******************************************************************************** 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/NR2F1.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr8:125488662-125488682 1.0000 20 chr19:38806356-38806376 1.0000 20 chr1:164633504-164633524 1.0000 20 chr1:27934031-27934051 1.0000 20 chr1:77405021-77405041 1.0000 20 chr2:136778610-136778630 1.0000 20 chr3:115985236-115985256 1.0000 20 chr6:99873753-99873773 1.0000 20 chrX:27933906-27933926 1.0000 20 chr5:149730214-149730234 1.0000 20 chr2:175901458-175901478 1.0000 20 chr20:39770105-39770125 1.0000 20 chr4:47567366-47567386 1.0000 20 chr1:246859913-246859933 1.0000 20 chr19:1260355-1260375 1.0000 20 chr9:38061616-38061636 1.0000 20 chr5:132759674-132759694 1.0000 20 chr1:31205505-31205525 1.0000 20 chr2:111943276-111943296 1.0000 20 chr7:101331598-101331618 1.0000 20 chr20:48151808-48151828 1.0000 20 chr19:1068322-1068342 1.0000 20 chr14:52351207-52351227 1.0000 20 chr12:54688168-54688188 1.0000 20 chr11:91033392-91033412 1.0000 20 chr6:29856023-29856043 1.0000 20 chr12:2127271-2127291 1.0000 20 chr19:45194929-45194949 1.0000 20 chr4:146856990-146857010 1.0000 20 chr12:120451798-12045181 1.0000 20 chrX:40812846-40812866 1.0000 20 chr16:30710526-30710546 1.0000 20 chr2:241976122-241976142 1.0000 20 chr11:67033726-67033746 1.0000 20 chr17:27899996-27900016 1.0000 20 chr19:633281-633301 1.0000 20 chr1:9335739-9335759 1.0000 20 chr4:122122137-122122157 1.0000 20 chr3:49195738-49195758 1.0000 20 chr1:234866146-234866166 1.0000 20 chr19:50181234-50181254 1.0000 20 chr11:119561892-11956191 1.0000 20 chr1:235120270-235120290 1.0000 20 chr3:182448181-182448201 1.0000 20 chr8:11718492-11718512 1.0000 20 chr10:1716819-1716839 1.0000 20 chr2:42158160-42158180 1.0000 20 chr2:114668764-114668784 1.0000 20 chr5:55565517-55565537 1.0000 20 chr10:21814811-21814831 1.0000 20 chr15:90094880-90094900 1.0000 20 chr11:66601946-66601966 1.0000 20 chr2:86250345-86250365 1.0000 20 chr18:54318853-54318873 1.0000 20 chr3:128564890-128564910 1.0000 20 chr22:25882271-25882291 1.0000 20 chr12:31905105-31905125 1.0000 20 chr11:65406035-65406055 1.0000 20 chr6:119637124-119637144 1.0000 20 chr13:65728996-65729016 1.0000 20 chr17:57774228-57774248 1.0000 20 chr9:3343836-3343856 1.0000 20 chr13:113344133-11334415 1.0000 20 chr1:25191082-25191102 1.0000 20 chr11:64027274-64027294 1.0000 20 chr11:118868869-11886888 1.0000 20 chr2:179855489-179855509 1.0000 20 chr9:109809205-109809225 1.0000 20 chr19:43017116-43017136 1.0000 20 chr10:103815577-10381559 1.0000 20 chr19:50919362-50919382 1.0000 20 chr19:14229162-14229182 1.0000 20 chr5:58440040-58440060 1.0000 20 chr7:5270577-5270597 1.0000 20 chrX:7033736-7033756 1.0000 20 chr5:153724978-153724998 1.0000 20 chr3:182234902-182234922 1.0000 20 chr12:48279074-48279094 1.0000 