******************************************************************************** MEME - Motif discovery tool ******************************************************************************** MEME version 5.5.4 (Release date: Fri Jun 16 12:19:08 2023 -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 and Charles Elkan, "Fitting a mixture model by expectation maximization to discover motifs in biopolymers", Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology, pp. 28-36, AAAI Press, Menlo Park, California, 1994. ******************************************************************************** ******************************************************************************** TRAINING SET ******************************************************************************** PRIMARY SEQUENCES= SRR20755928_spades_contigs.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT ******************************************************************************** ******************************************************************************** COMMAND LINE SUMMARY ******************************************************************************** This information can also be useful in the event you wish to report a problem with the MEME software. command: meme -oc SRR20755928_spades_xstreme/meme_out -mod zoops -minw 6 -maxw 15 -bfile SRR20755928_spades_xstreme/background -markov_order 2 -seed 0 -dna -revcomp -evt 0.05 -p 6 -nostatus -searchsize 200000 SRR20755928_spades_contigs.fasta model: mod= zoops nmotifs= 1000 evt= 0.05 objective function: em= E-value of product of p-values starts= E-value of product of p-values strands: + - width: minw= 6 maxw= 15 nsites: minsites= 2 maxsites= 177771 wnsites= 0.8 theta: spmap= uni spfuzz= 0.5 em: prior= dirichlet b= 0.01 maxiter= 50 distance= 1e-05 trim: wg= 11 ws= 1 endgaps= yes data: n= 78006962 N= 177771 sample: seed= 0 hsfrac= 0 searchsize= 200000 norand= no csites= 1000 Letter frequencies in dataset: A 0.287 C 0.213 G 0.213 T 0.287 Background letter frequencies (from file SRR20755928_spades_xstreme/background): A 0.287 C 0.213 G 0.213 T 0.287 Background model order: 2 ******************************************************************************** ******************************************************************************** MOTIF GTGTGGTRTGTGTRT MEME-1 width = 15 sites = 177355 llr = 1853342 E-value = 1.3e-1002 ******************************************************************************** -------------------------------------------------------------------------------- Motif GTGTGGTRTGTGTRT MEME-1 Description -------------------------------------------------------------------------------- Simplified A 2:2:1::5::12:6: pos.-specific C :::::::::::::1: probability G 7:7379:419:7132 matrix T 1917219:81919:7 bits 2.2 2.0 1.8 1.6 * Relative 1.3 * * Entropy 1.1 * ** ** * (15.1 bits) 0.9 ******* ***** * 0.7 ************* * 0.4 *************** 0.2 *************** 0.0 --------------- Multilevel GTGTGGTATGTGTAT consensus A AGT G GG sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGGTRTGTGTRT MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 75518168 bayes= 11.0397 E= 1.3e-1002 -41 -428 163 -134 -271 -276 -248 163 -28 -356 167 -204 -353 -587 24 133 -188 -479 170 -37 -1364 -691 201 -99 -363 -214 -239 163 89 -341 90 -255 -265 -312 -102 152 -387 -249 201 -175 -199 -406 -301 163 -93 -344 179 -159 -299 -407 -172 163 96 -160 64 -280 -438 -498 21 135 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGGTRTGTGTRT MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 177355 E= 1.3e-1002 0.216030 0.010922 0.659626 0.113422 0.043968 0.031412 0.038133 0.886488 0.236943 0.018065 0.675104 0.069888 0.024848 0.003637 0.250402 0.721113 0.078284 0.007674 0.691861 0.222182 0.000023 0.001765 0.853982 0.144230 0.023146 0.048124 0.040591 0.888140 0.532954 0.019999 0.397880 0.049167 0.045852 0.024482 0.104852 0.824815 0.019695 0.037963 0.856852 0.085490 0.072155 0.012715 0.026314 0.888816 0.150444 0.019577 0.734408 0.095571 0.036058 0.012681 0.064571 0.886691 0.557605 0.070373 0.330631 0.041392 0.013831 0.006727 0.246032 0.733410 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGGTRTGTGTRT