******************************************************************************** MEME - Motif discovery tool ******************************************************************************** MEME version 5.3.3 (Release date: Sun Feb 7 15:39:52 2021 -0800) 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= ../result/final_prediction/GM12878/fasta/RankLinear0.6_10/TCF7.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr13:114520128-11452014 1.0000 20 chr1:26518480-26518500 1.0000 20 chr6:93520796-93520816 1.0000 20 chr1:34833036-34833056 1.0000 20 chr9:27491355-27491375 1.0000 20 chr22:24681316-24681336 1.0000 20 chr2:28809966-28809986 1.0000 20 chr4:186254500-186254520 1.0000 20 chr18:60940956-60940976 1.0000 20 chr7:49406849-49406869 1.0000 20 chr1:181073328-181073348 1.0000 20 chr19:15096072-15096092 1.0000 20 chr9:111943760-111943780 1.0000 20 chr6:110117414-110117434 1.0000 20 chr13:45693946-45693966 1.0000 20 chr3:120063434-120063454 1.0000 20 chr11:33026925-33026945 1.0000 20 chr8:42645538-42645558 1.0000 20 chr18:71681385-71681405 1.0000 20 chr5:81652883-81652903 1.0000 20 chr12:102453318-10245333 1.0000 20 chr15:31495400-31495420 1.0000 20 chr2:144941589-144941609 1.0000 20 chr3:121151162-121151182 1.0000 20 chr15:43026678-43026698 1.0000 20 chr9:140344907-140344927 1.0000 20 chr1:233059876-233059896 1.0000 20 chr3:102067944-102067964 1.0000 20 chr2:75750974-75750994 1.0000 20 chr10:67578949-67578969 1.0000 20 chr7:17208224-17208244 1.0000 20 chr2:97628738-97628758 1.0000 20 chr6:4017490-4017510 1.0000 20 chr11:9723864-9723884 1.0000 20 chr5:66712502-66712522 1.0000 20 chr12:88785556-88785576 1.0000 20 chr5:90245703-90245723 1.0000 20 chr3:169974575-169974595 1.0000 20 chr7:74070923-74070943 1.0000 20 chr6:137685048-137685068 1.0000 20 chr17:58952308-58952328 1.0000 20 chr14:62157781-62157801 1.0000 20 chr13:97668131-97668151 1.0000 20 chr2:227842646-227842666 1.0000 20 chr10:24494973-24494993 1.0000 20 chr8:61978031-61978051 1.0000 20 chr18:59769573-59769593 1.0000 20 chr8:81063730-81063750 1.0000 20 chr21:44834727-44834747 1.0000 20 chr2:144560566-144560586 1.0000 20 chr11:19431790-19431810 1.0000 20 chr3:160698713-160698733 1.0000 20 chr7:86608279-86608299 1.0000 20 chr1:62248562-62248582 1.0000 20 chr6:160497282-160497302 1.0000 20 chr7:71959541-71959561 1.0000 20 chr17:63557667-63557687 1.0000 20 chr2:198901413-198901433 1.0000 20 chr3:164919942-164919962 1.0000 20 chr8:8233050-8233070 1.0000 20 chr6:257231-257251 1.0000 20 chr4:14768845-14768865 1.0000 20 chr7:96734117-96734137 1.0000 20 chr3:120247192-120247212 1.0000 20 chr5:130608602-130608622 1.0000 20 chr12:125093800-12509382 1.0000 20 chr11:36016191-36016211 1.0000 20 chr8:128208221-128208241 1.0000 20 chr17:54502148-54502168 1.0000 20 chr2:64093339-64093359 1.0000 20 chr3:59466288-59466308 1.0000 20 chr12:58881548-58881568 1.0000 20 chr5:124246618-124246638 1.0000 20 chr8:138978456-138978476 1.0000 20 chr5:59822494-59822514 1.0000 20 chr13:60985810-60985830 1.0000 20 chr11:17265727-17265747 1.0000 20 chr6:92429296-92429316 1.0000 20 chr6:49947477-49947497 1.0000 20 chr7:75558101-75558121 1.0000 20 chr16:28198318-28198338 1.0000 20 chr20:17936889-17936909 1.0000 20 chr1:205155449-205155469 1.0000 20 chr17:60242829-60242849 1.0000 20 chr14:54095662-54095682 1.0000 20 chr22:34288123-34288143 1.0000 20 chr5:122133094-122133114 1.0000 20 chr4:36326626-36326646 1.0000 20 chr3:47099048-47099068 1.0000 20 chr7:43804116-43804136 1.0000 20 chr1:72750511-72750531 1.0000 20 chr10:75681933-75681953 1.0000 20 chr18:56486484-56486504 1.0000 20 chrX:117482353-117482373 1.0000 20 chr6:111623223-111623243 1.0000 20 chr12:45241903-45241923 1.0000 20 chr5:156686892-156686912 1.0000 20 chr2:68483068-68483088 1.0000 20 chr3:33038113-33038133 1.0000 20 chr14:52059694-52059714 1.0000 20 chr1:61798681-61798701 1.0000 20 chr15:40156493-40156513 1.0000 20 chr14:102667768-10266778 1.0000 20 chr2:172370561-172370581 1.0000 20 chrX:79923673-79923693 1.0000 20 chr9:114489435-114489455 1.0000 20 chr22:47010431-47010451 1.0000 20 chr22:35948752-35948772 1.0000 20 chr6:112171623-112171643 1.0000 20 chr8:130912540-130912560 1.0000 20 chr2:186181317-186181337 1.0000 20 chr2:45977801-45977821 1.0000 20 chr1:8824783-8824803 1.0000 20 chr10:45947861-45947881 1.0000 20 chr16:23558295-23558315 1.0000 20 chr7:114869945-114869965 1.0000 20 chr1:42272724-42272744 1.0000 20 chr15:65753419-65753439 1.0000 20 chr1:167080014-167080034 1.0000 20 chr6:52400667-52400687 1.0000 20 chr5:49797516-49797536 1.0000 20 chr20:61549619-61549639 1.0000 20 chr6:24392198-24392218 1.0000 20 chr3:128896627-128896647 1.0000 20 chr1:54866190-54866210 1.0000 20 chr5:106904202-106904222 1.0000 20 chr6:31300613-31300633 1.0000 20 chr6:3915495-3915515 1.0000 20 chr15:44269406-44269426 1.0000 20 chr8:119576586-119576606 1.0000 20 chr14:75407258-75407278 1.0000 20 chr16:50730309-50730329 1.0000 20 chr2:64931474-64931494 1.0000 20 chr17:64663785-64663805 1.0000 20 chr20:18184562-18184582 1.0000 20 chr1:160575183-160575203 1.0000 20 chr7:156447738-156447758 1.0000 20 chr6:6800096-6800116 1.0000 20 chr10:89297101-89297121 1.0000 20 chr7:95129070-95129090 1.0000 20 chr19:18037009-18037029 1.0000 20 chr2:42479756-42479776 1.0000 20 chr2:58291458-58291478 1.0000 20 chr8:104348833-104348853 1.0000 20 chr12:49362422-49362442 1.0000 20 chr10:31532034-31532054 1.0000 20 chr15:93767262-93767282 1.0000 20 chr4:16219122-16219142 1.0000 20 chr1:39504579-39504599 1.0000 20 chr2:46789798-46789818 1.0000 20 chr3:26141328-26141348 1.0000 20 chr7:101528376-101528396 1.0000 20 chr10:23281257-23281277 1.0000 20 chr12:782606-782626 1.0000 20 chr8:77631636-77631656 1.0000 20 chr4:94578841-94578861 1.0000 20 chr17:17085535-17085555 1.0000 20 chr2:60772307-60772327 1.0000 20 chr2:212888901-212888921 1.0000 20 chr1:204616857-204616877 1.0000 20 chr3:105493452-105493472 