20 chr7:94139001-94139021 1.0000 20 chr14:74195644-74195664 1.0000 20 chr2:99029552-99029572 1.0000 20 chr17:28679441-28679461 1.0000 20 chr13:78503206-78503226 1.0000 20 chr21:45432630-45432650 1.0000 20 chr10:121452900-12145292 1.0000 20 chr8:144635846-144635866 1.0000 20 chr6:30809745-30809765 1.0000 20 chr3:14989199-14989219 1.0000 20 chr14:61911151-61911171 1.0000 20 chr3:79042726-79042746 1.0000 20 chr12:98795399-98795419 1.0000 20 chr3:160384141-160384161 1.0000 20 chr19:51670502-51670522 1.0000 20 chr12:11882618-11882638 1.0000 20 chr17:79884566-79884586 1.0000 20 chr16:84150943-84150963 1.0000 20 chr8:127145786-127145806 1.0000 20 chr1:65613690-65613710 1.0000 20 chr2:99077277-99077297 1.0000 20 chr3:58071080-58071100 1.0000 20 chr6:43215372-43215392 1.0000 20 chr7:55639688-55639708 1.0000 20 chr14:61834088-61834108 1.0000 20 chr17:37027862-37027882 1.0000 20 chr10:111846002-11184602 1.0000 20 chr1:181103811-181103831 1.0000 20 chr17:79565648-79565668 1.0000 20 chr20:32194138-32194158 1.0000 20 chr6:33476392-33476412 1.0000 20 chr19:7410476-7410496 1.0000 20 chr11:6411465-6411485 1.0000 20 chr7:7779117-7779137 1.0000 20 chr15:97687487-97687507 1.0000 20 chr9:132342657-132342677 1.0000 20 chr19:10197309-10197329 1.0000 20 chr2:113578915-113578935 1.0000 20 chr12:93752006-93752026 1.0000 20 chr5:76652698-76652718 1.0000 20 chr20:32953753-32953773 1.0000 20 chr14:106048292-10604831 1.0000 20 chr6:28351190-28351210 1.0000 20 chr14:71130588-71130608 1.0000 20 chr7:100048216-100048236 1.0000 20 chr9:74164132-74164152 1.0000 20 chr19:18335124-18335144 1.0000 20 chr8:11275546-11275566 1.0000 20 chr3:118960518-118960538 1.0000 20 chr2:101769388-101769408 1.0000 20 chr7:10980263-10980283 1.0000 20 chr6:145047388-145047408 1.0000 20 chr17:1957332-1957352 1.0000 20 chr8:100905603-100905623 1.0000 20 chr22:41809879-41809899 1.0000 20 chr1:168523371-168523391 1.0000 20 chr10:22989603-22989623 1.0000 20 chr1:168793794-168793814 1.0000 20 chr19:44267729-44267749 1.0000 20 chr5:150505945-150505965 1.0000 20 chr17:42425007-42425027 1.0000 20 chr7:141349403-141349423 1.0000 20 chr22:47158766-47158786 1.0000 20 chr18:72885150-72885170 1.0000 20 chr3:10262490-10262510 1.0000 20 chr1:28974622-28974642 1.0000 20 chr7:1067872-1067892 1.0000 20 chr4:40476110-40476130 1.0000 20 chr4:180049593-180049613 1.0000 20 chr3:60522314-60522334 1.0000 20 chr7:99867485-99867505 1.0000 20 chr1:157146552-157146572 1.0000 20 chrX:48456372-48456392 1.0000 20 chr2:74757263-74757283 1.0000 20 chr3:138510297-138510317 1.0000 20 chr1:1610458-1610478 1.0000 20 chr12:95467268-95467288 1.0000 20 chr7:100113953-100113973 1.0000 20 chr18:30812140-30812160 1.0000 20 chr18:20864089-20864109 1.0000 20 chr15:72230204-72230224 1.0000 20 chr5:130548582-130548602 1.0000 20 chr16:69597956-69597976 1.0000 20 chr16:2034180-2034200 