******************************************************************************** MEME - Motif discovery tool ******************************************************************************** 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 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= seqs/AT1G14687_peak_sequences.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ Chr1:292732-292795 1.0000 63 Chr1:540691-540934 1.0000 243 Chr1:544161-544385 1.0000 224 Chr1:575261-575450 1.0000 189 Chr1:665016-665227 1.0000 211 Chr1:913025-913126 1.0000 101 Chr1:953186-953310 1.0000 124 Chr1:978433-978566 1.0000 133 Chr1:985442-985658 1.0000 216 Chr1:1104156-1104402 1.0000 246 Chr1:1184536-1184604 1.0000 68 Chr1:1201481-1201567 1.0000 86 Chr1:1424188-1424449 1.0000 261 Chr1:1494395-1494509 1.0000 114 Chr1:1638183-1638374 1.0000 191 Chr1:1705619-1705710 1.0000 91 Chr1:2472723-2472878 1.0000 155 Chr1:2927016-2927119 1.0000 103 Chr1:2932527-2932601 1.0000 74 Chr1:3103429-3103520 1.0000 91 Chr1:3296529-3296647 1.0000 118 Chr1:3777110-3777284 1.0000 174 Chr1:3943919-3944100 1.0000 181 Chr1:4081512-4081794 1.0000 282 Chr1:4090893-4091213 1.0000 320 Chr1:4274157-4274381 1.0000 224 Chr1:4461164-4461217 1.0000 53 Chr1:4465926-4466157 1.0000 231 Chr1:4687483-4687575 1.0000 92 Chr1:4706551-4706614 1.0000 63 Chr1:4771976-4772046 1.0000 70 Chr1:4820663-4820803 1.0000 140 Chr1:4872320-4872611 1.0000 291 Chr1:5058152-5058400 1.0000 248 Chr1:5123666-5123745 1.0000 79 Chr1:5654069-5654137 1.0000 68 Chr1:5824459-5824675 1.0000 216 Chr1:5835791-5836052 1.0000 261 Chr1:6497112-6497532 1.0000 420 Chr1:6626084-6626197 1.0000 113 Chr1:6661838-6662022 1.0000 184 Chr1:6873484-6873594 1.0000 110 Chr1:6947977-6948044 1.0000 67 Chr1:7035481-7035714 1.0000 233 Chr1:7132420-7132610 1.0000 190 Chr1:7589011-7589069 1.0000 58 Chr1:7730043-7730169 1.0000 126 Chr1:7846024-7846158 1.0000 134 Chr1:7978776-7978907 1.0000 131 Chr1:8195566-8195671 1.0000 105 Chr1:8206237-8206593 1.0000 356 Chr1:8357159-8357284 1.0000 125 Chr1:8497746-8497821 1.0000 75 Chr1:8621003-8621147 1.0000 144 Chr1:8764740-8764914 1.0000 174 Chr1:8936298-8936440 1.0000 142 Chr1:8941941-8942064 1.0000 123 Chr1:9099791-9099859 1.0000 68 Chr1:9329316-9329405 1.0000 89 Chr1:9650485-9650712 1.0000 227 Chr1:9816584-9816729 1.0000 145 Chr1:9836626-9836858 1.0000 232 Chr1:9958357-9958563 1.0000 206 Chr1:10053340-10053531 1.0000 191 Chr1:10170327-10170417 1.0000 90 Chr1:10186198-10186343 1.0000 145 Chr1:10357135-10357205 1.0000 70 Chr1:10587044-10587512 1.0000 468 Chr1:10595175-10595380 1.0000 205 Chr1:10867249-10867441 1.0000 192 Chr1:11005894-11005968 1.0000 74 Chr1:11132115-11132354 1.0000 239 Chr1:11155784-11156090 1.0000 306 Chr1:11259520-11259696 1.0000 176 Chr1:11284319-11284448 1.0000 129 Chr1:11669681-11669815 1.0000 134 Chr1:11671704-11671753 1.0000 49 Chr1:11700103-11700206 1.0000 103 Chr1:11720776-11721003 1.0000 227 Chr1:11839122-11839230 1.0000 108 Chr1:11911011-11911318 1.0000 307 Chr1:11930614-11930788 1.0000 174 Chr1:11981483-11982256 1.0000 773 Chr1:12241183-12241275 1.0000 92 Chr1:12319194-12319462 1.0000 268 Chr1:12330024-12330134 1.0000 110 Chr1:12366296-12366361 1.0000 65 Chr1:12387864-12388091 1.0000 227 Chr1:12455233-12455462 1.0000 229 Chr1:12519639-12519770 1.0000 131 Chr1:12529933-12530127 1.0000 194 Chr1:12898288-12898387 1.0000 99 Chr1:13017384-13017566 1.0000 182 Chr1:13088113-13088186 1.0000 73 Chr1:13107290-13107628 1.0000 338 Chr1:13161510-13161844 1.0000 334 Chr1:13366065-13366447 1.0000 382 Chr1:13527286-13527389 1.0000 103 Chr1:13760692-13761141 1.0000 449 Chr1:15890939-15891329 1.0000 390 Chr1:15984072-15984229 1.0000 157 Chr1:16278991-16279331 1.0000 340 Chr1:16561804-16561970 1.0000 166 Chr1:16790141-16790504 1.0000 363 Chr1:16839528-16839972 1.0000 444 Chr1:16877081-16877412 1.0000 331 Chr1:16938314-16938512 1.0000 198 Chr1:17115010-17115205 1.0000 195 Chr1:17286986-17287182 1.0000 196 Chr1:17420617-17420698 1.0000 81 Chr1:17466057-17466401 1.0000 344 Chr1:17577270-17577665 1.0000 395 Chr1:17623978-17624192 1.0000 214 Chr1:17805452-17805590 1.0000 138 Chr1:18090035-18090161 1.0000 126 Chr1:18130368-18130656 1.0000 288 Chr1:18397597-18397886 1.0000 289 Chr1:18423838-18424074 1.0000 236 Chr1:18497113-18497446 1.0000 333 Chr1:18506291-18506550 1.0000 259 Chr1:18541056-18541197 1.0000 141 Chr1:18746629-18746730 1.0000 101 Chr1:18914198-18914274 1.0000 76 Chr1:19292429-19292629 1.0000 200 Chr1:19352941-19353210 1.0000 269 Chr1:19483685-19483961 1.0000 276 Chr1:19771518-19771747 1.0000 229 Chr1:19811332-19811417 1.0000 85 Chr1:19861952-19862173 1.0000 221 Chr1:19878559-19878701 1.0000 142 Chr1:19995190-19995420 1.0000 230 Chr1:20150531-20150714 1.0000 183 Chr1:20174709-20175047 1.0000 338 Chr1:20513801-20514168 1.0000 367 Chr1:20600005-20600093 1.0000 88 Chr1:20801085-20801160 1.0000 75 Chr1:21042430-21042493 1.0000 63 Chr1:21314186-21314345 1.0000 159 Chr1:21532172-21532371 1.0000 199 Chr1:21533328-21533426 1.0000 98 Chr1:21610046-21610180 1.0000 134 Chr1:22450307-22450434 1.0000 127 Chr1:22457853-22458061 1.0000 208 Chr1:22633466-22633647 1.0000 181 Chr1:23251766-23252061 1.0000 295 Chr1:23321156-23321331 1.0000 175 Chr1:23885755-23885828 1.0000 73 Chr1:23932387-23932765 1.0000 378 Chr1:24005244-24005419 1.0000 175 Chr1:24063760-24063990 1.0000 230 Chr1:24104746-24104935 1.0000 189 Chr1:24325144-24325272 1.0000 128 Chr1:24668312-24668368 1.0000 56 Chr1:24969302-24969436 1.0000 134 Chr1:25041398-25041513 1.0000 115 Chr1:25144601-25144884 1.0000 283 Chr1:25379268-25379780 1.0000 512 Chr1:25527701-25527885 1.0000 184 Chr1:25931974-25932136 1.0000 162 Chr1:26170903-26171138 1.0000 235 Chr1:26193280-26193361 1.0000 81 Chr1:26215090-26215229 1.0000 139 Chr1:26647156-26647255 1.0000 99 Chr1:26691663-26691757 1.0000 