.015373 0.923225 0.013220 0.048182 0.017560 0.612602 0.013220 0.356618 0.332579 0.006658 0.625705 0.035058 0.037246 0.004471 0.940724 0.017560 0.043808 0.011033 0.936349 0.008811 0.024122 0.678237 0.017595 0.280047 0.391648 0.011033 0.568822 0.028497 0.019747 0.249448 0.015407 0.715397 0.120363 0.015407 0.846670 0.017560 0.041621 0.006658 0.938535 0.013186 0.000062 0.028531 0.000096 0.971311 0.054744 0.002283 0.940724 0.002249 0.030684 0.019782 0.936349 0.013185 MOTIF 6-CTTGARSCCAGGAG STREME-6 letter-probability matrix: alength= 4 w= 14 nsites= 507 E= 4.6e-009 0.000061 0.943533 0.008749 0.047658 0.043342 0.191472 0.045529 0.719657 0.002224 0.004422 0.000095 0.993259 0.010878 0.002258 0.982476 0.004388 0.995422 0.002258 0.002258 0.000061 0.491486 0.002258 0.497541 0.008714 0.028186 0.604092 0.322230 0.045493 0.004388 0.664310 0.002258 0.329044 0.015205 0.750907 0.004422 0.229466 0.664269 0.000095 0.326921 0.008715 0.056311 0.000095 0.930553 0.013041 0.042064 0.008749 0.938310 0.010878 0.962972 0.006585 0.017402 0.013041 0.055044 0.002258 0.938310 0.004388 MOTIF 7-GAGGTTGCAGTGAGCY STREME-7 letter-probability matrix: alength= 4 w= 16 nsites= 287 E= 2.8e-006 0.068732 0.000168 0.919556 0.011544 0.969059 0.003980 0.019229 0.007732 0.049670 0.000168 0.946243 0.003920 0.034419 0.106951 0.828024 0.030606 0.007732 0.198429 0.015417 0.778422 0.000107 0.011605 0.019229 0.969059 0.030606 0.003980 0.957682 0.007732 0.015357 0.904305 0.007792 0.072546 0.908057 0.007792 0.076418 0.007732 0.038231 0.003980 0.946245 0.011544 0.003920 0.026854 0.015417 0.953809 0.042043 0.003980 0.953869 0.000107 0.972871 0.000168 0.026854 0.000107 0.034419 0.011605 0.946244 0.007732 0.003920 0.957681 0.003980 0.034419 0.022982 0.602989 0.023042 0.350987 MOTIF 8-GTGCAGTGGCRCGATCT STREME-8 letter-probability matrix: alength= 4 w= 17 nsites= 242 E= 3.9e-004 0.054384 0.009241 0.927205 0.009170 0.004649 0.022806 0.009241 0.963304 0.054383 0.009241 0.936248 0.000127 0.000127 0.972419 0.000199 0.027255 0.963304 0.004720 0.031848 0.000127 0.199070 0.000199 0.800603 0.000127 0.009170 0.031848 0.004720 0.954262 0.049862 0.004720 0.940770 0.004649 0.018213 0.000199 0.981461 0.000127 0.000127 0.705643 0.009241 0.284988 0.416132 0.018284 0.529287 0.036298 0.031777 0.714695 0.009241 0.244287 0.271421 0.045412 0.651391 0.031777 0.954262 0.000199 0.040891 0.004649 0.013691 0.040890 0.004720 0.940698 0.000127 0.949812 0.004720 0.045341 0.135767 0.018284 0.018284 0.827666 MOTIF 9-AGGTCAGGAGWTCRAG STREME-9 letter-probability matrix: alength= 4 w= 16 nsites= 126 E= 3.2e-003 0.956330 0.034519 0.008911 0.000241 0.102672 0.008911 0.871104 0.017312 0.042920 0.111343 0.777209 0.068528 0.008777 0.179629 0.025983 0.785611 0.017312 0.930856 0.008911 0.042920 0.956330 0.008911 0.034519 0.000241 0.094136 0.000375 0.905248 0.000241 0.102672 0.008911 0.862568 0.025848 0.862433 0.043055 0.077200 0.017312 0.068528 0.025983 0.879641 0.025848 0.410024 0.017447 0.000375 0.572154 0.000241 0.051591 0.008911 0.939258 0.051456 0.700386 0.051591 0.196567 0.375827 0.034519 0.589413 0.000241 0.964866 0.008911 0.025983 0.000241 0.000241 0.000375 0.965000 0.034384 MOTIF 10-CCGCCGCCGCCGCCGCCGC STREME-10 letter-probability matrix: alength= 4 w= 19 nsites= 292 E= 3.5e-003 0.014800 0.852666 0.084667 0.047867 0.029497 0.753462 0.055273 0.161769 0.018474 0.000161 0.981261 0.000104 0.007452 0.948194 0.000161 0.044192 0.110327 0.786534 0.062621 0.040518 0.022148 