1.0000 20 chr22:50329890-50329910 1.0000 20 chr11:64073621-64073641 1.0000 20 chr12:56321653-56321673 1.0000 20 chr4:144434717-144434737 1.0000 20 chr8:97158040-97158060 1.0000 20 chr2:197134488-197134508 1.0000 20 chr16:30198550-30198570 1.0000 20 chr5:180626299-180626319 1.0000 20 chr17:72941817-72941837 1.0000 20 chr6:24403312-24403332 1.0000 20 chr1:65426524-65426544 1.0000 20 chr6:42072064-42072084 1.0000 20 chr16:85587049-85587069 1.0000 20 chr3:73427523-73427543 1.0000 20 chr16:29655834-29655854 1.0000 20 chr10:120925020-12092504 1.0000 20 chr1:113579495-113579515 1.0000 20 chr8:54437256-54437276 1.0000 20 chr16:4401237-4401257 1.0000 20 chr17:44233478-44233498 1.0000 20 chr4:153564771-153564791 1.0000 20 chr21:45553615-45553635 1.0000 20 chr6:24775010-24775030 1.0000 20 chr9:139894742-139894762 1.0000 20 chr7:101034306-101034326 1.0000 20 chr2:203777165-203777185 1.0000 20 chr22:19609553-19609573 1.0000 20 chr19:7759617-7759637 1.0000 20 chr22:51020975-51020995 1.0000 20 chr16:33460414-33460434 1.0000 20 chr10:91091997-91092017 1.0000 20 chr7:30280161-30280181 1.0000 20 chr2:43184457-43184477 1.0000 20 chr1:17863020-17863040 1.0000 20 chr19:46012366-46012386 1.0000 20 chr5:142798208-142798228 1.0000 20 chr22:43659397-43659417 1.0000 20 chr17:18064759-18064779 1.0000 20 chr3:37285181-37285201 1.0000 20 chr3:45919785-45919805 1.0000 20 chr1:67450347-67450367 1.0000 20 chr13:53383619-53383639 1.0000 20 chr13:115046934-11504695 1.0000 20 chr11:62539060-62539080 1.0000 20 chr5:137990222-137990242 1.0000 20 chr10:43951172-43951192 1.0000 20 chr1:173384767-173384787 1.0000 20 chr19:4078367-4078387 1.0000 20 chr4:1015543-1015563 1.0000 20 chr13:109614006-10961402 1.0000 20 chr13:24699094-24699114 1.0000 20 chr12:125053635-12505365 1.0000 20 chr9:116036954-116036974 1.0000 20 chr3:152209915-152209935 1.0000 20 chr10:70815992-70816012 1.0000 20 chr12:100536233-10053625 1.0000 20 chr2:101706092-101706112 1.0000 20 chr9:35749125-35749145 1.0000 20 chr19:39616634-39616654 1.0000 20 chr14:93553224-93553244 1.0000 20 chr22:24921527-24921547 1.0000 20 chr2:61344889-61344909 1.0000 20 chr7:149322031-149322051 1.0000 20 chr4:169802495-169802515 1.0000 20 chr10:112172686-11217270 1.0000 20 chr16:2041222-2041242 1.0000 20 chr3:61710050-61710070 1.0000 20 chr10:102822303-10282232 1.0000 20 chr3:15900519-15900539 1.0000 20 chr3:127473013-127473033 1.0000 20 chr15:38915262-38915282 1.0000 20 chr12:123868243-12386826 1.0000 20 chr12:93594487-93594507 1.0000 20 chr1:32053445-32053465 1.0000 20 chr20:3780641-3780661 1.0000 20 chr16:88716979-88716999 1.0000 20 chr3:88191385-88191405 1.0000 20 chr22:18260201-18260221 1.0000 20 chr15:59596461-59596481 1.0000 20 chr8:105598257-105598277 1.0000 20 chr2:54900237-54900257 1.0000 20 chr8:8869710-8869730 1.0000 20 chr6:36749632-36749652 1.0000 20 chr7:128171114-128171134 1.0000 20 chrX:48774798-48774818 1.0000 20 chr1:39738085-39738105 1.0000 20 chrX:19898054-19898074 1.0000 20 chr8:38722941-38722961 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_NR2F1/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/GM12878/fasta/RankLinear0.6_10/NR2F1.