MEME-1 regular expression -------------------------------------------------------------------------------- [GA]T[GA][TG][GT]GT[AG]TGTGT[AG][TG] -------------------------------------------------------------------------------- Time 179.47 secs. ******************************************************************************** ******************************************************************************** MOTIF ACATACACACM MEME-2 width = 11 sites = 177761 llr = 1551933 E-value = 2.0e-660 ******************************************************************************** -------------------------------------------------------------------------------- Motif ACATACACACM MEME-2 Description -------------------------------------------------------------------------------- Simplified A 817:829:816 pos.-specific C 1921:7:8184 probability G ::::1:::::: matrix T :::911:211: bits 2.2 2.0 1.8 * 1.6 * Relative 1.3 * * ** Entropy 1.1 ** * ** * (12.6 bits) 0.9 *********** 0.7 *********** 0.4 *********** 0.2 *********** 0.0 ----------- Multilevel ACATACACACA consensus C C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACATACACACM MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 11 n= 76229252 bayes= 11.05 E= 2.0e-660 153 -67 -962 -309 -206 211 -2408 -464 134 15 -365 -370 -682 -82 -485 160 153 -343 -112 -244 -93 179 -384 -152 169 -279 -278 -499 -351 190 -681 -68 154 -132 -398 -219 -212 190 -471 -115 103 93 -2408 -483 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACATACACACM MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 11 nsites= 177761 E= 2.0e-660 0.832213 0.133758 0.000270 0.033759 0.068930 0.919555 0.000000 0.011515 0.724889 0.235957 0.016989 0.022165 0.002543 0.120741 0.007398 0.869319 0.829310 0.019695 0.098087 0.052908 0.151220 0.733935 0.014835 0.100011 0.929332 0.030699 0.030952 0.009018 0.025287 0.792947 0.001890 0.179876 0.838204 0.085463 0.013456 0.062877 0.066297 0.796570 0.008101 0.129033 0.584903 0.404993 0.000000 0.010103 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACATACACACM MEME-2 regular expression -------------------------------------------------------------------------------- AC[AC]TACACAC[AC] -------------------------------------------------------------------------------- Time 349.13 secs. ******************************************************************************** ******************************************************************************** MOTIF ACACAYACACM MEME-3 width = 11 sites = 121293 llr = 1374422 E-value = 4.9e-675 ******************************************************************************** -------------------------------------------------------------------------------- Motif ACACAYACACM MEME-3 Description -------------------------------------------------------------------------------- Simplified A 7:a:a:a:915 pos.-specific C 39:a:5:9:85 probability G ::::::::::: matrix T :1:::5:1:1: bits 2.2 2.0 * 1.8 *** * 1.6 **** *** Relative 1.3 **** **** Entropy 1.1 ***** **** (16.3 bits) 0.9 *********** 0.7 *********** 0.4 *********** 0.2 *********** 0.0 ----------- Multilevel ACACATACACC consensus C C A sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACACAYACACM MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 11 n= 76229252 bayes= 11.6141 E= 4.9e-675 137 28 -1148 -886 -797 203 -2353 -112 179 -696 -1013 -722 -1139 218 -893 -312 179 -1095 -732 -657 -1139 114 -990 89 180 -1133 -1107 -1013 -1063 203 -1041 -116 172 -261 -1026 -395 -161 197 -857 -201 70 130 -446 -659 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACACAYACACM MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 11 nsites= 121293 E= 4.9e-675 0.740323 0.258984 0.000074 0.000618 0.001146 0.866233 0.000000 0.132621 0.996175 0.001707 0.000190 0.001929 0.000107 0.966321 0.000437 0.033135 0.995540 0.000107 0.001327 0.003026 0.000107 0.468428 0.000223 0.531243 0.999563 0.000082 0.000099 0.000256 0.000181 0.871081 0.000157 0.128581 0.946460 0.034808 0.000173 0.018558 0.094284 0.833857 0.000561 0.071298 0.465262 0.522091 0.009671 0.002976 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACACAYACACM MEME-3 regular expression -------------------------------------------------------------------------------- [AC]CACA[TC]ACAC[CA] -------------------------------------------------------------------------------- Time 519.09 secs. ******************************************************************************** ******************************************************************************** MOTIF TGTRTGGTGTG MEME-4 width = 11 sites = 127329 llr = 1330106 E-value = 1.3e-534 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGTRTGGTGTG MEME-4 Description -------------------------------------------------------------------------------- Simplified A :::4::::1:1 pos.