94 Chr1:26742768-26742846 1.0000 78 Chr1:27343865-27343985 1.0000 120 Chr1:27365513-27365654 1.0000 141 Chr1:27510400-27510611 1.0000 211 Chr1:27683132-27683197 1.0000 65 Chr1:27713058-27713191 1.0000 133 Chr1:27934678-27934755 1.0000 77 Chr1:28311812-28311916 1.0000 104 Chr1:28704965-28705132 1.0000 167 Chr1:28992312-28992455 1.0000 143 Chr1:29077526-29077798 1.0000 272 Chr1:29209183-29209342 1.0000 159 Chr1:29278969-29279058 1.0000 89 Chr1:30069360-30069454 1.0000 94 Chr1:30190819-30190913 1.0000 94 Chr1:30254948-30255260 1.0000 312 Chr2:226325-226448 1.0000 123 Chr2:336878-337026 1.0000 148 Chr2:416117-416176 1.0000 59 Chr2:546173-546420 1.0000 247 Chr2:637192-637288 1.0000 96 Chr2:659457-659913 1.0000 456 Chr2:736678-737003 1.0000 325 Chr2:761231-761600 1.0000 369 Chr2:785359-785588 1.0000 229 Chr2:1006150-1006270 1.0000 120 Chr2:1060249-1060318 1.0000 69 Chr2:1087163-1087477 1.0000 314 Chr2:1379343-1379483 1.0000 140 Chr2:1380778-1381100 1.0000 322 Chr2:1444074-1444387 1.0000 313 Chr2:1482671-1482959 1.0000 288 Chr2:1644211-1644373 1.0000 162 Chr2:1740057-1740094 1.0000 37 Chr2:1869465-1869652 1.0000 187 Chr2:1903491-1903706 1.0000 215 Chr2:2066372-2066969 1.0000 597 Chr2:2140670-2140887 1.0000 217 Chr2:2259839-2260029 1.0000 190 Chr2:2273357-2273487 1.0000 130 Chr2:5752498-5752673 1.0000 175 Chr2:6058859-6059215 1.0000 356 Chr2:6185015-6185103 1.0000 88 Chr2:6296990-6297084 1.0000 94 Chr2:6298034-6298259 1.0000 225 Chr2:6396315-6396411 1.0000 96 Chr2:6502594-6502739 1.0000 145 Chr2:6676134-6676181 1.0000 47 Chr2:6757707-6757977 1.0000 270 Chr2:6922654-6922992 1.0000 338 Chr2:7048556-7048692 1.0000 136 Chr2:7094118-7094267 1.0000 149 Chr2:7148688-7149028 1.0000 340 Chr2:7154208-7154350 1.0000 142 Chr2:7307122-7307257 1.0000 135 Chr2:7536703-7536907 1.0000 204 Chr2:7558667-7558781 1.0000 114 Chr2:7678293-7678478 1.0000 185 Chr2:7768067-7768294 1.0000 227 Chr2:7883295-7883656 1.0000 361 Chr2:7944979-7945136 1.0000 157 Chr2:8096260-8096318 1.0000 58 Chr2:8160229-8160433 1.0000 204 Chr2:8402874-8403267 1.0000 393 Chr2:8518285-8518355 1.0000 70 Chr2:8654741-8654979 1.0000 238 Chr2:8742851-8742917 1.0000 66 Chr2:8777013-8777152 1.0000 139 Chr2:9402610-9402936 1.0000 326 Chr2:9445305-9445518 1.0000 213 Chr2:9539173-9539399 1.0000 226 Chr2:9671454-9671591 1.0000 137 Chr2:9695560-9695840 1.0000 280 Chr2:9749460-9749686 1.0000 226 Chr2:9758449-9758716 1.0000 267 Chr2:10286122-10286197 1.0000 75 Chr2:10468576-10468811 1.0000 235 Chr2:10579527-10579824 1.0000 297 Chr2:10727342-10727564 1.0000 222 Chr2:10973723-10974019 1.0000 296 Chr2:11041191-11041336 1.0000 145 Chr2:11086020-11086133 1.0000 113 Chr2:11398967-11399191 1.0000 224 Chr2:11561009-11561188 1.0000 179 Chr2:11624327-11624660 1.0000 333 Chr2:11807773-11807867 1.0000 94 Chr2:11920608-11920712 1.0000 104 Chr2:12009425-12009552 1.0000 127 Chr2:12093966-12094220 1.0000 254 Chr2:12149768-12149919 1.0000 151 Chr2:12182327-12182776 1.0000 449 Chr2:12309426-12309665 1.0000 239 Chr2:12423814-12424052 1.0000 238 Chr2:12494494-12494615 1.0000 121 Chr2:12622664-12622829 1.0000 165 Chr2:12712391-12712532 1.0000 141 Chr2:12845151-12845240 1.0000 89 Chr2:13032561-13032693 1.0000 132 Chr2:13301818-13301903 1.0000 85 Chr2:13703855-13703926 1.0000 71 Chr2:14340130-14340235 1.0000 105 Chr2:14385313-14385428 1.0000 115 Chr2:14541877-14542009 1.0000 132 Chr2:14572069-14572423 1.0000 354 Chr2:14644447-14644519 1.0000 72 Chr2:15050315-15050462 1.0000 147 Chr2:15058129-15058288 1.0000 159 Chr2:15616814-15617036 1.0000 222 Chr2:16054032-16054153 1.0000 121 Chr2:16272543-16272605 1.0000 62 Chr2:16418914-16419178 1.0000 264 Chr2:16467636-16467734 1.0000 98 Chr2:16664047-16664182 1.0000 135 Chr2:16686966-16687091 1.0000 125 Chr2:16789087-16789312 1.0000 225 Chr2:16866707-16866948 1.0000 241 Chr2:17199672-17199810 1.0000 138 Chr2:17464622-17464812 1.0000 190 Chr2:18145291-18145377 1.0000 86 Chr2:18345621-18345829 1.0000 208 Chr2:18449240-18449536 1.0000 296 Chr2:18981133-18981264 1.0000 131 Chr2:19283279-19283340 1.0000 61 Chr2:19374915-19375087 1.0000 172 Chr2:19623707-19623809 1.0000 102 Chr3:654826-654936 1.0000 110 Chr3:827063-827291 1.0000 228 Chr3:956806-956968 1.0000 162 Chr3:1370739-1370873 1.0000 134 Chr3:1487364-1487712 1.0000 348 Chr3:1515843-1516050 1.0000 207 Chr3:1736158-1736223 1.0000 65 Chr3:1772718-1772906 1.0000 188 Chr3:1877133-1877454 1.0000 321 Chr3:2068794-2068914 1.0000 120 Chr3:2138727-2138934 1.0000 207 Chr3:2450834-2451183 1.0000 349 Chr3:2467522-2467635 1.0000 113 Chr3:2629521-2629815 1.0000 294 Chr3:3006247-3006332 1.0000 85 Chr3:3386581-3386769 1.0000 188 Chr3:3494765-3494894 1.0000 129 Chr3:3513266-3513387 1.0000 121 Chr3:3965823-3965972 1.0000 149 Chr3:4216496-4216886 1.0000 390 Chr3:4221946-4222072 1.0000 126 Chr3:4353719-4353857 1.0000 138 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Chr3:10692335-10692539 1.0000 204 Chr3:10837034-10837237 1.0000 203 Chr3:11023427-11023601 1.0000 174 Chr3:11041892-11041991 1.0000 99 Chr3:11188049-11188295 1.0000 246 Chr3:11287837-11288115 1.0000 278 Chr3:11715925-11716299 1.0000 374 Chr3:11930448-11930554 1.0000 106 Chr3:11966420-11966821 1.0000 401 Chr3:12443539-12443717 1.0000 178 Chr3:12601908-12602128 1.0000 220 Chr3:13218727-13218922 1.0000 195 Chr3:14320004-14320213 1.0000 209 Chr3:14904816-14904977 1.0000 161 Chr3:15177700-15177823 1.0000 123 Chr3:15397483-15397674 1.0000 191 Chr3:15827400-15827591 1.0000 191 Chr3:15905717-15906287 1.0000 570 Chr3:16407920-16408098 1.0000 178 Chr3:16534800-16534945 1.0000 145 Chr3:16558830-16559143 1.0000 313 Chr3:16577555-16577862 1.0000 307 Chr3:16756354-16756520 1.0000 166 Chr3:16832471-16832781 1.0000 310 Chr3:16905394-16905520 1.0000 126 Chr3:17135761-17135828 1.0000 67 Chr3:17209932-17210107 1.0000 175 Chr3:17277330-17277549 