1.0000 20 chr3:137019765-137019785 1.0000 20 chr10:90553711-90553731 1.0000 20 chr10:43913751-43913771 1.0000 20 chr3:158376884-158376904 1.0000 20 chr18:23795787-23795807 1.0000 20 chr6:48387904-48387924 1.0000 20 chr3:152050456-152050476 1.0000 20 chr8:42746983-42747003 1.0000 20 chr10:90522853-90522873 1.0000 20 chr14:51091326-51091346 1.0000 20 chr11:134145477-13414549 1.0000 20 chr11:3980762-3980782 1.0000 20 chr19:36187872-36187892 1.0000 20 chr3:12648808-12648828 1.0000 20 chr4:186359173-186359193 1.0000 20 chr2:175257598-175257618 1.0000 20 chr14:59421749-59421769 1.0000 20 chr18:34076221-34076241 1.0000 20 chr1:174085366-174085386 1.0000 20 chr1:150814336-150814356 1.0000 20 chr1:87574054-87574074 1.0000 20 chr10:44803241-44803261 1.0000 20 chr1:150848674-150848694 1.0000 20 chr6:16162425-16162445 1.0000 20 chr9:112074298-112074318 1.0000 20 chr11:47937177-47937197 1.0000 20 chr13:25192721-25192741 1.0000 20 chr12:104478151-10447817 1.0000 20 chr5:100237795-100237815 1.0000 20 chr14:89791024-89791044 1.0000 20 chrX:83577269-83577289 1.0000 20 chr19:7208275-7208295 1.0000 20 chr10:125047539-12504755 1.0000 20 chr17:63010177-63010197 1.0000 20 chr12:43604463-43604483 1.0000 20 chr14:25142895-25142915 1.0000 20 chr20:45979154-45979174 1.0000 20 chr5:96000530-96000550 1.0000 20 chr1:35971855-35971875 1.0000 20 chr13:25258776-25258796 1.0000 20 chr16:89416498-89416518 1.0000 20 chr2:198080846-198080866 1.0000 20 chr12:117543848-11754386 1.0000 20 chr11:60338560-60338580 1.0000 20 chr13:111074218-11107423 1.0000 20 chr10:35440548-35440568 1.0000 20 chr11:628752-628772 1.0000 20 chr3:24027857-24027877 1.0000 20 chr17:79925995-79926015 1.0000 20 chr4:147267583-147267603 1.0000 20 chr2:136447513-136447533 1.0000 20 chr6:484215-484235 1.0000 20 chr8:28727722-28727742 1.0000 20 chr17:46489077-46489097 1.0000 20 chr15:84649569-84649589 1.0000 20 chr10:27015241-27015261 1.0000 20 chr14:53628633-53628653 1.0000 20 chr22:20025093-20025113 1.0000 20 chr4:170195370-170195390 1.0000 20 chr18:74571550-74571570 1.0000 20 chr8:63655685-63655705 1.0000 20 chr4:109094552-109094572 1.0000 20 chr1:183002527-183002547 1.0000 20 chr3:45919800-45919820 1.0000 20 chr4:39683928-39683948 1.0000 20 chr17:68205623-68205643 1.0000 20 chr7:11652547-11652567 1.0000 20 chr1:51669426-51669446 1.0000 20 chr3:98283699-98283719 1.0000 20 chr5:110733938-110733958 1.0000 20 chr12:104892292-10489231 1.0000 20 chr11:19928817-19928837 1.0000 20 chrX:64942572-64942592 1.0000 20 chr6:5567751-5567771 1.0000 20 chr2:238977833-238977853 1.0000 20 chr6:157050581-157050601 1.0000 20 chr1:55911287-55911307 1.0000 20 chr6:150962182-150962202 1.0000 20 chr3:99929857-99929877 1.0000 20 chr9:106791326-106791346 1.0000 20 chr13:45623244-45623264 1.0000 20 chr6:13715740-13715760 1.0000 20 chr6:41267007-41267027 1.0000 20 chr7:129991083-129991103 1.0000 20 chr21:35956647-35956667 1.0000 20 chr4:86653452-86653472 1.0000 20 chr4:123622365-123622385 1.0000 20 chr1:112060303-112060323 1.0000 20 chr9:102845774-102845794 1.0000 20 ******************************************************************************** ******************************************************************************** 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 ../result/final_prediction/GM12878/inference_raw/MEME/RankLinear0.6_10_TCF7/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/GM12878/fasta/RankLinear0.6_10/TCF7.fasta model: mod= zoops nmotifs= 5 evt= inf objective function: em= E-value of product of p-values starts= E-value of product of p-values strands: + width: minw= 8 maxw= 8 nsites: minsites= 2 maxsites= 250 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= 5000 N= 250 sample: seed= 0 hsfrac= 0 searchsize= 5000 norand= no csites= 1000 Letter frequencies in dataset: A 0.292 C 0.212 G 0.21 T 0.287 Background letter frequencies (from file dataset with add-one prior applied): A 0.292 C 0.212 G 0.21 T 0.287 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF TGATGTGG MEME-1 width = 8 sites = 34 llr = 324 E-value = 2.6e-046 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGATGTGG MEME-1 Description -------------------------------------------------------------------------------- Simplified A ::92:::: pos.-specific C :11:1::: probability G :9::9:aa matrix T a::8:a:: bits 2.3 * 2.0 * ** 1.8 * **** 1.6 ** **** Relative 1.4 *** **** Entropy 1.1 ******** (13.7 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TGATGTGG consensus A sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGATGTGG MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr6:13715740-13715760 4 1.34e-05 cac tgatgtgg ttatcacac chr6:5567751-5567771 10 1.34e-05 GATATTATT TGATGTGG TTT chr3:98283699-98283719 10 1.34e-05 GTTCACCTT TGATGTGG CCC chr3:45919800-45919820 10 1.34e-05 TGATTGTTT TGATGTGG CCA chr5:96000530-96000550 4 1.34e-05 GAT TGATGTGG TAAGAACAA chr3:158376884-158376904 1 1.34e-05 . TGATGTGG GTGAAATAGA chr10:45947861-45947881 13 1.34e-05 ataacacttg tgatgtgg chr14:102667768-10266778 10 1.34e-05 ATGACACTT TGATGTGG TTA chr14:52059694-52059714 12 1.34e-05 GCTCAGTCTT TGATGTGG G chr2:64093339-64093359 6 1.34e-05 attat tgatgtgg tttattt chr5:130608602-130608622 12 1.34e-05 tagcagcatt tgatgtgg t chr6:257231-257251 7 1.34e-05 TCCCCT TGATGTGG CAATTC chr3:160698713-160698733 5 1.34e-05 TACT TGATGTGG TGTACAGG chr5:90245703-90245723 11 1.34e-05 CAGAGTGCTC TGATGTGG TG chr1:233059876-233059896 2 1.34e-05 T TGATGTGG TTAGAGCTTG chr15:31495400-31495420 12 1.34e-05 CCCCAGCCTT TGATGTGG C chr13:45693946-45693966 13 1.34e-05 ctgctgggtt tgatgtgg chr19:15096072-15096092 9 1.34e-05 aCCTCCTT tgatgtgg tttg chr1:34833036-34833056 2 1.34e-05 t tgatgtgg tgtggggtag chr1:55911287-55911307 12 2.71e-05 aagtacaCTT TGAAGTGG C chr8:28727722-28727742 11 2.71e-05 ccaaactgat tgaagtgg tt chr6:16162425-16162445 4 2.71e-05 TTT TGAAGTGG TTTATGGGG chr10:75681933-75681953 