-specific C 1:2:::1:::: probability G :a:618829:9 matrix T 8:8:9118:a: bits 2.2 2.0 * 1.8 * 1.6 * * *** Relative 1.3 * *** *** Entropy 1.1 *** ******* (15.1 bits) 0.9 *********** 0.7 *********** 0.4 *********** 0.2 *********** 0.0 ----------- Multilevel TGTGTGGTGTG consensus A G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTRTGGTGTG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 11 n= 76229252 bayes= 11.5464 E= 1.3e-534 -502 -53 -347 152 -537 -553 221 -575 -569 -29 -592 151 58 -544 140 -603 -593 -659 -203 171 -256 -628 195 -119 -400 -163 198 -202 -451 -645 -4 144 -107 -571 201 -587 -511 -325 -577 175 -122 -643 203 -684 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTRTGGTGTG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 11 nsites= 127329 E= 1.3e-534 0.008851 0.146950 0.019234 0.824965 0.006943 0.004610 0.983099 0.005348 0.005553 0.173550 0.003503 0.817394 0.428779 0.004901 0.561930 0.004390 0.004720 0.002215 0.051976 0.941090 0.048591 0.002741 0.822688 0.125981 0.018008 0.068916 0.842000 0.071076 0.012574 0.002435 0.206230 0.778762 0.136387 0.004076 0.854629 0.004909 0.008317 0.022399 0.003888 0.965397 0.123664 0.002466 0.871365 0.002505 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTRTGGTGTG MEME-4 regular expression -------------------------------------------------------------------------------- TGT[GA]TGG[TG]GTG -------------------------------------------------------------------------------- Time 688.03 secs. ******************************************************************************** ******************************************************************************** MOTIF GTRGTGTRTGTGKWG MEME-5 width = 15 sites = 99398 llr = 1087126 E-value = 1.5e-465 ******************************************************************************** -------------------------------------------------------------------------------- Motif GTRGTGTRTGTGKWG MEME-5 Description -------------------------------------------------------------------------------- Simplified A 2:42:3:3:2:3141 pos.-specific C :1:1::::::1:::: probability G 815617:6:817318 matrix T 19:19:a:a:8:551 bits 2.2 2.0 1.8 * 1.6 * * Relative 1.3 * ** * Entropy 1.1 ** *** ** * * (15.8 bits) 0.9 *** ******** * 0.7 ************ * 0.4 *************** 0.2 *************** 0.0 --------------- Multilevel GTGGTGTGTGTGTTG consensus A A A A AGA sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTRGTGTRTGTGKWG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 75518168 bayes= 11.89 E= 1.5e-465 -80 -558 186 -235 -699 -170 -155 158 60 -777 137 -438 -80 -185 161 -119 -378 -392 -161 164 -5 -369 172 -570 -722 -646 -589 179 24 -254 155 -669 -701 -281 -684 175 -41 -560 185 -482 -521 -195 -55 146 3 -570 168 -378 -176 -214 71 86 38 -875 -64 77 -160 -511 194 -174 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTRGTGTRTGTGKWG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 99398 E= 1.5e-465 0.164913 0.004437 0.774492 0.056158 0.002264 0.065575 0.072527 0.859635 0.435381 0.000976 0.549820 0.013823 0.165506 0.058925 0.649399 0.126170 0.020856 0.014055 0.069830 0.895259 0.278205 0.016449 0.699823 0.005523 0.001922 0.002415 0.003582 0.992082 0.338166 0.036550 0.622507 0.002777 0.002223 0.030262 0.001861 0.965653 0.216161 0.004386 0.769291 0.010161 0.007767 0.054981 0.145104 0.792149 0.292843 0.004105 0.682197 0.020856 0.084770 0.048271 0.346939 0.520021 0.374686 0.000493 0.136482 0.488340 0.094539 0.006167 0.813366 0.085927 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTRGTGTRTGTGKWG MEME-5 regular expression -------------------------------------------------------------------------------- GT[GA]GT[GA]T[GA]T[GA]T[GA][TG][TA]G -------------------------------------------------------------------------------- Time 862.10 secs. ******************************************************************************** ******************************************************************************** MOTIF TGTGTRTGTGK MEME-6 width = 11 sites = 111627 llr = 1014602 E-value = 1.6e-271 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGTGTRTGTGK MEME-6 Description -------------------------------------------------------------------------------- Simplified A 13:1:5:211: pos.-specific C ::::1:::::: probability G 17:8:428296 matrix T 8:a:918:7:4 bits 2.2 2.0 1.8 * * 1.6 * * Relative 1.3 **** * * Entropy 1.1 **** * ** (13.1 bits) 0.9 ***** ** ** 0.7 ***** ***** 0.4 *********** 0.2 *********** 0.0 ----------- Multilevel TGTGTATGTGG consensus A GG G T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTGTRTGTGK MEME-6 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 11 n= 76229252 bayes= 11.7304 E= 1.6e-271 -132 -1173 -136 148 0 -2341 174 -2341 -935 -536 -1353 179 -142 -218 199 -765 -914 -84 -1353 162 90 -289 77 -199 -613 -361 2 141 -59 -2341 192 -651 -151 -2341 18 120 -194 -2341 212 -811 -794 -1453 141 59 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTGTRTGTGK MEME-6 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 11 nsites= 111627 E= 1.6e-271 0.115098 0.000063 0.082937 0.801903 0.287583 0.000000 0.712417 0.000000 0.000439 0.005187 0.000018 0.994356 0.107573 0.047050 0.843945 0.001433 0.000511 0.119218 0.000018 0.880253 0.535731 0.028712 0.363048 0.072509 0.004094 0.017415 0.215960 0.762531 0.190877 0.000000 0.805961 0.003162 0.101096 0.000000 0.241008 0.657896 0.074803 0.000000 0.924158 0.001039 0.001174 0.000009 0.566350 0.432467 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTGTRTGTGK MEME-6 regular expression -------------------------------------------------------------------------------- T[GA]TGT[AG][TG]G[TG]G[GT] -------------------------------------------------------------------------------- Time 1026.09 secs. ******************************************************************************** ******************************************************************************** MOTIF ACACACCACAC MEME-7 width = 11 sites = 68033 llr = 724123 E-value = 2.4e-172 ******************************************************************************** -------------------------------------------------------------------------------- Motif ACACACCACAC MEME-7 Description -------------------------------------------------------------------------------- Simplified A a:a1a128:9: pos.-specific C :9:7:7828:7 probability G ::::::::::: matrix T :1:2:1::2:3 bits 2.2 2.0 1.8 ** 1.6 *** * * Relative 1.3 *** * * ** Entropy 1.1 *** ******* (15.4 bits) 0.9 *********** 0.7 *********** 0.4 *********** 0.2 *********** 0.0 ----------- Multilevel ACACACCACAC consensus T A T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACACACCACAC MEME-7 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 11 n= 76229252 bayes= 12.4489 E= 2.4e-172 180 -1082 -2270 -2270 -2270 211 -1012 -181 176 -743 -313 -732 -167 162 -391 -25 177 -918 -340 -986 -98 181 -1382 -139 -43 189 -2270 -1079 149 -15 -865 -1325 -1108 197 -1282 -79 171 -313 -260 -886 -440 176 -554 -14 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACACACCACAC MEME-7 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 11 nsites= 68033 E= 2.4e-172 0.999882 0.000118 0.000000 0.000000 0.000000 0.918069 0.000191 0.081740 0.972616 0.001235 0.024356 0.001793 0.090000 0.654168 0.014125 0.241706 0.979187 0.000367 0.020137 0.000309 0.145429 0.744771 0.000015 0.109785 0.213058 0.786780 0.000000 0.000162 0.808064 0.191378 0.000529 0.000029 0.000132 0.834228 0.000029 0.165611 0.940000 0.024356 0.035027 0.000617 0.013626 0.720547 0.004557 0.261270 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACACACCACAC MEME-7 regular expression -------------------------------------------------------------------------------- ACA[CT]AC[CA]ACA[CT] -------------------------------------------------------------------------------- Time 1195.87 secs. ******************************************************************************** ******************************************************************************** MOTIF GTGTGTGTAKG MEME-8 width = 11 sites = 44481 llr = 470799 E-value = 3.5e-089 ******************************************************************************** -------------------------------------------------------------------------------- Motif GTGTGTGTAKG MEME-8 Description -------------------------------------------------------------------------------- Simplified A 1:3:::3:7:2 pos.