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 0.219 C 0.272 G 0.282 T 0.227 Background letter frequencies (from file dataset with add-one prior applied): A 0.219 C 0.272 G 0.282 T 0.227 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF YTGACCTY MEME-1 width = 8 sites = 43 llr = 309 E-value = 3.7e-021 ******************************************************************************** -------------------------------------------------------------------------------- Motif YTGACCTY MEME-1 Description -------------------------------------------------------------------------------- Simplified A 11:a::1: pos.-specific C 4:2:aa25 probability G 1:8::::1 matrix T 49::::74 bits 2.2 2.0 ** 1.8 * *** 1.5 * *** Relative 1.3 * *** Entropy 1.1 ****** (10.4 bits) 0.9 ****** 0.7 ******* 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CTGACCTC consensus T T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YTGACCTY MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2:61344889-61344909 6 2.67e-05 TCACA TTGACCTT TGCCCAT chr1:65426524-65426544 5 2.67e-05 caac ttgacctc ttcttcat chr20:32194138-32194158 12 2.67e-05 ACATCACCTC TTGACCTT G chr12:11882618-11882638 1 2.67e-05 . TTGACCTT GGTTAGATAC chr3:160384141-160384161 13 2.67e-05 taattgaggt ttgacctt chr3:79042726-79042746 3 2.67e-05 CC TTGACCTT TGCATTTCCG chr13:65728996-65729016 1 2.67e-05 . ttgacctt tgtctctttg chr11:66601946-66601966 13 2.67e-05 GTCAAATTCT TTGACCTC chr5:149730214-149730234 11 2.67e-05 TCTGGTGACC TTGACCTT TT chr3:45919785-45919805 2 5.86e-05 C CTGACCTT TTGATGTGAT chr16:30198550-30198570 12 5.86e-05 GCCATCTACC CTGACCTT T chr5:150505945-150505965 13 5.86e-05 AGGGGAAGGT CTGACCTC chr6:145047388-145047408 9 5.86e-05 TTTGTGGC CTGACCTC CGCC chr8:127145786-127145806 12 5.86e-05 TACTGAACTG CTGACCTC T chr12:48279074-48279094 9 5.86e-05 CCCCAGTG CTGACCTT GCCT chr12:2127271-2127291 11 5.86e-05 gtcacatttg ctgacctc cc chr3:61710050-61710070 12 8.43e-05 ggtttaatct ttcacctt t chr5:76652698-76652718 1 8.43e-05 . TTCACCTC ACTTGCCCTT chr1:246859913-246859933 10 1.47e-04 GGAACGAGC CTCACCTT TGA chr20:39770105-39770125 4 1.47e-04 GGC TTGACCCC TGTGGCTGG chr13:109614006-10961402 10 2.11e-04 CAGTGGAAC ATGACCTT CTG chr2:74757263-74757283 1 2.11e-04 . CTGACCCC CGGGCCCGAG chr14:106048292-10604831 2 2.11e-04 g ctgaccct ggctgatcct chr21:45432630-45432650 12 2.11e-04 CGGGCGACCT CTGACCCC T chr18:30812140-30812160 2 2.59e-04 T TTGACCTG CAGCCTGGTT chr1:157146552-157146572 6 2.59e-04 gctgt gtgacctt tcacagg chr11:6411465-6411485 9 2.59e-04 CCGCGGCT GTGACCTC