0.022206 0.918802 0.036844 0.000104 0.955542 0.014858 0.029496 0.011126 0.860016 0.014858 0.114001 0.062564 0.022206 0.907779 0.007452 0.000104 0.918802 0.000161 0.080933 0.029496 0.944520 0.018532 0.007452 0.036844 0.055273 0.837971 0.069911 0.000104 0.984935 0.003836 0.011126 0.029496 0.871038 0.018532 0.080933 0.147068 0.044251 0.797556 0.011126 0.000104 0.885735 0.022206 0.091955 0.000104 0.793880 0.073644 0.132372 0.058891 0.169169 0.646917 0.125023 0.044194 0.830622 0.073643 0.051541 MOTIF 11-RTGAGCCACYGCG STREME-11 letter-probability matrix: alength= 4 w= 13 nsites= 123 E= 2.6e-002 0.354127 0.018454 0.618135 0.009283 0.000255 0.018455 0.009426 0.971865 0.036370 0.036512 0.926864 0.000255 0.935749 0.000397 0.000397 0.063457 0.063456 0.000397 0.935892 0.000255 0.000255 0.953949 0.009426 0.036371 0.000255 0.990065 0.000397 0.009283 0.989923 0.000397 0.009426 0.000255 0.000255 0.962979 0.000397 0.036370 0.049146 0.397679 0.081657 0.471518 0.207922 0.000397 0.773368 0.018313 0.036371 0.672302 0.054570 0.236757 0.271129 0.027483 0.655989 0.045399 MOTIF 12-RGGAGGRGGVGGVGGRGG STREME-12 letter-probability matrix: alength= 4 w= 18 nsites= 2167 E= 4.4e-002 0.433419 0.142104 0.414800 0.009677 0.001721 0.064481 0.933782 0.000016 0.066177 0.000025 0.933782 0.000016 0.841942 0.004003 0.033556 0.120499 0.174489 0.173930 0.644177 0.007404 0.044012 0.142104 0.813868 0.000016 0.446490 0.219299 0.257472 0.076739 0.153461 0.142908 0.664400 0.039230 0.141527 0.073574 0.764992 0.019907 0.406140 0.246674 0.256807 0.090378 0.238945 0.104831 0.607333 0.048891 0.159145 0.095502 0.724309 0.021044 0.314877 0.218259 0.343524 0.123341 0.139254 0.224178 0.593361 0.043208 0.163927 0.148924 0.654739 0.032410 0.455015 0.163700 0.284655 0.096630 0.107996 0.149492 0.691347 0.051165 0.119931 0.131874 0.710670 0.037525 MOTIF 13-CAGCCCCGGG STREME-13 letter-probability matrix: alength= 4 w= 10 nsites= 316 E= 3.0e-001 0.000736 0.930235 0.064738 0.004290 0.871282 0.000575 0.127774 0.000369 0.013462 0.013668 0.970723 0.002146 0.013462 0.904415 0.040604 0.041519 0.013462 0.882166 0.061408 0.042964 0.033640 0.882210 0.051338 0.032811 0.000369 0.904218 0.030527 0.064885 0.021213 0.023115 0.945034 0.010638 0.013462 0.055384 0.917691 0.013462 0.048924 0.055795 0.861642 0.033640 MOTIF 14-AAGATGGCGGCG STREME-14 letter-probability matrix: alength= 4 w= 12 nsites= 179 E= 3.8e-001 0.866005 0.057660 0.052813 0.023523 0.808908 0.090273 0.048098 0.052721 0.078503 0.105371 0.792602 0.023524 0.816864 0.055237 0.061076 0.066823 0.029363 0.031878 0.069338 0.869422 0.023523 0.052812 0.911821 0.011844 0.046881 0.046973 0.865105 0.041041 0.049305 0.839323 0.041133 0.070239 0.046881 0.058652 0.839323 0.055144 0.081918 0.043557 0.763409 0.111116 0.070241 0.811423 0.053937 0.064400 0.046881 0.131153 0.699164 0.122803 MOTIF 15-CTGTAATCCC STREME-15 letter-probability matrix: alength= 4 w= 10 nsites= 45 E= 4.2e-001 0.000671 0.878540 0.024858 0.095931 0.000671 0.001046 0.001046 0.997236 0.095931 0.001046 0.902352 0.000671 0.000671 0.001046 0.001046 0.997236 0.997236 0.001046 0.001046 0.000671 0.759030 0.001046 0.239252 0.000671 0.000671 0.001046 0.001046 0.997236 0.024483 0.973799 0.001046 0.000671 0.010554 0.987729 0.001046 0.000671 0.010554 0.987729 0.001046 0.000671 MOTIF 16-CCAAGGTCACAGCC STREME-16 letter-probability matrix: alength= 4 w= 14 nsites= 57 E= 4.2e-001 0.024397 0.855252 0.095955 0.024397 0.024397 0.902708 0.048499 