-specific C :::::1:::1: probability G 9:7:a:6:347 matrix T :a:a:92a:6: bits 2.2 * 2.0 * 1.8 * * * 1.6 ** ** * Relative 1.3 ****** * Entropy 1.1 ****** ** * (15.3 bits) 0.9 ****** ** * 0.7 *********** 0.4 *********** 0.2 *********** 0.0 ----------- Multilevel GTGTGTGTATG consensus A A GGA sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGTGTAKG MEME-8 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 11 n= 76229252 bayes= 13.0482 E= 3.5e-089 -115 -2208 201 -435 -2208 -2208 -2208 180 -10 -2208 178 -2208 -2208 -265 -2208 175 -2208 -2208 223 -2208 -2208 -140 -2208 168 -17 -2208 140 -63 -2208 -2208 -2208 180 122 -2208 64 -2208 -2208 -205 86 97 -23 -2208 180 -409 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGTGTAKG MEME-8 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 11 nsites= 44481 E= 3.5e-089 0.129696 0.000000 0.856231 0.014073 0.000000 0.000000 0.000000 1.000000 0.268452 0.000000 0.731548 0.000000 0.000000 0.033790 0.000000 0.966210 0.000000 0.000000 1.000000 0.000000 0.000000 0.080439 0.000000 0.919561 0.255188 0.000000 0.559497 0.185315 0.000000 0.000000 0.000000 1.000000 0.668218 0.000000 0.331782 0.000000 0.000000 0.051483 0.385940 0.562577 0.244531 0.000000 0.738607 0.016861 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTGTGTGTAKG MEME-8 regular expression -------------------------------------------------------------------------------- GT[GA]TGT[GA]T[AG][TG][GA] -------------------------------------------------------------------------------- Time 1360.80 secs. ******************************************************************************** ******************************************************************************** MOTIF GGGGTAGBRTATGGG MEME-9 width = 15 sites = 10559 llr = 160060 E-value = 4.9e-034 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGGGTAGBRTATGGG MEME-9 Description -------------------------------------------------------------------------------- Simplified A :1:::8::4:811:1 pos.-specific C :::::::2::::::: probability G a9a8:2a45::19a8 matrix T :::2a::41a28::1 bits 2.2 * * 2.0 * * * * 1.8 * * * * ** 1.6 *** * * * ** Relative 1.3 *** * * * ** Entropy 1.1 ******* ** *** (21.9 bits) 0.9 ******* ****** 0.7 ******* ******* 0.4 *************** 0.2 *************** 0.0 --------------- Multilevel GGGGTAGTGTATGGG consensus GA T sequence C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGTAGBRTATGGG MEME-9 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 75518168 bayes= 15.1173 E= 4.9e-034 -371 -2001 220 -2001 -102 -2001 201 -2001 -2001 -2001 223 -2001 -439 -271 186 -66 -330 -2001 -2001 176 148 -2001 -13 -681 -296 -2001 218 -2001 -550 15 75 48 65 -674 114 -183 -2001 -2001 -502 179 144 -2001 -796 -37 -110 -2001 -172 148 -211 -2001 213 -2001 -2001 -2001 223 -2001 -144 -2001 188 -137 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGTAGBRTATGGG MEME-9 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 10559 E= 4.9e-034 0.021972 0.000000 0.978028 0.000000 0.141964 0.000000 0.858036 0.000000 0.000000 0.000000 1.000000 0.000000 0.013732 0.032484 0.771759 0.182025 0.029169 0.000000 0.000000 0.970831 0.802633 0.000000 0.194810 0.002557 0.037030 0.000000 0.962970 0.000000 0.006345 0.236765 0.356757 0.400133 0.449474 0.001989 0.467563 0.080974 0.000000 0.000000 0.006535 0.993465 0.777157 0.000000 0.000852 0.221991 0.133819 0.000000 0.064684 0.801496 0.066768 0.000000 0.933232 0.000000 0.000000 0.000000 1.000000 0.000000 0.105881 0.000000 0.783313 0.110806 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGTAGBRTATGGG MEME-9 regular expression -------------------------------------------------------------------------------- GGGGTAG[TGC][GA]T[AT]TGGG -------------------------------------------------------------------------------- Time 1530.52 secs. ******************************************************************************** ******************************************************************************** MOTIF TGTRTDTWTGTGTR MEME-10 width = 14 sites = 37625 llr = 399917 E-value = 8.9e-018 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGTRTDTWTGTGTR MEME-10 Description -------------------------------------------------------------------------------- Simplified A :113:3:52:11:5 pos.-specific C ::::::2:::1::: probability G 29:614112a:9:5 matrix T 8:9:93736:91a: bits 2.2 * 2.0 * 1.8 * 1.6 * * Relative 1.3 ** * * ** Entropy 1.1 ** * **** (15.3 bits) 0.9 ***** ***** 0.7 ***** * ***** 0.4 ************** 0.2 ************** 0.0 -------------- Multilevel TGTGTGTATGTGTG consensus A TCTG A sequence A -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTRTDTWTGTGTR MEME-10 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 14 n= 75695939 bayes= 13.2573 E= 8.9e-018 -302 -2184 -17 143 -151 -2184 200 -259 -169 -2184 -2184 166 27 -2184 157 -352 -2184 -287 -161 165 4 -2184 78 24 -2184 -8 -80 124 93 -2184 -63 12 -86 -2184 23 104 -808 -459 222 -2184 -211 -184 -2184 161 -198 -2184 201 -202 -2184 -2184 -234 174 65 -2184 130 -349 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTRTDTWTGTGTR MEME-10 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 14 nsites= 37625 E= 8.9e-018 0.035535 0.000000 0.188811 0.775654 0.100545 0.000000 0.851588 0.047867 0.089196 0.000000 0.000000 0.910804 0.345329 0.000000 0.629635 0.025037 0.000000 0.029023 0.069688 0.901289 0.295468 0.000000 0.364332 0.340199 0.000000 0.201223 0.122073 0.676704 0.548944 0.000000 0.137860 0.313196 0.158113 0.000000 0.249914 0.591973 0.001063 0.008850 0.990086 0.000000 0.066605 0.059375 0.000000 0.874020 0.073010 0.000000 0.856213 0.070777 0.000000 0.000000 0.042020 0.957980 0.451296 0.000000 0.523056 0.025648 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTRTDTWTGTGTR MEME-10 regular expression -------------------------------------------------------------------------------- TGT[GA]T[GTA][TC][AT][TG]GTGT[GA] -------------------------------------------------------------------------------- Time 1697.13 secs. ******************************************************************************** ******************************************************************************** MOTIF TGWACATATAC MEME-11 width = 11 sites = 11523 llr = 157013 E-value = 1.6e-019 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGWACATATAC MEME-11 Description -------------------------------------------------------------------------------- Simplified A ::5a:a:a:a: pos.-specific C ::2:a:::::a probability G :a::::::::: matrix T a:3:::a:a:: bits 2.2 * * * 2.0 * * * 1.8 ** ******** 1.6 ** ******** Relative 1.3 ** ******** Entropy 1.1 ** ******** (19.7 bits) 0.9 ** ******** 0.7 ** ******** 0.4 *********** 0.2 *********** 0.0 ----------- Multilevel TGAACATATAC consensus T sequence C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGWACATATAC MEME-11 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 11 n= 76229252 bayes= 14.9508 E= 1.6e-019 -1069 -2014 -2014 180 -2014 -2014 223 -2014 79 -4 -2014 4 180 -2014 -2014 -2014 -2014 223 -2014 -2014 180 -2014 -2014 -2014 -2014 -2014 -590 179 180 -2014 -2014 -2014 -2014 -2014 -2014 180 180 -2014 -2014 -2014 -2014 223 -2014 -2014 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGWACATATAC MEME-11 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 11 nsites= 11523 E= 1.6e-019 0.000174 0.000000 0.000000 0.999826 0.000000 0.000000 1.000000 0.000000 0.497874 0.206457 0.000000 0.295670 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 0.003558 0.996442 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGWACATATAC MEME-11 regular expression -------------------------------------------------------------------------------- TG[ATC]ACATATAC -------------------------------------------------------------------------------- Time 1866.72 secs. ******************************************************************************** ******************************************************************************** MOTIF TGTRTSTGTGSTGTG MEME-12 width = 15 sites = 12648 llr = 188759 E-value = 1.6e-021 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGTRTSTGTGSTGTG MEME-12 Description -------------------------------------------------------------------------------- Simplified A :1:6:2::1:2:::: pos.