4 2.71e-05 CAT TGAAGTGG TTTCCGTTT chr4:36326626-36326646 5 2.71e-05 ACTT TGAAGTGG TCAAGCAC chr6:110117414-110117434 6 2.71e-05 CTCTT TGAAGTGG CTAGAGT chr11:628752-628772 12 3.68e-05 tttgATGTTC TGCTGTGG T chr6:150962182-150962202 12 6.39e-05 TCCTGCCCTT TGATCTGG G chr7:101528376-101528396 9 6.39e-05 CAAGCCTT TCATGTGG CCAA chr11:9723864-9723884 7 6.39e-05 GTGCTT TCATGTGG TTCTTT chr17:58952308-58952328 8 9.07e-05 CAAGCTT TGTTGTGG GTTAC chr16:23558295-23558315 11 1.38e-04 CAAGTCTCTT TAATGTGG TA chr10:24494973-24494993 5 1.38e-04 TGTT TTATGTGG TAGCTCAT chr10:35440548-35440568 13 1.92e-04 tttgatctcc tgaagtgc chrX:64942572-64942592 10 2.50e-04 gcccggccA TGCTCTGG GCT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGATGTGG MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr6:13715740-13715760 1.3e-05 3_[+1]_9 chr6:5567751-5567771 1.3e-05 9_[+1]_3 chr3:98283699-98283719 1.3e-05 9_[+1]_3 chr3:45919800-45919820 1.3e-05 9_[+1]_3 chr5:96000530-96000550 1.3e-05 3_[+1]_9 chr3:158376884-158376904 1.3e-05 [+1]_12 chr10:45947861-45947881 1.3e-05 12_[+1] chr14:102667768-10266778 1.3e-05 9_[+1]_3 chr14:52059694-52059714 1.3e-05 11_[+1]_1 chr2:64093339-64093359 1.3e-05 5_[+1]_7 chr5:130608602-130608622 1.3e-05 11_[+1]_1 chr6:257231-257251 1.3e-05 6_[+1]_6 chr3:160698713-160698733 1.3e-05 4_[+1]_8 chr5:90245703-90245723 1.3e-05 10_[+1]_2 chr1:233059876-233059896 1.3e-05 1_[+1]_11 chr15:31495400-31495420 1.3e-05 11_[+1]_1 chr13:45693946-45693966 1.3e-05 12_[+1] chr19:15096072-15096092 1.3e-05 8_[+1]_4 chr1:34833036-34833056 1.3e-05 1_[+1]_11 chr1:55911287-55911307 2.7e-05 11_[+1]_1 chr8:28727722-28727742 2.7e-05 10_[+1]_2 chr6:16162425-16162445 2.7e-05 3_[+1]_9 chr10:75681933-75681953 2.7e-05 3_[+1]_9 chr4:36326626-36326646 2.7e-05 4_[+1]_8 chr6:110117414-110117434 2.7e-05 5_[+1]_7 chr11:628752-628772 3.7e-05 11_[+1]_1 chr6:150962182-150962202 6.4e-05 11_[+1]_1 chr7:101528376-101528396 6.4e-05 8_[+1]_4 chr11:9723864-9723884 6.4e-05 6_[+1]_6 chr17:58952308-58952328 9.1e-05 7_[+1]_5 chr16:23558295-23558315 0.00014 10_[+1]_2 chr10:24494973-24494993 0.00014 4_[+1]_8 chr10:35440548-35440568 0.00019 12_[+1] chrX:64942572-64942592 0.00025 9_[+1]_3 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGATGTGG MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TGATGTGG width=8 seqs=34 chr6:13715740-13715760 ( 4) TGATGTGG 1 chr6:5567751-5567771 ( 10) TGATGTGG 1 chr3:98283699-98283719 ( 10) TGATGTGG 1 chr3:45919800-45919820 ( 10) TGATGTGG 1 chr5:96000530-96000550 ( 4) TGATGTGG 1 chr3:158376884-158376904 ( 1) TGATGTGG 1 chr10:45947861-45947881 ( 13) TGATGTGG 1 chr14:102667768-10266778 ( 10) TGATGTGG 1 chr14:52059694-52059714 ( 12) TGATGTGG 1 chr2:64093339-64093359 ( 6) TGATGTGG 1 chr5:130608602-130608622 ( 12) TGATGTGG 1 chr6:257231-257251 ( 7) TGATGTGG 1 chr3:160698713-160698733 ( 5) TGATGTGG 1 chr5:90245703-90245723 ( 11) TGATGTGG 1 chr1:233059876-233059896 ( 2) TGATGTGG 1 chr15:31495400-31495420 ( 12) TGATGTGG 1 chr13:45693946-45693966 ( 13) TGATGTGG 1 chr19:15096072-15096092 ( 9) TGATGTGG 1 chr1:34833036-34833056 ( 2) TGATGTGG 1 chr1:55911287-55911307 ( 12) TGAAGTGG 1 chr8:28727722-28727742 ( 11) TGAAGTGG 1 chr6:16162425-16162445 ( 4) TGAAGTGG 1 chr10:75681933-75681953 ( 4) TGAAGTGG 1 chr4:36326626-36326646 ( 5) TGAAGTGG 1 chr6:110117414-110117434 ( 6) TGAAGTGG 1 chr11:628752-628772 ( 12) TGCTGTGG 1 chr6:150962182-150962202 ( 12) TGATCTGG 1 chr7:101528376-101528396 ( 9) TCATGTGG 1 chr11:9723864-9723884 ( 7) TCATGTGG 1 chr17:58952308-58952328 ( 8) TGTTGTGG 1 chr16:23558295-23558315 ( 11) TAATGTGG 1 chr10:24494973-24494993 ( 5) TTATGTGG 1 chr10:35440548-35440568 ( 13) TGAAGTGC 1 chrX:64942572-64942592 ( 10) TGCTCTGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGATGTGG MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 7.93789 E= 2.6e-046 -1173 -1173 -1173 180 -331 -185 207 -328 164 -185 -1173 -328 -50 -1173 -1173 147 -1173 -185 217 -1173 -1173 -1173 -1173 180 -1173 -1173 225 -1173 -1173 -285 221 -1173 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGATGTGG MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 34 E= 2.6e-046 0.000000 0.000000 0.000000 1.000000 0.029412 0.058824 0.882353 0.029412 0.911765 0.058824 0.000000 0.029412 0.205882 0.000000 0.000000 0.794118 0.000000 0.058824 0.941176 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.029412 0.970588 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGATGTGG MEME-1 regular expression -------------------------------------------------------------------------------- TGA[TA]GTGG -------------------------------------------------------------------------------- Time 2.14 secs. ******************************************************************************** ******************************************************************************** MOTIF CCACATCA MEME-2 width = 8 sites = 34 llr = 309 E-value = 3.3e-038 ******************************************************************************** -------------------------------------------------------------------------------- Motif CCACATCA MEME-2 Description -------------------------------------------------------------------------------- Simplified A :1a:91:9 pos.