1.0000 219 Chr3:17298674-17298920 1.0000 246 Chr3:17441835-17441981 1.0000 146 Chr3:17730098-17730279 1.0000 181 Chr3:17730764-17731025 1.0000 261 Chr3:17878790-17878977 1.0000 187 Chr3:17915368-17915443 1.0000 75 Chr3:17929340-17929470 1.0000 130 Chr3:18023356-18023568 1.0000 212 Chr3:18075183-18075347 1.0000 164 Chr3:18177025-18177306 1.0000 281 Chr3:18393424-18393636 1.0000 212 Chr3:18543231-18543295 1.0000 64 Chr3:18594872-18594971 1.0000 99 Chr3:18633295-18633531 1.0000 236 Chr3:18746497-18746746 1.0000 249 Chr3:19088022-19088639 1.0000 617 Chr3:19366685-19366892 1.0000 207 Chr3:19391655-19391906 1.0000 251 Chr3:19483276-19483356 1.0000 80 Chr3:19496172-19496353 1.0000 181 Chr3:19607752-19607789 1.0000 37 Chr3:19733219-19733466 1.0000 247 Chr3:19984629-19984850 1.0000 221 Chr3:20188914-20189145 1.0000 231 Chr3:20352991-20353175 1.0000 184 Chr3:20353650-20353725 1.0000 75 Chr3:20362548-20362631 1.0000 83 Chr3:20879080-20879180 1.0000 100 Chr3:20955103-20955197 1.0000 94 Chr3:20958034-20958086 1.0000 52 Chr3:21138954-21139073 1.0000 119 Chr3:21209894-21209930 1.0000 36 Chr3:21306236-21306309 1.0000 73 Chr3:21436390-21436551 1.0000 161 Chr3:21436804-21437090 1.0000 286 Chr3:21462251-21462334 1.0000 83 Chr3:21981330-21981535 1.0000 205 Chr3:22127585-22127660 1.0000 75 Chr3:22297780-22297872 1.0000 92 Chr3:22311517-22311688 1.0000 171 Chr3:22539819-22540170 1.0000 351 Chr3:23028882-23029010 1.0000 128 Chr3:23230735-23230835 1.0000 100 Chr4:16433-16551 1.0000 118 Chr4:63324-63405 1.0000 81 Chr4:258048-258283 1.0000 235 Chr4:313888-314003 1.0000 115 Chr4:324125-324691 1.0000 566 Chr4:464317-464823 1.0000 506 Chr4:474726-475071 1.0000 345 Chr4:526026-526206 1.0000 180 Chr4:744624-744745 1.0000 121 Chr4:763783-764071 1.0000 288 Chr4:1047309-1047776 1.0000 467 Chr4:1143649-1143870 1.0000 221 Chr4:1305024-1305240 1.0000 216 Chr4:1306016-1306205 1.0000 189 Chr4:1380246-1380495 1.0000 249 Chr4:1434258-1434427 1.0000 169 Chr4:1596164-1596201 1.0000 37 Chr4:2120323-2120432 1.0000 109 Chr4:2217300-2217461 1.0000 161 Chr4:2295005-2295378 1.0000 373 Chr4:2334096-2334219 1.0000 123 Chr4:2393136-2393192 1.0000 56 Chr4:2397836-2397997 1.0000 161 Chr4:2464413-2464918 1.0000 505 Chr4:2989517-2989663 1.0000 146 Chr4:4194159-4194830 1.0000 671 Chr4:4851076-4851237 1.0000 161 Chr4:5228702-5228916 1.0000 214 Chr4:5420753-5420972 1.0000 219 Chr4:5549059-5549350 1.0000 291 Chr4:5675556-5675702 1.0000 146 Chr4:5739788-5740147 1.0000 359 Chr4:6109252-6109542 1.0000 290 Chr4:6307853-6308191 1.0000 338 Chr4:6528462-6528802 1.0000 340 Chr4:6556275-6556533 1.0000 258 Chr4:6633134-6633186 1.0000 52 Chr4:6699351-6699610 1.0000 259 Chr4:6767636-6767968 1.0000 332 Chr4:6797076-6797149 1.0000 73 Chr4:6845773-6846034 1.0000 261 Chr4:7190638-7190849 1.0000 211 Chr4:7191494-7191639 1.0000 145 Chr4:7238947-7239107 1.0000 160 Chr4:7268063-7268305 1.0000 242 Chr4:7525090-7525281 1.0000 191 Chr4:7736833-7736992 1.0000 159 Chr4:7786545-7786900 1.0000 355 Chr4:8031333-8031577 1.0000 244 Chr4:8063880-8064256 1.0000 376 Chr4:8105650-8106005 1.0000 355 Chr4:8520585-8520730 1.0000 145 Chr4:8538436-8538602 1.0000 166 Chr4:8967261-8967415 1.0000 154 Chr4:9111192-9111382 1.0000 190 Chr4:9163875-9164049 1.0000 174 Chr4:9317150-9317451 1.0000 301 Chr4:9369257-9369369 1.0000 112 Chr4:9701511-9701598 1.0000 87 Chr4:9737925-9738097 1.0000 172 Chr4:10167860-10168012 1.0000 152 Chr4:10230680-10230844 1.0000 164 Chr4:10492863-10493141 1.0000 278 Chr4:10633098-10633262 1.0000 164 Chr4:11191324-11191500 1.0000 176 Chr4:11719837-11720000 1.0000 163 Chr4:11756861-11757084 1.0000 223 Chr4:11831081-11831153 1.0000 72 Chr4:11934471-11934556 1.0000 85 Chr4:12199869-12199957 1.0000 88 Chr4:12292222-12292352 1.0000 130 Chr4:12570589-12570803 1.0000 214 Chr4:12837023-12837265 1.0000 242 Chr4:12841347-12841383 1.0000 36 Chr4:12907446-12907530 1.0000 84 Chr4:12953020-12953204 1.0000 184 Chr4:12966819-12966924 1.0000 105 Chr4:13130117-13130206 1.0000 89 Chr4:13911994-13912056 1.0000 62 Chr4:14072804-14073043 1.0000 239 Chr4:14239020-14239303 1.0000 283 Chr4:14340571-14340671 1.0000 100 Chr4:14408662-14408800 1.0000 138 Chr4:14425312-14425435 1.0000 123 Chr4:14537341-14537444 1.0000 103 Chr4:14886973-14887236 1.0000 263 Chr4:15060461-15060542 1.0000 81 Chr4:15225811-15226051 1.0000 240 Chr4:15585163-15585240 1.0000 77 Chr4:15730676-15730752 1.0000 76 Chr4:16180432-16180563 1.0000 131 Chr4:17251424-17251674 1.0000 250 Chr4:17377347-17377651 1.0000 304 Chr4:17808589-17808699 1.0000 110 Chr4:17866522-17866620 1.0000 98 Chr4:18068719-18068807 1.0000 88 Chr4:18075847-18075902 1.0000 55 Chr4:18129852-18130079 1.0000 227 Chr4:18179284-18179338 1.0000 54 Chr4:18294780-18294875 1.0000 95 Chr4:18400939-18401048 1.0000 109 Chr4:18451897-18452017 1.0000 120 Chr4:18473835-18473997 1.0000 162 Chr4:18573402-18573543 1.0000 141 Chr5:123245-123292 1.0000 47 Chr5:713337-713552 1.0000 215 Chr5:813715-813843 1.0000 128 Chr5:881653-881841 1.0000 188 Chr5:990833-990976 1.0000 143 Chr5:1046317-1046476 1.0000 159 Chr5:1070513-1070729 1.0000 216 Chr5:1081425-1081553 1.0000 128 Chr5:1129708-1129828 1.0000 120 Chr5:1556647-1556838 1.0000 191 Chr5:1566689-1566786 1.0000 97 Chr5:1819773-1819871 1.0000 98 Chr5:2063037-2063294 1.0000 257 Chr5:2093252-2093525 1.0000 273 Chr5:2102557-2102606 1.0000 49 Chr5:2174198-2174272 1.0000 74 Chr5:3019347-3019525 1.0000 178 Chr5:3065226-3065289 1.0000 63 Chr5:3714094-3714182 1.0000 88 Chr5:4312740-4313053 1.0000 313 Chr5:4754639-4754840 1.0000 201 Chr5:5090915-5091141 1.0000 226 Chr5:5854522-5854943 1.0000 421 Chr5:6057483-6057591 1.0000 108 Chr5:6612135-6612191 1.0000 56 Chr5:6684996-6685366 1.0000 370 Chr5:7153945-7154153 1.0000 208 Chr5:7508512-7509147 1.0000 635 Chr5:7644431-7644564 1.0000 133 Chr5:7676229-7676316 1.0000 