-specific C ::::14:::14:::: probability G 29:4:4:a:94:a:a matrix T 8:a:9:a:9::9:a: bits 2.2 2.0 * * * 1.8 * ** *** 1.6 ** ** * **** Relative 1.3 ** * ** * **** Entropy 1.1 *** * **** **** (21.5 bits) 0.9 ***** **** **** 0.7 *************** 0.4 *************** 0.2 *************** 0.0 --------------- Multilevel TGTATGTGTGCTGTG consensus G C G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTRTSTGTGSTGTG MEME-12 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 75518168 bayes= 14.8583 E= 1.6e-021 -643 -654 -35 153 -114 -769 201 -461 -743 -502 -511 178 105 -781 83 -347 -560 -196 -664 171 -71 90 99 -570 -585 -554 -715 178 -407 -1039 220 -507 -222 -807 -218 163 -280 -201 206 -415 -65 102 82 -484 -301 -454 -524 172 -452 -793 220 -492 -615 -981 -639 179 -330 -807 218 -602 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTRTSTGTGSTGTG MEME-12 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 12648 E= 1.6e-021 0.003321 0.002293 0.166429 0.827957 0.130297 0.001028 0.856894 0.011781 0.001660 0.006562 0.006167 0.985610 0.594165 0.000949 0.379032 0.025854 0.005930 0.054554 0.002135 0.937381 0.175838 0.395557 0.423071 0.005534 0.004981 0.004586 0.001502 0.988931 0.017157 0.000158 0.974146 0.008539 0.061670 0.000791 0.046885 0.890655 0.041350 0.052736 0.889706 0.016208 0.183033 0.432400 0.374526 0.010041 0.035579 0.009171 0.005614 0.949636 0.012492 0.000870 0.977151 0.009488 0.004032 0.000237 0.002530 0.993201 0.029254 0.000791 0.965528 0.004428 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTRTSTGTGSTGTG MEME-12 regular expression -------------------------------------------------------------------------------- TGT[AG]T[GC]TGTG[CG]TGTG -------------------------------------------------------------------------------- Time 2033.36 secs. ******************************************************************************** ******************************************************************************** MOTIF TGTRTGTG MEME-13 width = 8 sites = 72777 llr = 640238 E-value = 3.0e-014 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGTRTGTG MEME-13 Description -------------------------------------------------------------------------------- Simplified A 2::5:::2 pos.-specific C :::::::: probability G :a:5:a28 matrix T 8:a:a:8: bits 2.2 * * 2.0 * * 1.8 ** ** 1.6 ** ** Relative 1.3 ** ** * Entropy 1.1 *** **** (12.7 bits) 0.9 ******** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TGTATGTG consensus G GA sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTRTGTG MEME-13 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 76762565 bayes= 12.3542 E= 3.0e-014 -68 -2280 -2280 151 -2280 -2280 223 -1435 -2280 -2280 -2280 180 88 -1075 114 -2280 -2280 -2280 -2280 180 -2280 -2280 223 -2280 -2280 -2280 -3 146 -31 -2280 185 -2280 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTRTGTG MEME-13 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 72777 E= 3.0e-014 0.179109 0.000000 0.000000 0.820891 0.000000 0.000000 0.999986 0.000014 0.000000 0.000000 0.000000 1.000000 0.530346 0.000124 0.469530 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.208308 0.791692 0.232354 0.000000 0.767646 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTRTGTG MEME-13 regular expression -------------------------------------------------------------------------------- TGT[AG]TG[TG][GA] -------------------------------------------------------------------------------- Time 2200.00 secs. ******************************************************************************** ******************************************************************************** Stopped because the next motif E-value > 5.00e-02. ********************************************************************************