-specific C a9:a:19: probability G ::::::1: matrix T ::::19:1 bits 2.3 * * 2.0 * * 1.8 * * 1.6 **** * Relative 1.4 **** ** Entropy 1.1 ******** (13.1 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CCACATCA consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCACATCA MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr7:129991083-129991103 10 1.44e-05 AAGAGGCTA CCACATCA AAA chr6:41267007-41267027 1 1.44e-05 . ccacatca aaaagttaga chr1:35971855-35971875 5 1.44e-05 GTAA CCACATCA ATCAACTG chr1:150814336-150814356 12 1.44e-05 TTTTAAATAG CCACATCA A chr18:34076221-34076241 13 1.44e-05 CTCTCTTGAA CCACATCA chr3:137019765-137019785 8 1.44e-05 aatcttc ccacatca aaggg chr2:46789798-46789818 12 1.44e-05 GACTCCGTGG CCACATCA A chr2:42479756-42479776 3 1.44e-05 GG CCACATCA AGGAGCTTTT chr6:24392198-24392218 7 1.44e-05 ATCCTC CCACATCA AAGCTG chr2:186181317-186181337 10 1.44e-05 acagccaaa ccacatca AAG chr12:45241903-45241923 13 1.44e-05 TAGGGCATAG CCACATCA chr12:58881548-58881568 13 1.44e-05 GCCACATCAA CCACATCA chr2:227842646-227842666 1 1.44e-05 . CCACATCA AAAAGAGGCT chr7:74070923-74070943 7 1.44e-05 tggaac ccacatca aaagac chr3:120063434-120063454 5 1.44e-05 AAAA CCACATCA AACAGATG chr2:28809966-28809986 5 1.44e-05 TGGC CCACATCA GAAGAGGG chr13:114520128-11452014 13 1.44e-05 CAGGACGCGG CCACATCA chr4:39683928-39683948 2 2.87e-05 g ccacatga aagaggatgt chr2:45977801-45977821 12 2.87e-05 agttttcttc ccacatga a chr7:17208224-17208244 8 2.87e-05 aagaaaa ccacatga aagga chr1:112060303-112060323 1 4.29e-05 . ccacttca aagagctgtg chr12:43604463-43604483 8 4.29e-05 TTAACTC CCACTTCA AAGAA chr12:88785556-88785576 1 4.29e-05 . CCACTTCA TGCTGACATC chr8:81063730-81063750 1 5.36e-05 . ccacacca aagtgagtca chr1:51669426-51669446 5 7.35e-05 TACC CAACATCA AAGACCTG chr16:89416498-89416518 12 7.35e-05 aaaagacaag caacatca t chr6:48387904-48387924 9 8.76e-05 TCGTGGTT CCACATCT CAAC chr8:130912540-130912560 12 1.02e-04 TTAAGTACCA CCACAACA A chr2:97628738-97628758 9 1.13e-04 CAAAACCA CCACCTCA AAGT chr13:111074218-11107423 12 1.23e-04 AGCCACTTTC CCCCATCA A chr17:79925995-79926015 4 1.38e-04 CAG CGACATCA AAGAggggc chr8:8233050-8233070 6 1.96e-04 CCTAA CCACATGT AAAACTT chr8:42645538-42645558 2 2.10e-04 g ccacaaga aagcaatcac chr21:35956647-35956667 2 3.04e-04 C CAACACCA GAGTATTTCT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCACATCA MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr7:129991083-129991103 1.4e-05 9_[+2]_3 chr6:41267007-41267027 1.4e-05 [+2]_12 chr1:35971855-35971875 1.4e-05 4_[+2]_8 chr1:150814336-150814356 1.4e-05 11_[+2]_1 chr18:34076221-34076241 1.4e-05 12_[+2] chr3:137019765-137019785 1.4e-05 7_[+2]_5 chr2:46789798-46789818 1.4e-05 11_[+2]_1 chr2:42479756-42479776 1.4e-05 2_[+2]_10 chr6:24392198-24392218 1.4e-05 6_[+2]_6 chr2:186181317-186181337 1.4e-05 9_[+2]_3 chr12:45241903-45241923 1.4e-05 12_[+2] chr12:58881548-58881568 1.4e-05 12_[+2] chr2:227842646-227842666 1.4e-05 [+2]_12 chr7:74070923-74070943 1.4e-05 6_[+2]_6 chr3:120063434-120063454 1.4e-05 4_[+2]_8 chr2:28809966-28809986 1.4e-05 4_[+2]_8 chr13:114520128-11452014 1.4e-05 12_[+2] chr4:39683928-39683948 2.9e-05 1_[+2]_11 chr2:45977801-45977821 2.9e-05 11_[+2]_1 chr7:17208224-17208244 2.9e-05 7_[+2]_5 chr1:112060303-112060323 4.3e-05 [+2]_12 chr12:43604463-43604483 4.3e-05 7_[+2]_5 chr12:88785556-88785576 4.3e-05 [+2]_12 chr8:81063730-81063750 5.4e-05 [+2]_12 chr1:51669426-51669446 7.3e-05 4_[+2]_8 chr16:89416498-89416518 7.3e-05 11_[+2]_1 chr6:48387904-48387924 8.8e-05 8_[+2]_4 chr8:130912540-130912560 0.0001 11_[+2]_1 chr2:97628738-97628758 0.00011 8_[+2]_4 chr13:111074218-11107423 0.00012 11_[+2]_1 chr17:79925995-79926015 0.00014 3_[+2]_9 chr8:8233050-8233070 0.0002 5_[+2]_7 chr8:42645538-42645558 0.00021 1_[+2]_11 chr21:35956647-35956667 0.0003 1_[+2]_11 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCACATCA MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CCACATCA width=8 seqs=34 chr7:129991083-129991103 ( 10) CCACATCA 1 chr6:41267007-41267027 ( 1) CCACATCA 1 chr1:35971855-35971875 ( 5) CCACATCA 1 chr1:150814336-150814356 ( 12) CCACATCA 1 chr18:34076221-34076241 ( 13) CCACATCA 1 chr3:137019765-137019785 ( 8) CCACATCA 1 chr2:46789798-46789818 ( 12) CCACATCA 1 chr2:42479756-42479776 ( 3) CCACATCA 1 chr6:24392198-24392218 ( 7) CCACATCA 1 chr2:186181317-186181337 ( 10) CCACATCA 1 chr12:45241903-45241923 ( 13) CCACATCA 1 chr12:58881548-58881568 ( 13) CCACATCA 1 chr2:227842646-227842666 ( 1) CCACATCA 1 chr7:74070923-74070943 ( 7) CCACATCA 1 chr3:120063434-120063454 ( 5) CCACATCA 1 chr2:28809966-28809986 ( 5) CCACATCA 1 chr13:114520128-11452014 ( 13) CCACATCA 1 chr4:39683928-39683948 ( 2) CCACATGA 1 chr2:45977801-45977821 ( 12) CCACATGA 1 chr7:17208224-17208244 ( 8) CCACATGA 1 chr1:112060303-112060323 ( 1) CCACTTCA 1 chr12:43604463-43604483 ( 8) CCACTTCA 1 chr12:88785556-88785576 ( 1) CCACTTCA 1 chr8:81063730-81063750 ( 1) CCACACCA 1 chr1:51669426-51669446 ( 5) CAACATCA 1 chr16:89416498-89416518 ( 12) CAACATCA 1 chr6:48387904-48387924 ( 9) CCACATCT 1 chr8:130912540-130912560 ( 12) CCACAACA 1 chr2:97628738-97628758 ( 9) CCACCTCA 1 chr13:111074218-11107423 ( 12) CCCCATCA 1 chr17:79925995-79926015 ( 4) CGACATCA 1 chr8:8233050-8233070 ( 6) CCACATGT 1 chr8:42645538-42645558 ( 2) CCACAAGA 1 chr21:35956647-35956667 ( 2) CAACACCA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCACATCA MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 7.93789 E= 3.3e-038 -1173 224 -1173 -1173 -172 206 -283 -1173 173 -285 -1173 -1173 -1173 224 -1173 -1173 160 -285 -1173 -170 -231 -185 -1173 162 -1173 201 -51 -1173 169 -1173 -1173 -228 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCACATCA MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 34 E= 3.3e-038 0.000000 1.000000 0.000000 0.000000 0.088235 0.882353 0.029412 0.000000 0.970588 0.029412 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.882353 0.029412 0.000000 0.088235 0.058824 0.058824 0.000000 0.882353 0.000000 0.852941 0.147059 0.000000 0.941176 0.000000 0.000000 0.058824 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCACATCA MEME-2 regular expression -------------------------------------------------------------------------------- CCACATCA -------------------------------------------------------------------------------- Time 2.89 secs. ******************************************************************************** ******************************************************************************** MOTIF CTTTGATS MEME-3 width = 8 sites = 21 llr = 172 E-value = 2.0e-007 ******************************************************************************** -------------------------------------------------------------------------------- Motif CTTTGATS MEME-3 Description -------------------------------------------------------------------------------- Simplified A :::::a1: pos.