87 Chr5:7756990-7757210 1.0000 220 Chr5:7818320-7818642 1.0000 322 Chr5:8034895-8035058 1.0000 163 Chr5:8037334-8037483 1.0000 149 Chr5:8156246-8156317 1.0000 71 Chr5:8288742-8289042 1.0000 300 Chr5:8323865-8324009 1.0000 144 Chr5:8334080-8334211 1.0000 131 Chr5:8570981-8571245 1.0000 264 Chr5:9199046-9199312 1.0000 266 Chr5:9224008-9224463 1.0000 455 Chr5:9225145-9225550 1.0000 405 Chr5:9334212-9334300 1.0000 88 Chr5:9373373-9373906 1.0000 533 Chr5:9628613-9628779 1.0000 166 Chr5:9665363-9665714 1.0000 351 Chr5:9716521-9716825 1.0000 304 Chr5:9799793-9800035 1.0000 242 Chr5:9818529-9818717 1.0000 188 Chr5:10039772-10040012 1.0000 240 Chr5:10161869-10161972 1.0000 103 Chr5:10650883-10651047 1.0000 164 Chr5:10679460-10679718 1.0000 258 Chr5:10780273-10780353 1.0000 80 Chr5:11025720-11025840 1.0000 120 Chr5:12548229-12548491 1.0000 262 Chr5:13605144-13605247 1.0000 103 Chr5:13690986-13691201 1.0000 215 Chr5:13720639-13721158 1.0000 519 Chr5:14112300-14112402 1.0000 102 Chr5:14320219-14320410 1.0000 191 Chr5:14647271-14647462 1.0000 191 Chr5:14760797-14760863 1.0000 66 Chr5:14999648-14999702 1.0000 54 Chr5:15012766-15012912 1.0000 146 Chr5:15060915-15061181 1.0000 266 Chr5:15130390-15130577 1.0000 187 Chr5:15194203-15194334 1.0000 131 Chr5:15213476-15213650 1.0000 174 Chr5:15549238-15549309 1.0000 71 Chr5:15606048-15606244 1.0000 196 Chr5:16151850-16152064 1.0000 214 Chr5:16211042-16211253 1.0000 211 Chr5:16275584-16275746 1.0000 162 Chr5:16356629-16357078 1.0000 449 Chr5:16374151-16374546 1.0000 395 Chr5:16511729-16511925 1.0000 196 Chr5:16721846-16721955 1.0000 109 Chr5:16736250-16736384 1.0000 134 Chr5:16745750-16745921 1.0000 171 Chr5:16981678-16981999 1.0000 321 Chr5:17025924-17026083 1.0000 159 Chr5:17052109-17052476 1.0000 367 Chr5:17371068-17371199 1.0000 131 Chr5:17547551-17547807 1.0000 256 Chr5:17760834-17760913 1.0000 79 Chr5:17812851-17813302 1.0000 451 Chr5:17826017-17826187 1.0000 170 Chr5:17961632-17961938 1.0000 306 Chr5:17976775-17976861 1.0000 86 Chr5:17995987-17996181 1.0000 194 Chr5:18027199-18027252 1.0000 53 Chr5:18074367-18074623 1.0000 256 Chr5:18106726-18106893 1.0000 167 Chr5:18507356-18507468 1.0000 112 Chr5:18598824-18599019 1.0000 195 Chr5:18642327-18642391 1.0000 64 Chr5:18790525-18790580 1.0000 55 Chr5:18940579-18940807 1.0000 228 Chr5:19014342-19014665 1.0000 323 Chr5:19014909-19015006 1.0000 97 Chr5:19263601-19263729 1.0000 128 Chr5:19290549-19290836 1.0000 287 Chr5:19391604-19391837 1.0000 233 Chr5:19670950-19671223 1.0000 273 Chr5:19910917-19911334 1.0000 417 Chr5:19979951-19980034 1.0000 83 Chr5:20395109-20395413 1.0000 304 Chr5:20426327-20426550 1.0000 223 Chr5:20501708-20502275 1.0000 567 Chr5:20527528-20527625 1.0000 97 Chr5:20707130-20707232 1.0000 102 Chr5:20856123-20856502 1.0000 379 Chr5:20993258-20993413 1.0000 155 Chr5:21015357-21015656 1.0000 299 Chr5:21016408-21016523 1.0000 115 Chr5:21191696-21192171 1.0000 475 Chr5:21194262-21194420 1.0000 158 Chr5:21305719-21305902 1.0000 183 Chr5:21306339-21306501 1.0000 162 Chr5:21337699-21337943 1.0000 244 Chr5:21375348-21375413 1.0000 65 Chr5:21440062-21440229 1.0000 167 Chr5:21528615-21528892 1.0000 277 Chr5:21534327-21534441 1.0000 114 Chr5:21619830-21620059 1.0000 229 Chr5:21925293-21925353 1.0000 60 Chr5:22038037-22038106 1.0000 69 Chr5:22086373-22086415 1.0000 42 Chr5:22116185-22116371 1.0000 186 Chr5:22150310-22150522 1.0000 212 Chr5:22341631-22341830 1.0000 199 Chr5:22576498-22576539 1.0000 41 Chr5:22650673-22650879 1.0000 206 Chr5:22966648-22966868 1.0000 220 Chr5:23118053-23118199 1.0000 146 Chr5:23355302-23355390 1.0000 88 Chr5:23383566-23383811 1.0000 245 Chr5:23926312-23926618 1.0000 306 Chr5:24119248-24119420 1.0000 172 Chr5:24239826-24239976 1.0000 150 Chr5:24319101-24319270 1.0000 169 Chr5:24342825-24343001 1.0000 176 Chr5:24443501-24443655 1.0000 154 Chr5:24688497-24688789 1.0000 292 Chr5:25142526-25142670 1.0000 144 Chr5:25264746-25265010 1.0000 264 Chr5:25550298-25550413 1.0000 115 Chr5:25587175-25587289 1.0000 114 Chr5:25981227-25981478 1.0000 251 Chr5:26057375-26057503 1.0000 128 Chr5:26134464-26134678 1.0000 214 Chr5:26171386-26171849 1.0000 463 Chr5:26265929-26266197 1.0000 268 Chr5:26343496-26343679 1.0000 183 Chr5:26646619-26646664 1.0000 45 Chr5:26833984-26834159 1.0000 175 ******************************************************************************** ******************************************************************************** COMMAND LINE SUMMARY ******************************************************************************** This information can also be useful in the event you wish to report a problem with the MEME software. command: meme seqs/AT1G14687_peak_sequences.fasta -dna -oc out/AT1G14687 -nostatus -time 300 -mod zoops -nmotifs 2 -minw 6 -maxw 50 -objfun classic -revcomp -markov_order 0 -mpi model: mod= zoops nmotifs= 2 evt= inf objective function: em= E-value of product of p-values starts= E-value of product of p-values strands: + - width: minw= 6 maxw= 50 nsites: minsites= 2 maxsites= 674 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= 129265 N= 674 sample: seed= 0 hsfrac= 0 searchsize= 100000 norand= no csites= 1000 Letter frequencies in dataset: A 0.387 C 0.113 G 0.113 T 0.387 Background letter frequencies (from file dataset with add-one prior applied): A 0.387 C 0.113 G 0.113 T 0.387 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF GTTTATATTCGTTTTTAAAAATTCAAATTATGGCATATGCG MEME-1 width = 41 sites = 22 llr = 964 E-value = 3.6e-142 ******************************************************************************** -------------------------------------------------------------------------------- Motif GTTTATATTCGTTTTTAAAAATTCAAATTATGGCATATGCG MEME-1 Description -------------------------------------------------------------------------------- Simplified A 1:::9:a::::::::1aaaaa:::aaa119:1::a:a:::: pos.