AAGG chr7:5270577-5270597 11 2.59e-04 AACTTGACCT GTGACCTC TG chr11:62539060-62539080 2 3.34e-04 G CTGACCAC GTGACCCAAG chr12:56321653-56321673 6 3.91e-04 TCGCC CAGACCTC CTAACCC chr11:64027274-64027294 11 3.91e-04 AATATCACTG CAGACCTT TA chr4:1015543-1015563 10 6.02e-04 ATCCCCCTA CTGCCCTT GTC chr22:19609553-19609573 10 6.02e-04 GTGCCCCGC CTGCCCTC CTC chr2:175901458-175901478 8 6.02e-04 GTGAAAC TTAACCTT TGACT chr11:119561892-11956191 13 6.58e-04 AACCCGGGTC ATGACCCC chr19:46012366-46012386 7 7.26e-04 TGCCCT TTGACATC GGAGTG chr8:11275546-11275566 7 8.52e-04 ggcttc ttcaccac atcctg chr5:55565517-55565537 7 8.52e-04 GGAACT TTCACCAC CACAAA chr16:2034180-2034200 12 9.18e-04 GGAGGCCGAG CTGACCCG G chr6:33476392-33476412 4 9.18e-04 cgg ctcaccac aacctccgc chr14:61911151-61911171 12 9.18e-04 TTtcttttac atgacctg c chr3:138510297-138510317 5 1.05e-03 AAGT TACACCTC TCAGCCAC chr1:32053445-32053465 4 1.33e-03 GCA CTGACCCA CTTGGGGGA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YTGACCTY MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2:61344889-61344909 2.7e-05 5_[+1]_7 chr1:65426524-65426544 2.7e-05 4_[+1]_8 chr20:32194138-32194158 2.7e-05 11_[+1]_1 chr12:11882618-11882638 2.7e-05 [+1]_12 chr3:160384141-160384161 2.7e-05 12_[+1] chr3:79042726-79042746 2.7e-05 2_[+1]_10 chr13:65728996-65729016 2.7e-05 [+1]_12 chr11:66601946-66601966 2.7e-05 12_[+1] chr5:149730214-149730234 2.7e-05 10_[+1]_2 chr3:45919785-45919805 5.9e-05 1_[+1]_11 chr16:30198550-30198570 5.9e-05 11_[+1]_1 chr5:150505945-150505965 5.9e-05 12_[+1] chr6:145047388-145047408 5.9e-05 8_[+1]_4 chr8:127145786-127145806 5.9e-05 11_[+1]_1 chr12:48279074-48279094 5.9e-05 8_[+1]_4 chr12:2127271-2127291 5.9e-05 10_[+1]_2 chr3:61710050-61710070 8.4e-05 11_[+1]_1 chr5:76652698-76652718 8.4e-05 [+1]_12 chr1:246859913-246859933 0.00015 9_[+1]_3 chr20:39770105-39770125 0.00015 3_[+1]_9 chr13:109614006-10961402 0.00021 9_[+1]_3 chr2:74757263-74757283 0.00021 [+1]_12 chr14:106048292-10604831 0.00021 1_[+1]_11 chr21:45432630-45432650 0.00021 11_[+1]_1 chr18:30812140-30812160 0.00026 1_[+1]_11 chr1:157146552-157146572 0.00026 5_[+1]_7 chr11:6411465-6411485 0.00026 8_[+1]_4 chr7:5270577-5270597 0.00026 10_[+1]_2 chr11:62539060-62539080 0.00033 1_[+1]_11 chr12:56321653-56321673 0.00039 5_[+1]_7 chr11:64027274-64027294 0.00039 10_[+1]_2 chr4:1015543-1015563 0.0006 9_[+1]_3 chr22:19609553-19609573 0.0006 9_[+1]_3 chr2:175901458-175901478 0.0006 7_[+1]_5 chr11:119561892-11956191 0.00066 12_[+1] chr19:46012366-46012386 0.00073 6_[+1]_6 chr8:11275546-11275566 0.00085 6_[+1]_6 chr5:55565517-55565537 0.00085 6_[+1]_6 chr16:2034180-2034200 0.00092 11_[+1]_1 chr6:33476392-33476412 0.00092 3_[+1]_9 chr14:61911151-61911171 0.00092 11_[+1]_1 chr3:138510297-138510317 0.001 4_[+1]_8 chr1:32053445-32053465 0.0013 3_[+1]_9 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YTGACCTY MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF YTGACCTY width=8 seqs=43 chr2:61344889-61344909 ( 6) TTGACCTT 1 chr1:65426524-65426544 ( 5) TTGACCTC 1 chr20:32194138-32194158 ( 12) TTGACCTT 1 chr12:11882618-11882638 ( 1) TTGACCTT 1 chr3:160384141-160384161 ( 13) TTGACCTT 1 chr3:79042726-79042746 ( 3) TTGACCTT 1 chr13:65728996-65729016 ( 1) TTGACCTT 1 chr11:66601946-66601966 ( 13) TTGACCTC 1 chr5:149730214-149730234 ( 11) TTGACCTT 1 chr3:45919785-45919805 ( 2) CTGACCTT 1 chr16:30198550-30198570 ( 12) CTGACCTT 1 chr5:150505945-150505965 ( 13) CTGACCTC 1 chr6:145047388-145047408 ( 9) CTGACCTC 1 chr8:127145786-127145806 ( 12) CTGACCTC 1 chr12:48279074-48279094 ( 9) CTGACCTT 1 chr12:2127271-2127291 ( 11) CTGACCTC 1 chr3:61710050-61710070 ( 12) TTCACCTT 1 chr5:76652698-76652718 ( 1) TTCACCTC 1 chr1:246859913-246859933 ( 10) CTCACCTT 1 chr20:39770105-39770125 ( 4) TTGACCCC 1 chr13:109614006-10961402 ( 10) ATGACCTT 1 chr2:74757263-74757283 ( 1) CTGACCCC 1 chr14:106048292-10604831 ( 2) CTGACCCT 1 chr21:45432630-45432650 ( 12) CTGACCCC 1 chr18:30812140-30812160 ( 2) TTGACCTG 1 chr1:157146552-157146572 ( 6) GTGACCTT 1 chr11:6411465-6411485 ( 9) GTGACCTC 1 chr7:5270577-5270597 ( 11) GTGACCTC 1 chr11:62539060-62539080 ( 2) CTGACCAC 1 chr12:56321653-56321673 ( 6) CAGACCTC 1 chr11:64027274-64027294 ( 11) CAGACCTT 1 chr4:1015543-1015563 ( 10) CTGCCCTT 1 chr22:19609553-19609573 ( 10) CTGCCCTC 1 chr2:175901458-175901478 ( 8) TTAACCTT 1 chr11:119561892-11956191 ( 13) ATGACCCC 1 chr19:46012366-46012386 ( 7) TTGACATC 1 chr8:11275546-11275566 ( 7) TTCACCAC 1 chr5:55565517-55565537 ( 7) TTCACCAC 1 chr16:2034180-2034200 ( 12) CTGACCCG 1 chr6:33476392-33476412 ( 4) CTCACCAC 1 chr14:61911151-61911171 ( 12) ATGACCTG 1 chr3:138510297-138510317 ( 5) TACACCTC 1 chr1:32053445-32053465 ( 4) CTGACCCA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YTGACCTY MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 6.55504 E= 3.7e-021 -165 70 -201 88 -165 -1207 -1207 204 -323 -74 153 -1207 212 -255 -1207 -1207 -1207 188 -1207 -1207 -323 184 -1207 -1207 -124 -74 -1207 171 -323 84 -201 88 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YTGACCTY MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 43 E= 3.7e-021 0.069767 0.441860 0.069767 0.418605 0.069767 0.000000 0.000000 0.930233 0.023256 0.162791 0.813953 0.000000 0.953488 0.046512 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.023256 0.976744 0.000000 0.000000 0.093023 0.162791 0.000000 0.744186 0.023256 0.488372 0.069767 0.418605 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YTGACCTY MEME-1 regular expression -------------------------------------------------------------------------------- [CT]TGACCT[CT] -------------------------------------------------------------------------------- Time 1.99 