-specific C 9:::1::6 probability G ::::8::4 matrix T 1aaa::9: bits 2.3 2.0 1.8 * 1.6 **** * Relative 1.4 ****** * Entropy 1.1 ******** (11.8 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CTTTGATC consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTTGATS MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr18:74571550-74571570 3 1.87e-05 at ctttgatc tttaaccaca chr10:35440548-35440568 2 1.87e-05 g ctttgatc tcctgaagtg chr10:31532034-31532054 5 1.87e-05 GGCC CTTTGATC TGCCCACC chrX:117482353-117482373 11 1.87e-05 TTCTCAAGCA CTTTGATC CT chr17:54502148-54502168 11 1.87e-05 CAGAGTATTT CTTTGATC TC chr5:66712502-66712522 4 1.87e-05 TTT CTTTGATC TTCTGTGGC chr11:628752-628772 1 3.72e-05 . ctttgATG TTCTGCTGTG chr3:59466288-59466308 5 3.72e-05 CTGC CTTTGATG TTTTTTTG chr5:122133094-122133114 7 7.51e-05 CTTTAG CTTTCATC TTAAAC chr13:60985810-60985830 3 7.51e-05 tc ctttcatc ttattgcttt chr9:111943760-111943780 4 1.00e-04 ccc ttttgatc cttgcccca chr13:45623244-45623264 2 1.38e-04 T CTTTCATG TTCTTAGCCC chr13:25192721-25192741 5 1.38e-04 aagt ctttgaag tctctgca chr3:152050456-152050476 6 1.38e-04 TTTCT CTTTGAAG TTTTCAT chr9:27491355-27491375 5 1.38e-04 GAGG CTTTGAAG TTGTGCAA chr2:238977833-238977853 3 1.63e-04 TT TTTTGATG TTAGCCACAA chr17:17085535-17085555 11 1.63e-04 CAGTGGTGTT TTTTGATG TG chr17:46489077-46489097 2 1.91e-04 t ctgtgatc ttcctcctca chr9:140344907-140344927 4 1.91e-04 tcc ccttgatc tcccccacc chr10:90522853-90522873 10 2.62e-04 TCTCTCCCT CTTTTATC TCC chr22:35948752-35948772 11 2.80e-04 GACAGTTGTG CTTTGTTG TG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTTGATS MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr18:74571550-74571570 1.9e-05 2_[+3]_10 chr10:35440548-35440568 1.9e-05 1_[+3]_11 chr10:31532034-31532054 1.9e-05 4_[+3]_8 chrX:117482353-117482373 1.9e-05 10_[+3]_2 chr17:54502148-54502168 1.9e-05 10_[+3]_2 chr5:66712502-66712522 1.9e-05 3_[+3]_9 chr11:628752-628772 3.7e-05 [+3]_12 chr3:59466288-59466308 3.7e-05 4_[+3]_8 chr5:122133094-122133114 7.5e-05 6_[+3]_6 chr13:60985810-60985830 7.5e-05 2_[+3]_10 chr9:111943760-111943780 0.0001 3_[+3]_9 chr13:45623244-45623264 0.00014 1_[+3]_11 chr13:25192721-25192741 0.00014 4_[+3]_8 chr3:152050456-152050476 0.00014 5_[+3]_7 chr9:27491355-27491375 0.00014 4_[+3]_8 chr2:238977833-238977853 0.00016 2_[+3]_10 chr17:17085535-17085555 0.00016 10_[+3]_2 chr17:46489077-46489097 0.00019 1_[+3]_11 chr9:140344907-140344927 0.00019 3_[+3]_9 chr10:90522853-90522873 0.00026 9_[+3]_3 chr22:35948752-35948772 0.00028 10_[+3]_2 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTTGATS MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CTTTGATS width=8 seqs=21 chr18:74571550-74571570 ( 3) CTTTGATC 1 chr10:35440548-35440568 ( 2) CTTTGATC 1 chr10:31532034-31532054 ( 5) CTTTGATC 1 chrX:117482353-117482373 ( 11) CTTTGATC 1 chr17:54502148-54502168 ( 11) CTTTGATC 1 chr5:66712502-66712522 ( 4) CTTTGATC 1 chr11:628752-628772 ( 1) CTTTGATG 1 chr3:59466288-59466308 ( 5) CTTTGATG 1 chr5:122133094-122133114 ( 7) CTTTCATC 1 chr13:60985810-60985830 ( 3) CTTTCATC 1 chr9:111943760-111943780 ( 4) TTTTGATC 1 chr13:45623244-45623264 ( 2) CTTTCATG 1 chr13:25192721-25192741 ( 5) CTTTGAAG 1 chr3:152050456-152050476 ( 6) CTTTGAAG 1 chr9:27491355-27491375 ( 5) CTTTGAAG 1 chr2:238977833-238977853 ( 3) TTTTGATG 1 chr17:17085535-17085555 ( 11) TTTTGATG 1 chr17:46489077-46489097 ( 2) CTGTGATC 1 chr9:140344907-140344927 ( 4) CCTTGATC 1 chr10:90522853-90522873 ( 10) CTTTTATC 1 chr22:35948752-35948772 ( 11) CTTTGTTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTTGATS MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 8.77541 E= 2.0e-007 -1104 201 -1104 -100 -1104 -215 -1104 173 -1104 -1104 -214 173 -1104 -1104 -1104 180 -1104 -57 195 -259 171 -1104 -1104 -259 -103 -1104 -1104 158 -1104 143 103 -1104 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTTGATS MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 21 E= 2.0e-007 0.000000 0.857143 0.000000 0.142857 0.000000 0.047619 0.000000 0.952381 0.000000 0.000000 0.047619 0.952381 0.000000 0.000000 0.000000 1.000000 0.000000 0.142857 0.809524 0.047619 0.952381 0.000000 0.000000 0.047619 0.142857 0.000000 0.000000 0.857143 0.000000 0.571429 0.428571 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTTGATS MEME-3 regular expression -------------------------------------------------------------------------------- CTTTGAT[CG] -------------------------------------------------------------------------------- Time 3.60 secs. ******************************************************************************** ******************************************************************************** MOTIF CATCAAAG MEME-4 width = 8 sites = 22 llr = 174 E-value = 3.3e-005 ******************************************************************************** -------------------------------------------------------------------------------- Motif CATCAAAG MEME-4 Description -------------------------------------------------------------------------------- Simplified A :71:aaa1 pos.