-specific C :::::::::8:::::::::::::9:::::::::9:::::a: probability G 9:::::::::a::::::::::::::::::1:99:::::9:9 matrix T :aaa1a:aa2:aaaa9:::::aa1:::99:a::::a:a1:: bits 3.1 2.8 * * 2.5 * * *** *** 2.2 * ** * *** *** Relative 1.9 * ** * *** *** Entropy 1.6 * ** * *** *** (63.2 bits) 1.3 **** ********** *********** *********** 0.9 *************** ************************* 0.6 ***************************************** 0.3 ***************************************** 0.0 ----------------------------------------- Multilevel GTTTATATTCGTTTTTAAAAATTCAAATTATGGCATATGCG consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTTTATATTCGTTTTTAAAAATTCAAATTATGGCATATGCG MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- ----------------------------------------- Chr5:25264746-25265010 - 107 5.62e-23 GTCTTGAACA GTTTATATTCGTTTTTAAAAATTCAAATTATGGCATATGCG AAAAAAATCT Chr5:16356629-16357078 - 285 5.62e-23 GTATTGAACA GTTTATATTCGTTTTTAAAAATTCAAATTATGGCATATGCG AAAAAAACTC Chr5:15606048-15606244 + 73 5.62e-23 GTATTGAACA GTTTATATTCGTTTTTAAAAATTCAAATTATGGCATATGCG AGAAAACTCT Chr4:8063880-8064256 - 169 5.62e-23 GTATTGAACA GTTTATATTCGTTTTTAAAAATTCAAATTATGGCATATGCG AAAAAACTCT Chr1:11700103-11700206 - 33 5.62e-23 GTATTGAACA GTTTATATTCGTTTTTAAAAATTCAAATTATGGCATATGCG AAAAGACTCT Chr2:11398967-11399191 + 29 1.88e-22 GTATTGAACA GTTTATATTCGTTTTTAAAAATTCAAATTAGGGCATATGCG AAAAAACTCT Chr1:22450307-22450434 - 64 4.12e-22 GTATTGAACA GTTTTTATTCGTTTTTAAAAATTCAAATTATGGCATATGCG AAAAAACTCT Chr1:9816584-9816729 - 66 4.12e-22 GTATTGAATA GTTTATATTCGTTTTTAAAAATTCAAAATATGGCATATGCG AAAAAACTCT Chr5:7153945-7154153 + 14 6.05e-22 GTATTGAACA GTTTATATTTGTTTTTAAAAATTCAAATTATGGCATATGCG AAAAAACTCT Chr3:18746497-18746746 - 131 6.05e-22 GTATTGAACA GTTTATATTTGTTTTTAAAAATTCAAATTATGGCATATGCG AAAAAAACTC Chr2:10468576-10468811 + 130 9.19e-22 GTATTGAACA GTTTATATTCGTTTTTAAAAATTCAAATTATGGCAAATGCG AAAAAACTAT Chr3:1370739-1370873 + 54 1.05e-21 GTATTGAACA GTTTATATTCGTTTTAAAAAATTCAAATTGTGGCATATGCG AAAAAACTCT Chr5:14760797-14760863 + 5 1.97e-21 AACA GTTTATATTCGTTTTTAAAAATTCAAATTATAGCATATGCG AAAAACTCTA Chr1:18746629-18746730 + 37 1.97e-21 GTATTGAACA GTTTATATTCGTTTTTAAAAATTCAAATTATAGCATATGCG AAAAAACTCT Chr5:4312740-4313053 - 234 3.74e-21 GTATTGAACA GTTTATATTCGTTTTTAAAAATTCAAATTATGACATATGCG AAAAAACTCT Chr3:17277330-17277549 + 5 3.74e-21 AACA GTTTATATTCGTTTTTAAAAATTCAAATTATGGCATATGCA AAAAAACTCT Chr2:7154208-7154350 + 48 4.66e-20 GTATTGAACA ATTTATATTCGTTTTTAAAAATTTAAATTATGGCATATGCG AAAAAACTCT Chr4:313888-314003 + 14 5.12e-20 GTATTGAATA GTTTATATTCGTTTTTAAAAATTTAAATTATGGCATATTCG AAAAAACTCT Chr3:2629521-2629815 + 123 5.78e-20 GTATTGAACA ATTTATATTTGTTTTTAAAAATTCAAATTGTGGCATATGCG AAAAAACTCT Chr1:19995190-19995420 + 64 1.12e-19 GTATTGAACA GTTTATATTTGTTTTTAAAAATTCAAATAATGGCATATGGG AAAAAACTCT Chr1:26170903-26171138 + 97 3.29e-19 GTATTGAACA GTTTATATTCGTTTTAAAAAATTCTAATTATGGAATATGCG AAAAAACTCT Chr1:11671704-11671753 - 5 2.60e-11 TCCC CTTTTTTTTCCTTGGCAAAACGCCAAAAAATGTTTTATTCT ATAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTTTATATTCGTTTTTAAAAATTCAAATTATGGCATATGCG MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- Chr5:25264746-25265010 5.6e-23 106_[-1]_117 Chr5:16356629-16357078 5.6e-23 284_[-1]_124 Chr5:15606048-15606244 5.6e-23 72_[+1]_83 Chr4:8063880-8064256 5.6e-23 168_[-1]_167 Chr1:11700103-11700206 5.6e-23 32_[-1]_30 Chr2:11398967-11399191 1.9e-22 28_[+1]_155 Chr1:22450307-22450434 4.1e-22 63_[-1]_23 Chr1:9816584-9816729 4.1e-22 65_[-1]_39 Chr5:7153945-7154153 6e-22 13_[+1]_154 Chr3:18746497-18746746 6e-22 130_[-1]_78 Chr2:10468576-10468811 9.2e-22 129_[+1]_65 Chr3:1370739-1370873 1e-21 53_[+1]_40 Chr5:14760797-14760863 2e-21 4_[+1]_21 Chr1:18746629-18746730 2e-21 36_[+1]_24 Chr5:4312740-4313053 3.7e-21 233_[-1]_39 Chr3:17277330-17277549 3.7e-21 4_[+1]_174 Chr2:7154208-7154350 4.7e-20 47_[+1]_54 Chr4:313888-314003 5.1e-20 13_[+1]_61 Chr3:2629521-2629815 5.8e-20 122_[+1]_131 Chr1:19995190-19995420 1.1e-19 63_[+1]_126 Chr1:26170903-26171138 3.3e-19 96_[+1]_98 Chr1:11671704-11671753 2.6e-11 4_[-1]_4 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTTTATATTCGTTTTTAAAAATTCAAATTATGGCATATGCG MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GTTTATATTCGTTTTTAAAAATTCAAATTATGGCATATGCG width=41 seqs=22 Chr5:25264746-25265010 ( 107) GTTTATATTCGTTTTTAAAAATTCAAATTATGGCATATGCG 1 Chr5:16356629-16357078 ( 285) GTTTATATTCGTTTTTAAAAATTCAAATTATGGCATATGCG 1 Chr5:15606048-15606244 ( 73) GTTTATATTCGTTTTTAAAAATTCAAATTATGGCATATGCG 1 Chr4:8063880-8064256 ( 169) GTTTATATTCGTTTTTAAAAATTCAAATTATGGCATATGCG 1 Chr1:11700103-11700206 ( 33) GTTTATATTCGTTTTTAAAAATTCAAATTATGGCATATGCG 1 Chr2:11398967-11399191 ( 29) GTTTATATTCGTTTTTAAAAATTCAAATTAGGGCATATGCG 1 Chr1:22450307-22450434 ( 64) GTTTTTATTCGTTTTTAAAAATTCAAATTATGGCATATGCG 1 Chr1:9816584-9816729 ( 66) GTTTATATTCGTTTTTAAAAATTCAAAATATGGCATATGCG 1 Chr5:7153945-7154153 ( 14) GTTTATATTTGTTTTTAAAAATTCAAATTATGGCATATGCG 1 Chr3:18746497-18746746 ( 131) GTTTATATTTGTTTTTAAAAATTCAAATTATGGCATATGCG 1 Chr2:10468576-10468811 ( 130) GTTTATATTCGTTTTTAAAAATTCAAATTATGGCAAATGCG 1 Chr3:1370739-1370873 ( 54) GTTTATATTCGTTTTAAAAAATTCAAATTGTGGCATATGCG 1 Chr5:14760797-14760863 ( 5) GTTTATATTCGTTTTTAAAAATTCAAATTATAGCATATGCG 1 Chr1:18746629-18746730 ( 37) GTTTATATTCGTTTTTAAAAATTCAAATTATAGCATATGCG 1 Chr5:4312740-4313053 ( 234) GTTTATATTCGTTTTTAAAAATTCAAATTATGACATATGCG 1 Chr3:17277330-17277549 ( 5) GTTTATATTCGTTTTTAAAAATTCAAATTATGGCATATGCA 1 Chr2:7154208-7154350 ( 48) ATTTATATTCGTTTTTAAAAATTTAAATTATGGCATATGCG 1 Chr4:313888-314003 ( 14) GTTTATATTCGTTTTTAAAAATTTAAATTATGGCATATTCG 1 Chr3:2629521-2629815 ( 123) ATTTATATTTGTTTTTAAAAATTCAAATTGTGGCATATGCG 1 Chr1:19995190-19995420 ( 64) GTTTATATTTGTTTTTAAAAATTCAAATAATGGCATATGGG 1 Chr1:26170903-26171138 ( 97) GTTTATATTCGTTTTAAAAAATTCTAATTATGGAATATGCG 