0.024397 0.973518 0.024771 0.001043 0.000669 0.878606 0.072227 0.001043 0.048125 0.024397 0.072227 0.878980 0.024397 0.048125 0.048499 0.902708 0.000669 0.071853 0.072227 0.095956 0.759964 0.024397 0.807796 0.048499 0.119309 0.854878 0.048499 0.072227 0.024397 0.024397 0.807794 0.143412 0.024397 0.665054 0.143411 0.143411 0.048125 0.095581 0.072227 0.760340 0.071853 0.071853 0.736612 0.119683 0.071853 0.095581 0.736612 0.119683 0.048125 MOTIF 17-AGGCTGGTCTCRAA STREME-17 letter-probability matrix: alength= 4 w= 14 nsites= 41 E= 4.2e-001 0.995724 0.001619 0.001619 0.001038 0.037874 0.001619 0.922633 0.037874 0.074710 0.075293 0.812122 0.037874 0.037874 0.959469 0.001619 0.001038 0.001038 0.001619 0.001619 0.995724 0.037874 0.001619 0.922633 0.037874 0.074710 0.001619 0.922633 0.001038 0.001038 0.001619 0.001619 0.995724 0.001038 0.922633 0.038455 0.037874 0.001038 0.001619 0.001619 0.995724 0.001038 0.701535 0.001619 0.295808 0.516773 0.038455 0.443734 0.001038 0.958888 0.038455 0.001619 0.001038 0.922052 0.038455 0.001619 0.037874 MOTIF 18-GCCTCAGYYTCCCC STREME-18 letter-probability matrix: alength= 4 w= 14 nsites= 83 E= 5.2e-001 0.000388 0.014386 0.984837 0.000388 0.019888 0.882655 0.028166 0.069291 0.000388 0.984837 0.000606 0.014169 0.000388 0.000606 0.000606 0.998400 0.000388 0.929716 0.000606 0.069290 0.901937 0.000606 0.097069 0.000388 0.000388 0.014386 0.971057 0.014169 0.014169 0.419775 0.000606 0.565450 0.000388 0.317594 0.055727 0.626291 0.014169 0.000606 0.097068 0.888158 0.000388 0.998617 0.000606 0.000388 0.014169 0.902154 0.000606 0.083072 0.014169 0.667865 0.000606 0.317360 0.220891 0.502485 0.221114 0.055510 MOTIF 19-CAACATGGTGAA STREME-19 letter-probability matrix: alength= 4 w= 12 nsites= 78 E= 5.2e-001 0.000397 0.885880 0.028796 0.084927 0.871569 0.042884 0.000619 0.084928 0.871569 0.028796 0.056973 0.042662 0.014485 0.843615 0.042884 0.099015 0.857480 0.056973 0.071061 0.014485 0.070839 0.042884 0.028796 0.857482 0.090774 0.000619 0.865945 0.042662 0.014485 0.042884 0.908210 0.034421 0.084928 0.056973 0.020554 0.837544 0.042662 0.014707 0.928145 0.014485 0.942011 0.028796 0.028796 0.000397 0.885658 0.000619 0.042884 0.070839 MOTIF 20-AAAAAAAAAAAAAAAAAGAA STREME-20 letter-probability matrix: alength= 4 w= 20 nsites= 115 E= 5.2e-001 0.863226 0.059781 0.034320 0.042673 0.854738 0.059781 0.051294 0.034187 0.956581 0.008860 0.017346 0.017213 0.914147 0.051293 0.034320 0.000239 0.897173 0.008860 0.034321 0.059647 0.718950 0.127676 0.119189 0.034186 0.931121 0.000373 0.068267 0.000239 0.846252 0.085241 0.059781 0.008726 0.939608 0.034320 0.025833 0.000239 0.799069 0.098476 0.085242 0.017213 0.931121 0.000373 0.042807 0.025700 0.841506 0.056041 0.059780 0.042673 0.837766 0.034320 0.102214 0.025700 0.545691 0.207579 0.221030 0.025700 0.948094 0.042807 0.008860 0.000239 0.973555 0.000373 0.017346 0.008726 0.956581 0.008860 0.000373 0.034186 0.187167 0.182118 0.520869 0.109846 0.776279 0.012382 0.080997 0.130341 0.783323 0.097250 0.034320 0.085107 MOTIF 21-CCCAGCCCCGCS STREME-21 letter-probability matrix: alength= 4 w= 12 nsites= 1247 E= 5.7e-001 0.000039 0.970858 0.000060 0.029043 0.014107 0.889398 0.096456 0.000039 0.034433 0.871911 0.093617 0.000039 0.643908 0.109075 0.246210 0.000806 0.156806 0.093968 0.699343 0.049882 0.000039 0.958172 0.000060 0.041729 0.062425 0.888336 0.023771 0.025468 0.030651 0.944170 0.004732 0.020446 0.094722 0.708328 0.113447 0.083503 