-specific C 7::8:::: probability G 3::2:::9 matrix T :39::::: bits 2.3 2.0 1.8 ** 1.6 ***** Relative 1.4 ***** Entropy 1.1 * ****** (11.4 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CATCAAAG consensus GT G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CATCAAAG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr10:23281257-23281277 1 1.97e-05 . CATCAAAG AGAATTCTGA chr4:86653452-86653472 13 3.90e-05 GGGAATCATA CTTCAAAG chr4:170195370-170195390 12 3.90e-05 cctcccaaga cttcaaag g chr15:84649569-84649589 6 3.90e-05 CCAGA CTTCAAAG GGCTCAT chr5:100237795-100237815 10 3.90e-05 CTGGGTAAA CTTCAAAG ACA chr12:125093800-12509382 3 3.90e-05 GA CTTCAAAG GAAAGCGCCG chr19:7208275-7208295 5 5.86e-05 TAAA GATCAAAG GTGTTTCT chr19:36187872-36187892 10 5.86e-05 TTTTCCAGA GATCAAAG CTT chr15:43026678-43026698 7 5.86e-05 GCCAAG GATCAAAG ATAATG chr8:119576586-119576606 1 7.81e-05 . CATGAAAG TAAACGGAAG chr11:36016191-36016211 1 7.81e-05 . catgaaag acttctctgt chr2:144941589-144941609 3 7.81e-05 CA CATGAAAG GAGACATTTA chr14:51091326-51091346 6 9.72e-05 ttgaa gttcaaag agacaca chr10:43913751-43913771 2 1.17e-04 a caacaaag gctcttctgc chr1:167080014-167080034 2 1.17e-04 A CAACAAAG ACTGACTGGC chr2:68483068-68483088 3 1.36e-04 CA CTTGAAAG CAATGTCTGT chr15:40156493-40156513 2 1.83e-04 A CATCAAAA GGGCTGTATc chr3:120247192-120247212 2 2.17e-04 a catcaagg cttagaaatg chr1:204616857-204616877 10 2.37e-04 CAGTATCAA GAACAAAG ACC chr6:111623223-111623243 8 3.09e-04 CTATATT TATCAAAG GGTTT chr11:19928817-19928837 4 3.37e-04 TCA GATCAAAA GTCTGAAGC chr2:64931474-64931494 3 3.97e-04 AA CATGAAAA GCTTCGTACT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CATCAAAG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr10:23281257-23281277 2e-05 [+4]_12 chr4:86653452-86653472 3.9e-05 12_[+4] chr4:170195370-170195390 3.9e-05 11_[+4]_1 chr15:84649569-84649589 3.9e-05 5_[+4]_7 chr5:100237795-100237815 3.9e-05 9_[+4]_3 chr12:125093800-12509382 3.9e-05 2_[+4]_10 chr19:7208275-7208295 5.9e-05 4_[+4]_8 chr19:36187872-36187892 5.9e-05 9_[+4]_3 chr15:43026678-43026698 5.9e-05 6_[+4]_6 chr8:119576586-119576606 7.8e-05 [+4]_12 chr11:36016191-36016211 7.8e-05 [+4]_12 chr2:144941589-144941609 7.8e-05 2_[+4]_10 chr14:51091326-51091346 9.7e-05 5_[+4]_7 chr10:43913751-43913771 0.00012 1_[+4]_11 chr1:167080014-167080034 0.00012 1_[+4]_11 chr2:68483068-68483088 0.00014 2_[+4]_10 chr15:40156493-40156513 0.00018 1_[+4]_11 chr3:120247192-120247212 0.00022 1_[+4]_11 chr1:204616857-204616877 0.00024 9_[+4]_3 chr6:111623223-111623243 0.00031 7_[+4]_5 chr11:19928817-19928837 0.00034 3_[+4]_9 chr2:64931474-64931494 0.0004 2_[+4]_10 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CATCAAAG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CATCAAAG width=8 seqs=22 chr10:23281257-23281277 ( 1) CATCAAAG 1 chr4:86653452-86653472 ( 13) CTTCAAAG 1 chr4:170195370-170195390 ( 12) CTTCAAAG 1 chr15:84649569-84649589 ( 6) CTTCAAAG 1 chr5:100237795-100237815 ( 10) CTTCAAAG 1 chr12:125093800-12509382 ( 3) CTTCAAAG 1 chr19:7208275-7208295 ( 5) GATCAAAG 1 chr19:36187872-36187892 ( 10) GATCAAAG 1 chr15:43026678-43026698 ( 7) GATCAAAG 1 chr8:119576586-119576606 ( 1) CATGAAAG 1 chr11:36016191-36016211 ( 1) CATGAAAG 1 chr2:144941589-144941609 ( 3) CATGAAAG 1 chr14:51091326-51091346 ( 6) GTTCAAAG 1 chr10:43913751-43913771 ( 2) CAACAAAG 1 chr1:167080014-167080034 ( 2) CAACAAAG 1 chr2:68483068-68483088 ( 3) CTTGAAAG 1 chr15:40156493-40156513 ( 2) CATCAAAA 1 chr3:120247192-120247212 ( 2) CATCAAGG 1 chr1:204616857-204616877 ( 10) GAACAAAG 1 chr6:111623223-111623243 ( 8) TATCAAAG 1 chr11:19928817-19928837 ( 4) GATCAAAA 1 chr2:64931474-64931494 ( 3) CATGAAAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CATCAAAG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 6.74595 E= 3.3e-005 -1110 168 38 -265 123 -1110 -1110 15 -110 -1110 -1110 159 -1110 187 12 -1110 178 -1110 -1110 -1110 178 -1110 -1110 -1110 171 -1110 -220 -1110 -110 -1110 204 -1110 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CATCAAAG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 22 E= 3.3e-005 0.000000 0.681818 0.272727 0.045455 0.681818 0.000000 0.000000 0.318182 0.136364 0.000000 0.000000 0.863636 0.000000 0.772727 0.227273 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.954545 0.000000 0.045455 0.000000 0.136364 0.000000 0.863636 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CATCAAAG MEME-4 regular expression -------------------------------------------------------------------------------- [CG][AT]T[CG]AAAG -------------------------------------------------------------------------------- Time 6.67 secs. ******************************************************************************** ******************************************************************************** MOTIF AATGDGTG MEME-5 width = 8 sites = 7 llr = 65 E-value = 2.7e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif AATGDGTG MEME-5 Description -------------------------------------------------------------------------------- Simplified A a9::3::: pos.-specific C :::::::: probability G :1:a4a1a matrix T ::a:3:9: bits 2.3 * * * 2.0 * * * 1.8 * ** * * 1.6 * ** * * Relative 1.4 **** *** Entropy 1.1 **** *** (13.3 bits) 0.9 **** *** 0.7 **** *** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel AATGGGTG consensus A sequence T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AATGDGTG MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr10:89297101-89297121 9 1.37e-05 accattct aatgggtg tgta chr12:117543848-11754386 11 5.13e-05 TCAAACAAGC AATGTGTG GT chr1:39504579-39504599 4 5.13e-05 cat aatgagtg aacagaccg chr8:128208221-128208241 3 5.13e-05 ag aatgagtg gtcaaccaca chr4:186254500-186254520 10 5.13e-05 CACTTTCTG AATGTGTG TTT chr13:25258776-25258796 4 7.11e-05 gtt agtggGTG GAGcccaca chr1:205155449-205155469 7 7.11e-05 AGAGAG AATGGGGG CTTGTT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AATGDGTG MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr10:89297101-89297121 1.4e-05 8_[+5]_4 chr12:117543848-11754386 5.1e-05 10_[+5]_2 chr1:39504579-39504599 5.1e-05 3_[+5]_9 chr8:128208221-128208241 5.1e-05 2_[+5]_10 chr4:186254500-186254520 5.1e-05 9_[+5]_3 chr13:25258776-25258796 7.1e-05 3_[+5]_9 chr1:205155449-205155469 7.1e-05 6_[+5]_6 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AATGDGTG MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF AATGDGTG width=8 seqs=7 chr10:89297101-89297121 ( 9) AATGGGTG 1 chr12:117543848-11754386 ( 11) AATGTGTG 1 