1 Chr1:11671704-11671753 ( 5) CTTTTTTTTCCTTGGCAAAACGCCAAAAAATGTTTTATTCT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTTTATATTCGTTTTTAAAAATTCAAATTATGGCATATGCG MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 41 n= 102305 bayes= 8.93082 E= 3.6e-142 -209 -131 293 -1110 -1110 -1110 -1110 137 -1110 -1110 -1110 137 -1110 -1110 -1110 137 123 -1110 -1110 -209 -1110 -1110 -1110 137 130 -1110 -1110 -308 -1110 -1110 -1110 137 -1110 -1110 -1110 137 -1110 286 -1110 -109 -1110 -131 308 -1110 -1110 -1110 -1110 137 -1110 -1110 -1110 137 -1110 -1110 -131 130 -1110 -1110 -131 130 -209 -131 -1110 116 137 -1110 -1110 -1110 137 -1110 -1110 -1110 137 -1110 -1110 -1110 137 -1110 -1110 -1110 130 -131 -1110 -1110 -1110 -1110 -131 130 -1110 -131 -1110 130 -1110 301 -1110 -209 130 -1110 -1110 -308 137 -1110 -1110 -1110 137 -1110 -1110 -1110 -209 -1110 -1110 123 -209 -1110 -1110 123 123 -1110 -31 -1110 -1110 -1110 -131 130 -209 -1110 301 -1110 -308 -1110 301 -308 -308 301 -1110 -308 130 -1110 -1110 -308 -308 -1110 -1110 130 137 -1110 -1110 -1110 -1110 -1110 -1110 137 -1110 -1110 301 -209 -1110 308 -131 -1110 -308 -1110 301 -308 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTTTATATTCGTTTTTAAAAATTCAAATTATGGCATATGCG MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 41 nsites= 22 E= 3.6e-142 0.090909 0.045455 0.863636 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 0.909091 0.000000 0.000000 0.090909 0.000000 0.000000 0.000000 1.000000 0.954545 0.000000 0.000000 0.045455 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.818182 0.000000 0.181818 0.000000 0.045455 0.954545 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.045455 0.954545 0.000000 0.000000 0.045455 0.954545 0.090909 0.045455 0.000000 0.863636 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 0.954545 0.045455 0.000000 0.000000 0.000000 0.000000 0.045455 0.954545 0.000000 0.045455 0.000000 0.954545 0.000000 0.909091 0.000000 0.090909 0.954545 0.000000 0.000000 0.045455 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.090909 0.000000 0.000000 0.909091 0.090909 0.000000 0.000000 0.909091 0.909091 0.000000 0.090909 0.000000 0.000000 0.000000 0.045455 0.954545 0.090909 0.000000 0.909091 0.000000 0.045455 0.000000 0.909091 0.045455 0.045455 0.909091 0.000000 0.045455 0.954545 0.000000 0.000000 0.045455 0.045455 0.000000 0.000000 0.954545 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.909091 0.090909 0.000000 0.954545 0.045455 0.000000 0.045455 0.000000 0.909091 0.045455 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GTTTATATTCGTTTTTAAAAATTCAAATTATGGCATATGCG MEME-1 regular expression -------------------------------------------------------------------------------- GTTTATATTCGTTTTTAAAAATTCAAATTATGGCATATGCG -------------------------------------------------------------------------------- Time 120.44 secs. ******************************************************************************** ******************************************************************************** MOTIF TTTWAWCGAATACTTGATTTTATKATTTGCTTTGMTTCG MEME-2 width = 39 sites = 8 llr = 316 E-value = 3.3e-096 ******************************************************************************** -------------------------------------------------------------------------------- Motif TTTWAWCGAATACTTGATTTTATKATTTGCTTTGMTTCG MEME-2 Description -------------------------------------------------------------------------------- Simplified A :::685::aa:a::31a::::5:1a::::1:::15:::3 pos.-specific C :::::3a:::::9::1:::::33::::1:9::::4:39: probability G :::::::a:::::::6:::::3:5::::a::::91::18 matrix T aaa433::::a:1a81:aaaa:84:aa9::aaa::a8:: bits 3.1 ** * 2.8 ** * 2.5 ** * ** * * 2.2 ** * ** * * Relative 1.9 ** * ** * ** Entropy 1.6 ** * ** * ** (57.0 bits) 1.3 *** ******** ****** *** ****** * ** 0.9 *** ******** ****** ***************** 0.6 *** * ********************************* 0.3 *************************************** 0.0 --------------------------------------- Multilevel TTTAAACGAATACTTGATTTTATGATTTGCTTTGATTCG consensus TTC A CCT C C A sequence T G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTWAWCGAATACTTGATTTTATKATTTGCTTTGMTTCG MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- --------------------------------------- Chr1:11259520-11259696 - 122 8.21e-22 ATTCGATTCG TTTTAACGAATACTTGATTTTGTGATTTGCTTTGCTTCG AAAATTTCCG Chr5:19014342-19014665 + 91 2.03e-21 TTCGATTCGT TTTAACCGAATACTTGATTTTATGATTTGCTTTGATTCG AAACTTTCCG Chr1:18130368-18130656 + 87 1.57e-20 TTTGATTCGT TTTAATCGAATACTTGATTTTATGATTTGCTTTGATTCG AAACTTTCCG Chr1:11930614-11930788 - 91 1.03e-19 TTCGATTCGT TTTAACCGAATACTTGATTTTATAATTTGCTTTGATTCG AAAATTTCTA Chr3:21436390-21436551 + 44 1.63e-19 TTCGATTCGT TTTAAACGAATACTTGATTTTGTGATTCGCTTTACTTCG AAAATTTCCA Chr2:16418914-16419178 + 177 2.34e-18 TTCGATTCGT TTTAATCGAATACTTAATTTTATTATTTGCTTTGATCCG AAAATTTTCG Chr5:19014909-19015006 + 6 1.91e-17 TTCGG TTTTTACGAATACTACATTTTCCTATTTGCTTTGGTCCA AAATCTTACG Chr1:15984072-15984229 - 21 3.22e-15 TTTGCATCGA TTTTTACGAATATTATATTTTCCTATTTGATTTGCTTGA AAATCTTACG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTWAWCGAATACTTGATTTTATKATTTGCTTTGMTTCG MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- Chr1:11259520-11259696 8.2e-22 121_[-2]_16 Chr5:19014342-19014665 2e-21 90_[+2]_194 Chr1:18130368-18130656 1.6e-20 86_[+2]_163 Chr1:11930614-11930788 1e-19 90_[-2]_45 Chr3:21436390-21436551 1.6e-19 43_[+2]_79 Chr2:16418914-16419178 2.3e-18 176_[+2]_49 Chr5:19014909-19015006 1.9e-17 5_[+2]_53 Chr1:15984072-15984229 3.2e-15 20_[-2]_98 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTWAWCGAATACTTGATTTTATKATTTGCTTTGMTTCG MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TTTWAWCGAATACTTGATTTTATKATTTGCTTTGMTTCG width=39 seqs=8 Chr1:11259520-11259696 ( 122) TTTTAACGAATACTTGATTTTGTGATTTGCTTTGCTTCG 