secs. ******************************************************************************** ******************************************************************************** MOTIF ARAGGTCA MEME-2 width = 8 sites = 42 llr = 309 E-value = 8.3e-024 ******************************************************************************** -------------------------------------------------------------------------------- Motif ARAGGTCA MEME-2 Description -------------------------------------------------------------------------------- Simplified A 547::::a pos.-specific C 12::::9: probability G 233aa:1: matrix T 11:::a:: bits 2.2 2.0 * * 1.8 *** * 1.5 *** * Relative 1.3 ***** Entropy 1.1 ****** (10.6 bits) 0.9 ****** 0.7 ****** 0.4 ****** 0.2 ******** 0.0 -------- Multilevel AAAGGTCA consensus GGG sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ARAGGTCA MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr10:70815992-70816012 5 1.13e-05 AGGC AAAGGTCA CACCGCTC chr11:64073621-64073641 7 1.13e-05 TGGGTC AAAGGTCA TCGCAC chr3:60522314-60522334 3 1.13e-05 GA AAAGGTCA AGCAAAAATT chrX:7033736-7033756 2 1.13e-05 G AAAGGTCA CTGTGGGCAA chr3:49195738-49195758 13 1.13e-05 GACAAAGGGC AAAGGTCA chr17:18064759-18064779 6 2.58e-05 GGGTG AGAGGTCA ATGAGTG chr3:10262490-10262510 1 2.58e-05 . AGAGGTCA CCACTAACCT chr1:234866146-234866166 2 2.58e-05 G AGAGGTCA CAATCTAGTT chr1:39738085-39738105 11 5.49e-05 CTGGGAGGGC AAGGGTCA GA chr2:99029552-99029572 4 5.49e-05 GCA GAAGGTCA AATTCTTAT chr3:182448181-182448201 13 5.49e-05 gggcaggtca gaaggtca chr11:91033392-91033412 8 5.49e-05 TTTGAAA AAGGGTCA CTTGG chr5:142798208-142798228 1 6.90e-05 . acaggtca gaaggtgaag chr2:43184457-43184477 6 6.90e-05 AAGGA ACAGGTCA GAATGCT chr15:72230204-72230224 10 6.90e-05 TGAAGGTAC ACAGGTCA AGG chr12:125053635-12505365 8 1.30e-04 AGGGGTC ATAGGTCA GTGCC chr22:47158766-47158786 12 1.30e-04 GGTCGGGGTC AGGGGTCA G chr2:101769388-101769408 5 1.30e-04 GACA GGAGGTCA AGTAGGGG chr3:118960518-118960538 8 1.30e-04 GTTGAGG ATAGGTCA GTGAA chr12:31905105-31905125 11 1.44e-04 GTTCATAGTT CAAGGTCA AG chr4:146856990-146857010 4 1.44e-04 ggt caaggtca tcagcaggg chr7:101034306-101034326 11 1.59e-04 CCTTCTGTTC TGAGGTCA GC chr14:74195644-74195664 2 1.59e-04 G TGAGGTCA CAGTCAAAGG chr6:24775010-24775030 8 1.78e-04 CGGAGGG GAGGGTCA AAGGG chr10:22989603-22989623 11 2.14e-04 gagcctttgt gcagGTCA TG chr6:29856023-29856043 1 2.14e-04 . GCAGGTCA CGACCCCTCC chr14:52351207-52351227 6 2.47e-04 gtgct tagggtca cacagct chr17:1957332-1957352 7 3.27e-04 GTGGGC GGGGGTCA GGAGGT chr18:72885150-72885170 5 3.45e-04 AAAC CAGGGTCA AAGGACAG chr7:141349403-141349423 13 3.45e-04 actttggttt cagggtca chr12:93752006-93752026 5 3.55e-04 actg aaaggtta aataacta chr3:88191385-88191405 8 4.04e-04 TGATTAA TTAGGTCA AAGTT chr2:101706092-101706112 13 4.04e-04 AGGTGGAACA TGGGGTCA chr6:36749632-36749652 1 4.42e-04 . AGAGGTGA