chr1:39504579-39504599 ( 4) AATGAGTG 1 chr8:128208221-128208241 ( 3) AATGAGTG 1 chr4:186254500-186254520 ( 10) AATGTGTG 1 chr13:25258776-25258796 ( 4) AGTGGGTG 1 chr1:205155449-205155469 ( 7) AATGGGGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AATGDGTG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 8.69928 E= 2.7e+003 178 -945 -945 -945 155 -945 -55 -945 -945 -945 -945 180 -945 -945 225 -945 -3 -945 103 -1 -945 -945 225 -945 -945 -945 -55 158 -945 -945 225 -945 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AATGDGTG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 7 E= 2.7e+003 1.000000 0.000000 0.000000 0.000000 0.857143 0.000000 0.142857 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.285714 0.000000 0.428571 0.285714 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.142857 0.857143 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AATGDGTG MEME-5 regular expression -------------------------------------------------------------------------------- AATG[GAT]GTG -------------------------------------------------------------------------------- Time 9.45 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr13:114520128-11452014 4.63e-02 12_[+2(1.44e-05)] chr1:26518480-26518500 7.27e-01 20 chr6:93520796-93520816 3.55e-02 20 chr1:34833036-34833056 4.51e-03 1_[+1(1.34e-05)]_11 chr9:27491355-27491375 1.86e-03 20 chr22:24681316-24681336 9.01e-01 20 chr2:28809966-28809986 6.78e-04 4_[+2(1.44e-05)]_8 chr4:186254500-186254520 1.62e-02 9_[+5(5.13e-05)]_3 chr18:60940956-60940976 4.01e-01 20 chr7:49406849-49406869 5.80e-01 20 chr1:181073328-181073348 5.57e-01 20 chr19:15096072-15096092 5.12e-05 8_[+1(1.34e-05)]_4 chr9:111943760-111943780 9.29e-02 20 chr6:110117414-110117434 9.66e-05 5_[+1(2.71e-05)]_7 chr13:45693946-45693966 2.99e-03 12_[+1(1.34e-05)] chr3:120063434-120063454 3.12e-03 4_[+2(1.44e-05)]_8 chr11:33026925-33026945 7.10e-01 20 chr8:42645538-42645558 1.06e-02 20 chr18:71681385-71681405 5.70e-01 20 chr5:81652883-81652903 2.21e-01 20 chr12:102453318-10245333 4.87e-01 20 chr15:31495400-31495420 3.65e-05 11_[+1(1.34e-05)]_1 chr2:144941589-144941609 7.42e-02 2_[+4(7.81e-05)]_10 chr3:121151162-121151182 7.37e-01 20 chr15:43026678-43026698 1.16e-01 6_[+4(5.86e-05)]_6 chr9:140344907-140344927 3.01e-03 20 chr1:233059876-233059896 2.04e-02 1_[+1(1.34e-05)]_11 chr3:102067944-102067964 5.13e-01 20 chr2:75750974-75750994 9.05e-01 20 chr10:67578949-67578969 6.53e-01 20 chr7:17208224-17208244 4.27e-04 7_[+2(2.87e-05)]_5 chr2:97628738-97628758 1.85e-02 20 chr6:4017490-4017510 6.69e-01 20 chr11:9723864-9723884 6.08e-04 6_[+1(6.39e-05)]_6 chr5:66712502-66712522 8.27e-04 3_[+3(1.87e-05)]_9 chr12:88785556-88785576 8.41e-03 [+2(4.29e-05)]_12 chr5:90245703-90245723 2.39e-03 10_[+1(1.34e-05)]_2 chr3:169974575-169974595 3.69e-01 20 chr7:74070923-74070943 6.86e-04 6_[+2(1.44e-05)]_6 chr6:137685048-137685068 2.93e-01 20 chr17:58952308-58952328 9.70e-04 7_[+1(9.07e-05)]_5 chr14:62157781-62157801 4.50e-01 20 chr13:97668131-97668151 4.67e-02 20 chr2:227842646-227842666 1.36e-04 [+2(1.44e-05)]_12 chr10:24494973-24494993 2.25e-02 20 chr8:61978031-61978051 1.81e-01 20 chr18:59769573-59769593 6.97e-01 20 chr8:81063730-81063750 7.22e-04 [+2(5.36e-05)]_12 chr21:44834727-44834747 5.53e-01 20 chr2:144560566-144560586 9.59e-01 20 chr11:19431790-19431810 3.59e-01 20 chr3:160698713-160698733 3.29e-03 4_[+1(1.34e-05)]_8 chr7:86608279-86608299 2.97e-01 20 chr1:62248562-62248582 5.04e-01 20 chr6:160497282-160497302 5.66e-01 20 chr7:71959541-71959561 4.24e-01 20 chr17:63557667-63557687 5.77e-01 20 chr2:198901413-198901433 2.27e-01 20 chr3:164919942-164919962 1.25e-01 20 chr8:8233050-8233070 6.77e-02 20 chr6:257231-257251 6.63e-06 6_[+1(1.34e-05)]_6 chr4:14768845-14768865 6.90e-01 20 chr7:96734117-96734137 3.41e-01 20 chr3:120247192-120247212 9.85e-02 20 chr5:130608602-130608622 1.26e-03 11_[+1(1.34e-05)]_1 chr12:125093800-12509382 3.15e-02 2_[+4(3.90e-05)]_10 chr11:36016191-36016211 3.58e-03 [+4(7.81e-05)]_12 chr8:128208221-128208241 1.37e-03 2_[+5(5.13e-05)]_10 chr17:54502148-54502168 4.33e-02 10_[+3(1.87e-05)]_2 chr2:64093339-64093359 3.89e-03 5_[+1(1.34e-05)]_7 chr3:59466288-59466308 2.09e-02 4_[+3(3.72e-05)]_8 chr12:58881548-58881568 2.11e-02 3_[+2(1.44e-05)]_1_[+2(1.44e-05)] chr5:124246618-124246638 2.44e-01 20 chr8:138978456-138978476 8.52e-01 20 chr5:59822494-59822514 7.91e-01 20 chr13:60985810-60985830 6.56e-02 2_[+3(7.51e-05)]_10 chr11:17265727-17265747 6.46e-01 20 chr6:92429296-92429316 8.31e-01 20 chr6:49947477-49947497 3.91e-01 20 chr7:75558101-75558121 5.41e-01 20 chr16:28198318-28198338 9.58e-01 20 chr20:17936889-17936909 5.90e-01 20 chr1:205155449-205155469 7.61e-02 6_[+5(7.11e-05)]_6 chr17:60242829-60242849 7.28e-02 20 chr14:54095662-54095682 3.92e-01 20 chr22:34288123-34288143 3.76e-01 20 chr5:122133094-122133114 4.14e-02 6_[+3(7.51e-05)]_6 chr4:36326626-36326646 2.42e-04 4_[+1(2.71e-05)]_8 chr3:47099048-47099068 5.47e-01 20 chr7:43804116-43804136 3.63e-01 20 chr1:72750511-72750531 1.96e-01 20 chr10:75681933-75681953 2.10e-03 3_[+1(2.71e-05)]_9 chr18:56486484-56486504 1.25e-01 20 chrX:117482353-117482373 1.84e-02 10_[+3(1.87e-05)]_2 chr6:111623223-111623243 1.20e-02 20 chr12:45241903-45241923 4.77e-02 12_[+2(1.44e-05)] chr5:156686892-156686912 2.90e-01 20 chr2:68483068-68483088 6.96e-03 20 chr3:33038113-33038133 7.91e-03 20 chr14:52059694-52059714 1.13e-05 11_[+1(1.34e-05)]_1 chr1:61798681-61798701 3.85e-01 20 chr15:40156493-40156513 1.63e-02 20 chr14:102667768-10266778 2.74e-05 9_[+1(1.34e-05)]_3 chr2:172370561-172370581 6.05e-01 20 chrX:79923673-79923693 6.41e-01 20 chr9:114489435-114489455 8.64e-01 20 chr22:47010431-47010451 4.43e-01 20 chr22:35948752-35948772 5.08e-02 20 chr6:112171623-112171643 3.69e-01 20 chr8:130912540-130912560 2.23e-02 20 chr2:186181317-186181337 1.86e-04 9_[+2(1.44e-05)]_3 chr2:45977801-45977821 2.97e-03 11_[+2(2.87e-05)]_1 