1 Chr5:19014342-19014665 ( 91) TTTAACCGAATACTTGATTTTATGATTTGCTTTGATTCG 1 Chr1:18130368-18130656 ( 87) TTTAATCGAATACTTGATTTTATGATTTGCTTTGATTCG 1 Chr1:11930614-11930788 ( 91) TTTAACCGAATACTTGATTTTATAATTTGCTTTGATTCG 1 Chr3:21436390-21436551 ( 44) TTTAAACGAATACTTGATTTTGTGATTCGCTTTACTTCG 1 Chr2:16418914-16419178 ( 177) TTTAATCGAATACTTAATTTTATTATTTGCTTTGATCCG 1 Chr5:19014909-19015006 ( 6) TTTTTACGAATACTACATTTTCCTATTTGCTTTGGTCCA 1 Chr1:15984072-15984229 ( 21) TTTTTACGAATATTATATTTTCCTATTTGATTTGCTTGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTWAWCGAATACTTGATTTTATKATTTGCTTTGMTTCG MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 39 n= 103653 bayes= 8.96923 E= 3.3e-096 -965 -965 -965 137 -965 -965 -965 137 -965 -965 -965 137 69 -965 -965 -5 95 -965 -965 -63 37 114 -965 -63 -965 314 -965 -965 -965 -965 314 -965 137 -965 -965 -965 137 -965 -965 -965 -965 -965 -965 137 137 -965 -965 -965 -965 295 -965 -163 -965 -965 -965 137 -63 -965 -965 95 -163 15 247 -163 137 -965 -965 -965 -965 -965 -965 137 -965 -965 -965 137 -965 -965 -965 137 -965 -965 -965 137 37 114 114 -965 -965 114 -965 95 -163 -965 214 -5 137 -965 -965 -965 -965 -965 -965 137 -965 -965 -965 137 -965 15 -965 118 -965 -965 314 -965 -163 295 -965 -965 -965 -965 -965 137 -965 -965 -965 137 -965 -965 -965 137 -163 -965 295 -965 37 173 15 -965 -965 -965 -965 137 -965 114 -965 95 -965 295 15 -965 -63 -965 273 -965 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTWAWCGAATACTTGATTTTATKATTTGCTTTGMTTCG MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 39 nsites= 8 E= 3.3e-096 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.625000 0.000000 0.000000 0.375000 0.750000 0.000000 0.000000 0.250000 0.500000 0.250000 0.000000 0.250000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.875000 0.000000 0.125000 0.000000 0.000000 0.000000 1.000000 0.250000 0.000000 0.000000 0.750000 0.125000 0.125000 0.625000 0.125000 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 0.500000 0.250000 0.250000 0.000000 0.000000 0.250000 0.000000 0.750000 0.125000 0.000000 0.500000 0.375000 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 0.125000 0.000000 0.875000 0.000000 0.000000 1.000000 0.000000 0.125000 0.875000 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 0.125000 0.000000 0.875000 0.000000 0.500000 0.375000 0.125000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.250000 0.000000 0.750000 0.000000 0.875000 0.125000 0.000000 0.250000 0.000000 0.750000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTWAWCGAATACTTGATTTTATKATTTGCTTTGMTTCG MEME-2 regular expression -------------------------------------------------------------------------------- TTT[AT][AT][ACT]CGAATACT[TA]GATTTT[ACG][TC][GT]ATTTGCTTTG[AC]T[TC]C[GA] -------------------------------------------------------------------------------- Time 236.61 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- Chr1:292732-292795 5.27e-01 63 Chr1:540691-540934 1.30e-01 243 Chr1:544161-544385 2.48e-01 224 Chr1:575261-575450 2.20e-02 118_[+1(7.67e-05)]_30 Chr1:665016-665227 8.70e-01 211 Chr1:913025-913126 6.60e-02 101 Chr1:953186-953310 9.71e-01 124 Chr1:978433-978566 5.37e-01 133 Chr1:985442-985658 3.94e-01 216 Chr1:1104156-1104402 2.53e-01 246 Chr1:1184536-1184604 5.37e-01 68 Chr1:1201481-1201567 1.31e-01 86 Chr1:1424188-1424449 2.25e-01 261 Chr1:1494395-1494509 8.50e-01 114 Chr1:1638183-1638374 5.71e-02 [+1(5.95e-05)]_150 Chr1:1705619-1705710 1.68e-01 91 Chr1:2472723-2472878 4.53e-01 155 Chr1:2927016-2927119 7.82e-01 103 Chr1:2932527-2932601 4.50e-01 74 Chr1:3103429-3103520 3.82e-01 91 Chr1:3296529-3296647 1.20e-01 118 Chr1:3777110-3777284 8.83e-01 174 Chr1:3943919-3944100 8.35e-01 181 Chr1:4081512-4081794 5.77e-01 282 Chr1:4090893-4091213 9.94e-01 320 Chr1:4274157-4274381 8.39e-01 224 Chr1:4461164-4461217 7.25e-03 1_[-2(5.16e-05)]_13 Chr1:4465926-4466157 7.64e-01 231 Chr1:4687483-4687575 2.80e-01 92 Chr1:4706551-4706614 9.50e-02 63 Chr1:4771976-4772046 2.38e-01 70 Chr1:4820663-4820803 1.04e-01 140 Chr1:4872320-4872611 1.07e-01 291 Chr1:5058152-5058400 3.21e-01 248 Chr1:5123666-5123745 5.21e-01 79 Chr1:5654069-5654137 4.03e-01 68 Chr1:5824459-5824675 3.43e-01 216 Chr1:5835791-5836052 4.40e-02 261 Chr1:6497112-6497532 8.39e-01 420 Chr1:6626084-6626197 1.54e-01 113 Chr1:6661838-6662022 3.63e-01 184 Chr1:6873484-6873594 3.73e-01 110 Chr1:6947977-6948044 1.30e-01 67 Chr1:7035481-7035714 5.57e-08 149_[-1(1.90e-11)]_43 Chr1:7132420-7132610 1.98e-01 190 Chr1:7589011-7589069 9.96e-01 58 Chr1:7730043-7730169 1.67e-01 126 Chr1:7846024-7846158 8.91e-02 134 Chr1:7978776-7978907 4.83e-01 131 Chr1:8195566-8195671 3.79e-01 105 Chr1:8206237-8206593 3.24e-02 55_[+1(8.20e-05)]_260 Chr1:8357159-8357284 2.41e-01 125 Chr1:8497746-8497821 3.12e-01 75 Chr1:8621003-8621147 7.20e-01 144 Chr1:8764740-8764914 4.49e-01 174 Chr1:8936298-8936440 3.88e-01 142 Chr1:8941941-8942064 9.93e-01 123 Chr1:9099791-9099859 8.18e-01 68 Chr1:9329316-9329405 3.75e-01 89 Chr1:9650485-9650712 4.43e-01 227 Chr1:9816584-9816729 2.42e-19 65_[-1(4.12e-22)]_39 Chr1:9836626-9836858 1.71e-02 132_[-1(7.80e-05)]_59 Chr1:9958357-9958563 5.29e-03 33_[-2(4.49e-05)]_134 Chr1:10053340-10053531 8.96e-02 191 Chr1:10170327-10170417 4.35e-01 90 Chr1:10186198-10186343 2.74e-01 145 Chr1:10357135-10357205 8.50e-02 70 Chr1:10587044-10587512 2.47e-01 468 Chr1:10595175-10595380 5.36e-02 205 Chr1:10867249-10867441 9.42e-01 192 Chr1:11005894-11005968 7.78e-01 74 Chr1:11132115-11132354 3.35e-14 114_[-2(2.34e-18)]_86 Chr1:11155784-11156090 3.53e-01 306 Chr1:11259520-11259696 3.56e-18 121_[-2(8.21e-22)]_16 Chr1:11284319-11284448 3.98e-01 129 Chr1:11669681-11669815 2.08e-01 134 Chr1:11671704-11671753 1.83e-09 4_[-1(2.60e-11)]_4 Chr1:11700103-11700206 1.13e-19 32_[-1(5.62e-23)]_30 Chr1:11720776-11721003 