0.179549 0.000060 0.694653 0.125738 0.077498 0.732629 0.124410 0.065463 0.101918 0.411873 0.366205 0.120004 MOTIF 22-AGGAAG STREME-22 letter-probability matrix: alength= 4 w= 6 nsites= 811 E= 6.1e-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 23-GAGACCCCG STREME-23 letter-probability matrix: alength= 4 w= 9 nsites= 440 E= 6.6e-001 0.024672 0.005906 0.967021 0.002401 0.817233 0.064497 0.064063 0.054207 0.112025 0.008549 0.860132 0.019294 0.934184 0.000540 0.000540 0.064735 0.018314 0.968500 0.000540 0.012645 0.003867 0.941437 0.025024 0.029672 0.047119 0.868050 0.022983 0.061848 0.027855 0.927971 0.032176 0.011998 0.082900 0.030163 0.851915 0.035022 MOTIF 24-CCGGGA STREME-24 letter-probability matrix: alength= 4 w= 6 nsites= 985 E= 1.1e+000 0.017764 0.936782 0.027691 0.017764 0.017764 0.936782 0.027691 0.017764 0.017764 0.027691 0.936782 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 MOTIF 25-TWGAGACAGGGTYTY STREME-25 letter-probability matrix: alength= 4 w= 15 nsites= 43 E= 1.7e+000 0.000739 0.079799 0.001152 0.918310 0.603714 0.001152 0.001152 0.393982 0.105602 0.027368 0.813860 0.053171 0.996957 0.001152 0.001152 0.000739 0.000739 0.027368 0.971154 0.000739 0.996957 0.001152 0.001152 0.000739 0.000739 0.761426 0.053584 0.184251 0.708581 0.001152 0.289528 0.000739 0.105602 0.001152 0.892507 0.000739 0.158038 0.001152 0.840071 0.000739 0.026955 0.132231 0.787644 0.053171 0.000739 0.001152 0.001152 0.996957 0.026955 0.604121 0.001152 0.367772 0.000739 0.001152 0.001152 0.996957 0.000739 0.420617 0.053584 0.525061 MOTIF 26-CCAAAGTGCTGGGA STREME-26 letter-probability matrix: alength= 4 w= 14 nsites= 37 E= 6.7e+000 0.024987 0.900354 0.025370 0.049289 0.000685 0.876052 0.073974 0.049289 0.972877 0.001068 0.025370 0.000685 0.948575 0.025370 0.001068 0.024987 0.899971 0.049672 0.025370 0.024987 0.073593 0.001068 0.900352 0.024987 0.000685 0.025370 0.025370 0.948575 0.024987 0.025370 0.948958 0.000685 0.000685 0.900352 0.025370 0.073593 0.024987 0.001068 0.049672 0.924273 0.073593 0.001068 0.924654 0.000685 0.024987 0.001068 0.948958 0.024987 0.097895 0.025370 0.851748 0.024987 0.851367 0.001068 0.049672 0.097893 MOTIF 27-TAAAAATACAA STREME-27 letter-probability matrix: alength= 4 w= 11 nsites= 42 E= 2.0e+001 0.000758 0.001182 0.001182 0.996877 0.969976 0.001182 0.028084 0.000758 0.996877 0.001182 0.001182 0.000758 0.943072 0.054988 0.001182 0.000758 0.996877 0.001182 0.001182 0.000758 0.943072 0.001182 0.054988 0.000758 0.000758 0.001182 0.001182 0.996877 0.996877 0.001182 0.001182 0.000758 0.000758 0.943496 0.054988 0.000758 0.727855 0.216401 0.028084 0.027660 0.996877 0.001182 0.001182 0.000758 ******************************************************************************** Stopped because 3 consecutive motifs exceeded the p-value threshold (0.05). ******************************************************************************** COMMAND: streme --verbosity 1 --oc /scratch/jngalang/MotifAnalysis/MemeChipOutput/GRCh38-107_AZ_exp1_d1_LPS_TRIM1_5_peaks/streme_out -dna --p /scratch/jngalang/MotifAnalysis/MemeChipOutput/GRCh38-107_AZ_exp1_d1_LPS_TRIM1_5_peaks/seqs-centered --minw 5 --maxw 20 --order 2 ******************************************************************************** CPU: cn45 ******************************************************************************** FINALTIME: 547.00 seconds ********************************************************************************