chr1:8824783-8824803 8.12e-01 20 chr10:45947861-45947881 3.65e-04 12_[+1(1.34e-05)] chr16:23558295-23558315 1.36e-03 20 chr7:114869945-114869965 5.28e-01 20 chr1:42272724-42272744 8.88e-01 20 chr15:65753419-65753439 6.08e-01 20 chr1:167080014-167080034 2.52e-02 20 chr6:52400667-52400687 8.07e-01 20 chr5:49797516-49797536 7.82e-01 20 chr20:61549619-61549639 2.93e-01 20 chr6:24392198-24392218 1.13e-04 6_[+2(1.44e-05)]_6 chr3:128896627-128896647 6.78e-01 20 chr1:54866190-54866210 9.45e-02 20 chr5:106904202-106904222 2.20e-01 20 chr6:31300613-31300633 5.13e-02 20 chr6:3915495-3915515 5.75e-01 20 chr15:44269406-44269426 8.42e-01 20 chr8:119576586-119576606 6.82e-02 [+4(7.81e-05)]_12 chr14:75407258-75407278 9.94e-01 20 chr16:50730309-50730329 7.28e-01 20 chr2:64931474-64931494 7.21e-02 20 chr17:64663785-64663805 7.60e-01 20 chr20:18184562-18184582 2.40e-01 20 chr1:160575183-160575203 4.54e-01 20 chr7:156447738-156447758 5.69e-01 20 chr6:6800096-6800116 6.91e-01 20 chr10:89297101-89297121 5.38e-03 8_[+5(1.37e-05)]_4 chr7:95129070-95129090 5.64e-01 20 chr19:18037009-18037029 3.95e-01 20 chr2:42479756-42479776 2.65e-04 2_[+2(1.44e-05)]_10 chr2:58291458-58291478 6.39e-01 20 chr8:104348833-104348853 1.39e-01 20 chr12:49362422-49362442 7.89e-01 20 chr10:31532034-31532054 5.00e-04 4_[+3(1.87e-05)]_8 chr15:93767262-93767282 6.16e-01 20 chr4:16219122-16219142 8.84e-02 20 chr1:39504579-39504599 2.12e-02 3_[+5(5.13e-05)]_9 chr2:46789798-46789818 1.39e-02 11_[+2(1.44e-05)]_1 chr3:26141328-26141348 8.87e-01 20 chr7:101528376-101528396 4.77e-04 8_[+1(6.39e-05)]_4 chr10:23281257-23281277 2.22e-02 [+4(1.97e-05)]_12 chr12:782606-782626 5.79e-02 20 chr8:77631636-77631656 1.90e-01 20 chr4:94578841-94578861 8.25e-01 20 chr17:17085535-17085555 8.15e-02 20 chr2:60772307-60772327 6.51e-01 20 chr2:212888901-212888921 6.42e-01 20 chr1:204616857-204616877 4.89e-02 20 chr3:105493452-105493472 3.24e-01 20 chr3:137019765-137019785 5.10e-05 7_[+2(1.44e-05)]_5 chr10:90553711-90553731 9.08e-01 20 chr10:43913751-43913771 4.43e-03 20 chr3:158376884-158376904 1.83e-03 [+1(1.34e-05)]_12 chr18:23795787-23795807 4.70e-01 20 chr6:48387904-48387924 5.24e-02 8_[+2(8.76e-05)]_4 chr3:152050456-152050476 3.54e-02 20 chr8:42746983-42747003 1.15e-01 20 chr10:90522853-90522873 5.93e-02 20 chr14:51091326-51091346 1.49e-02 5_[+4(9.72e-05)]_7 chr11:134145477-13414549 3.69e-01 20 chr11:3980762-3980782 7.84e-01 20 chr19:36187872-36187892 2.14e-02 9_[+4(5.86e-05)]_3 chr3:12648808-12648828 5.55e-01 20 chr4:186359173-186359193 4.89e-01 20 chr2:175257598-175257618 3.53e-01 20 chr14:59421749-59421769 1.82e-01 20 chr18:34076221-34076241 1.57e-03 12_[+2(1.44e-05)] chr1:174085366-174085386 5.76e-01 20 chr1:150814336-150814356 5.79e-03 11_[+2(1.44e-05)]_1 chr1:87574054-87574074 1.38e-01 20 chr10:44803241-44803261 5.41e-02 20 chr1:150848674-150848694 4.89e-01 20 chr6:16162425-16162445 3.28e-04 3_[+1(2.71e-05)]_9 chr9:112074298-112074318 9.87e-01 20 chr11:47937177-47937197 7.47e-01 20 chr13:25192721-25192741 1.77e-02 20 chr12:104478151-10447817 4.50e-01 20 chr5:100237795-100237815 5.64e-03 9_[+4(3.90e-05)]_3 chr14:89791024-89791044 4.69e-01 20 chrX:83577269-83577289 5.36e-01 20 chr19:7208275-7208295 1.81e-02 4_[+4(5.86e-05)]_8 chr10:125047539-12504755 9.11e-01 20 chr17:63010177-63010197 6.62e-01 20 chr12:43604463-43604483 1.36e-04 10_[+4(3.90e-05)]_2 chr14:25142895-25142915 5.37e-01 20 chr20:45979154-45979174 2.85e-01 20 chr5:96000530-96000550 3.27e-03 3_[+1(1.34e-05)]_9 chr1:35971855-35971875 1.98e-02 4_[+2(1.44e-05)]_8 chr13:25258776-25258796 2.64e-02 3_[+5(7.11e-05)]_9 chr16:89416498-89416518 1.15e-01 11_[+2(7.35e-05)]_1 chr2:198080846-198080866 3.30e-01 20 chr12:117543848-11754386 2.38e-02 10_[+5(5.13e-05)]_2 chr11:60338560-60338580 7.40e-01 20 chr13:111074218-11107423 1.36e-01 20 chr10:35440548-35440568 4.67e-04 1_[+3(1.87e-05)]_11 chr11:628752-628772 4.18e-04 [+3(3.72e-05)]_3_[+1(3.68e-05)]_1 chr3:24027857-24027877 4.62e-01 20 chr17:79925995-79926015 2.51e-05 6_[+4(1.97e-05)]_6 chr4:147267583-147267603 3.96e-01 20 chr2:136447513-136447533 8.84e-01 20 chr6:484215-484235 5.31e-01 20 chr8:28727722-28727742 1.68e-03 10_[+1(2.71e-05)]_2 chr17:46489077-46489097 8.88e-03 20 chr15:84649569-84649589 4.29e-03 5_[+4(3.90e-05)]_7 chr10:27015241-27015261 8.16e-01 20 chr14:53628633-53628653 8.27e-01 20 chr22:20025093-20025113 6.70e-01 20 chr4:170195370-170195390 1.29e-02 11_[+4(3.90e-05)]_1 chr18:74571550-74571570 1.06e-02 2_[+3(1.87e-05)]_10 chr8:63655685-63655705 7.36e-01 20 chr4:109094552-109094572 4.40e-01 20 chr1:183002527-183002547 4.98e-01 20 chr3:45919800-45919820 2.58e-04 9_[+1(1.34e-05)]_3 chr4:39683928-39683948 1.13e-04 1_[+2(2.87e-05)]_11 chr17:68205623-68205643 3.51e-01 20 chr7:11652547-11652567 9.10e-01 20 chr1:51669426-51669446 4.07e-04 7_[+4(1.97e-05)]_5 chr3:98283699-98283719 5.41e-05 9_[+1(1.34e-05)]_3 chr5:110733938-110733958 2.81e-01 20 chr12:104892292-10489231 9.61e-02 20 chr11:19928817-19928837 3.23e-02 20 chrX:64942572-64942592 1.26e-01 20 chr6:5567751-5567771 2.18e-03 9_[+1(1.34e-05)]_3 chr2:238977833-238977853 3.24e-02 20 chr6:157050581-157050601 1.14e-01 20 chr1:55911287-55911307 9.59e-05 11_[+1(2.71e-05)]_1 chr6:150962182-150962202 2.53e-05 8_[+3(1.87e-05)]_4 chr3:99929857-99929877 3.85e-01 20 chr9:106791326-106791346 9.59e-01 20 chr13:45623244-45623264 2.45e-02 20 chr6:13715740-13715760 6.24e-03 3_[+1(1.34e-05)]_9 chr6:41267007-41267027 5.34e-04 [+2(1.44e-05)]_12 chr7:129991083-129991103 8.02e-04 9_[+2(1.44e-05)]_3 chr21:35956647-35956667 1.23e-01 20 chr4:86653452-86653472 3.76e-02 12_[+4(3.90e-05)] chr4:123622365-123622385 5.34e-01 20 chr1:112060303-112060323 6.90e-05 3_[+4(3.90e-05)]_9 chr9:102845774-102845794 3.79e-01 20 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c17n09.farnam.hpc.yale.internal ********************************************************************************