2.70e-01 227 Chr1:11839122-11839230 9.99e-01 108 Chr1:11911011-11911318 1.22e-01 307 Chr1:11930614-11930788 6.90e-16 25_[-2(8.09e-05)]_26_[-2(1.03e-19)]_\ 45 Chr1:11981483-11982256 1.66e-01 22_[-1(3.86e-05)]_710 Chr1:12241183-12241275 2.13e-03 22_[-2(7.30e-05)]_31 Chr1:12319194-12319462 7.04e-01 268 Chr1:12330024-12330134 8.22e-01 110 Chr1:12366296-12366361 8.16e-01 65 Chr1:12387864-12388091 7.07e-01 227 Chr1:12455233-12455462 7.17e-03 67_[-2(4.20e-06)]_123 Chr1:12519639-12519770 8.70e-01 131 Chr1:12529933-12530127 2.09e-01 194 Chr1:12898288-12898387 3.11e-01 99 Chr1:13017384-13017566 1.43e-12 43_[+1(6.41e-16)]_98 Chr1:13088113-13088186 3.42e-01 73 Chr1:13107290-13107628 7.21e-01 338 Chr1:13161510-13161844 2.35e-01 334 Chr1:13366065-13366447 5.58e-02 30_[-1(8.63e-05)]_311 Chr1:13527286-13527389 3.56e-02 103 Chr1:13760692-13761141 1.16e-01 296_[-2(8.51e-05)]_114 Chr1:15890939-15891329 5.32e-01 390 Chr1:15984072-15984229 5.72e-12 20_[-2(3.22e-15)]_98 Chr1:16278991-16279331 1.59e-01 340 Chr1:16561804-16561970 5.28e-01 166 Chr1:16790141-16790504 2.73e-01 363 Chr1:16839528-16839972 3.61e-01 444 Chr1:16877081-16877412 1.90e-02 4_[-2(1.73e-05)]_288 Chr1:16938314-16938512 2.11e-01 198 Chr1:17115010-17115205 2.70e-01 195 Chr1:17286986-17287182 1.51e-02 34_[-1(6.70e-05)]_121 Chr1:17420617-17420698 1.11e-02 17_[-1(8.34e-05)]_23 Chr1:17466057-17466401 5.72e-02 1_[-1(4.59e-05)]_150_[-1(1.84e-05)]_\ 111 Chr1:17577270-17577665 6.98e-01 395 Chr1:17623978-17624192 5.89e-01 214 Chr1:17805452-17805590 2.33e-02 79_[+1(5.75e-05)]_18 Chr1:18090035-18090161 7.66e-01 126 Chr1:18130368-18130656 2.94e-16 86_[+2(1.57e-20)]_163 Chr1:18397597-18397886 2.23e-01 289 Chr1:18423838-18424074 2.95e-01 236 Chr1:18497113-18497446 4.47e-01 333 Chr1:18506291-18506550 2.75e-01 259 Chr1:18541056-18541197 4.18e-02 141 Chr1:18746629-18746730 1.55e-18 36_[+1(1.97e-21)]_24 Chr1:18914198-18914274 9.06e-01 76 Chr1:19292429-19292629 3.83e-02 200 Chr1:19352941-19353210 3.09e-01 269 Chr1:19483685-19483961 8.54e-01 276 Chr1:19771518-19771747 3.75e-02 6_[+1(6.70e-05)]_182 Chr1:19811332-19811417 7.76e-01 85 Chr1:19861952-19862173 8.86e-01 221 Chr1:19878559-19878701 6.97e-01 142 Chr1:19995190-19995420 3.64e-16 63_[+1(1.12e-19)]_126 Chr1:20150531-20150714 6.51e-01 183 Chr1:20174709-20175047 2.63e-01 338 Chr1:20513801-20514168 7.20e-01 367 Chr1:20600005-20600093 8.63e-01 88 Chr1:20801085-20801160 7.99e-01 75 Chr1:21042430-21042493 2.96e-01 63 Chr1:21314186-21314345 1.59e-01 159 Chr1:21532172-21532371 3.67e-01 199 Chr1:21533328-21533426 3.17e-01 98 Chr1:21610046-21610180 3.19e-01 134 Chr1:22450307-22450434 5.42e-19 63_[-1(4.12e-22)]_23 Chr1:22457853-22458061 7.19e-01 208 Chr1:22633466-22633647 9.99e-01 181 Chr1:23251766-23252061 1.29e-02 237_[-1(4.28e-05)]_17 Chr1:23321156-23321331 8.66e-02 10_[-1(9.22e-05)]_124 Chr1:23885755-23885828 7.14e-02 73 Chr1:23932387-23932765 1.14e-01 83_[-1(4.36e-05)]_254 Chr1:24005244-24005419 7.86e-01 175 Chr1:24063760-24063990 1.75e-01 230 Chr1:24104746-24104935 9.47e-01 189 Chr1:24325144-24325272 5.78e-01 128 Chr1:24668312-24668368 8.40e-01 56 Chr1:24969302-24969436 8.95e-01 134 Chr1:25041398-25041513 2.80e-02 115 Chr1:25144601-25144884 6.06e-01 283 Chr1:25379268-25379780 1.45e-01 512 Chr1:25527701-25527885 5.68e-01 184 Chr1:25931974-25932136 4.16e-01 162 Chr1:26170903-26171138 5.14e-16 96_[+1(3.29e-19)]_98 Chr1:26193280-26193361 9.39e-01 81 Chr1:26215090-26215229 1.90e-01 139 Chr1:26647156-26647255 9.97e-01 99 Chr1:26691663-26691757 7.15e-01 94 Chr1:26742768-26742846 1.85e-01 78 Chr1:27343865-27343985 8.69e-01 120 Chr1:27365513-27365654 9.74e-01 141 Chr1:27510400-27510611 6.69e-01 211 Chr1:27683132-27683197 6.95e-02 65 Chr1:27713058-27713191 6.42e-01 133 Chr1:27934678-27934755 5.98e-01 77 Chr1:28311812-28311916 6.01e-01 104 Chr1:28704965-28705132 6.28e-01 167 Chr1:28992312-28992455 1.24e-01 143 Chr1:29077526-29077798 9.66e-03 155_[-1(1.53e-05)]_76 Chr1:29209183-29209342 9.07e-01 159 Chr1:29278969-29279058 4.47e-03 30_[-1(9.37e-06)]_18 Chr1:30069360-30069454 8.66e-01 94 Chr1:30190819-30190913 5.43e-01 94 Chr1:30254948-30255260 1.43e-05 95_[+1(4.41e-09)]_176 Chr2:226325-226448 9.78e-01 123 Chr2:336878-337026 9.03e-01 148 Chr2:416117-416176 3.77e-02 59 Chr2:546173-546420 1.11e-02 92_[-2(4.41e-05)]_116 Chr2:637192-637288 1.03e-01 96 Chr2:659457-659913 4.79e-01 456 Chr2:736678-737003 4.59e-01 325 Chr2:761231-761600 9.87e-03 24_[-2(7.30e-05)]_202_\ [+1(4.21e-05)]_63 Chr2:785359-785588 2.14e-01 229 Chr2:1006150-1006270 3.55e-01 120 Chr2:1060249-1060318 3.40e-01 69 Chr2:1087163-1087477 2.93e-01 314 Chr2:1379343-1379483 4.54e-01 140 Chr2:1380778-1381100 4.86e-01 322 Chr2:1444074-1444387 9.84e-01 313 Chr2:1482671-1482959 3.43e-01 288 Chr2:1644211-1644373 1.35e-01 162 Chr2:1740057-1740094 1.00e+00 37 Chr2:1869465-1869652 1.34e-03 12_[-1(1.78e-05)]_64_[-1(4.76e-05)]_\ 29 Chr2:1903491-1903706 4.74e-01 215 Chr2:2066372-2066969 5.70e-02 448_[-2(2.71e-05)]_110 Chr2:2140670-2140887 5.13e-01 217 Chr2:2259839-2260029 8.22e-01 190 Chr2:2273357-2273487 9.61e-01 130 Chr2:5752498-5752673 4.66e-01 175 Chr2:6058859-6059215 1.90e-01 356 Chr2:6185015-6185103 3.32e-01 88 Chr2:6296990-6297084 6.74e-02 94 Chr2:6298034-6298259 3.46e-02 225 Chr2:6396315-6396411 6.63e-01 96 Chr2:6502594-6502739 4.43e-02 145 Chr2:6676134-6676181 9.93e-01 47 Chr2:6757707-6757977 1.68e-01 270 Chr2:6922654-6922992 7.65e-01 338 Chr2:7048556-7048692 8.15e-01 136 Chr2:7094118-7094267 2.38e-01 149 Chr2:7148688-7149028 5.97e-01 340 Chr2:7154208-7154350 1.04e-16 47_[+1(4.66e-20)]_54 Chr2:7307122-7307257 4.16e-01 135 Chr2:7536703-7536907 8.01e-01 204 Chr2:7558667-7558781 1.81e-01 114 Chr2:7678293-7678478 5.39e-03 89_[-2(6.70e-05)]_57 Chr2:7768067-7768294 4.79e-01 227 Chr2:7883295-7883656 1.17e-02 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