CCCGCAGTGG chr19:1260355-1260375 8 4.42e-04 TGGGGGT GCGGGTCA CCGAC chr19:39616634-39616654 13 4.80e-04 GCGGGGCCGC CGGGGTCA chr5:58440040-58440060 1 5.60e-04 . gtgggtca ggagatgtga chr2:197134488-197134508 7 6.10e-04 CAGTAC AAAGGACA ATGTGA chr16:33460414-33460434 4 6.86e-04 GCC AAAGGTCC CTCTTCTCA chr2:111943276-111943296 7 7.47e-04 GGCCGA AGGGGTGA GTGGGT chr1:164633504-164633524 9 9.13e-04 TGACCTTT TGAGGTTA TGTG chr22:50329890-50329910 5 9.94e-04 GGCG GCAGGTGA CTCCGCTT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ARAGGTCA MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr10:70815992-70816012 1.1e-05 4_[+2]_8 chr11:64073621-64073641 1.1e-05 6_[+2]_6 chr3:60522314-60522334 1.1e-05 2_[+2]_10 chrX:7033736-7033756 1.1e-05 1_[+2]_11 chr3:49195738-49195758 1.1e-05 12_[+2] chr17:18064759-18064779 2.6e-05 5_[+2]_7 chr3:10262490-10262510 2.6e-05 [+2]_12 chr1:234866146-234866166 2.6e-05 1_[+2]_11 chr1:39738085-39738105 5.5e-05 10_[+2]_2 chr2:99029552-99029572 5.5e-05 3_[+2]_9 chr3:182448181-182448201 5.5e-05 12_[+2] chr11:91033392-91033412 5.5e-05 7_[+2]_5 chr5:142798208-142798228 6.9e-05 [+2]_12 chr2:43184457-43184477 6.9e-05 5_[+2]_7 chr15:72230204-72230224 6.9e-05 9_[+2]_3 chr12:125053635-12505365 0.00013 7_[+2]_5 chr22:47158766-47158786 0.00013 11_[+2]_1 chr2:101769388-101769408 0.00013 4_[+2]_8 chr3:118960518-118960538 0.00013 7_[+2]_5 chr12:31905105-31905125 0.00014 10_[+2]_2 chr4:146856990-146857010 0.00014 3_[+2]_9 chr7:101034306-101034326 0.00016 10_[+2]_2 chr14:74195644-74195664 0.00016 1_[+2]_11 chr6:24775010-24775030 0.00018 7_[+2]_5 chr10:22989603-22989623 0.00021 10_[+2]_2 chr6:29856023-29856043 0.00021 [+2]_12 chr14:52351207-52351227 0.00025 5_[+2]_7 chr17:1957332-1957352 0.00033 6_[+2]_6 chr18:72885150-72885170 0.00035 4_[+2]_8 chr7:141349403-141349423 0.00035 12_[+2] chr12:93752006-93752026 0.00035 4_[+2]_8 chr3:88191385-88191405 0.0004 7_[+2]_5 chr2:101706092-101706112 0.0004 12_[+2] chr6:36749632-36749652 0.00044 [+2]_12 chr19:1260355-1260375 0.00044 7_[+2]_5 chr19:39616634-39616654 0.00048 12_[+2] chr5:58440040-58440060 0.00056 [+2]_12 chr2:197134488-197134508 0.00061 6_[+2]_6 chr16:33460414-33460434 0.00069 3_[+2]_9 chr2:111943276-111943296 0.00075 6_[+2]_6 chr1:164633504-164633524 0.00091 8_[+2]_4 chr22:50329890-50329910 0.00099 4_[+2]_8 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ARAGGTCA MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF ARAGGTCA width=8 seqs=42 chr10:70815992-70816012 ( 5) AAAGGTCA 1 chr11:64073621-64073641 ( 7) AAAGGTCA 1 chr3:60522314-60522334 ( 3) AAAGGTCA 1 chrX:7033736-7033756 ( 2) AAAGGTCA 1 chr3:49195738-49195758 ( 13) AAAGGTCA 1 chr17:18064759-18064779 ( 6) AGAGGTCA 1 chr3:10262490-10262510 ( 1) AGAGGTCA 1 chr1:234866146-234866166 ( 2) AGAGGTCA 1 chr1:39738085-39738105 ( 11) AAGGGTCA 1 chr2:99029552-99029572 ( 4) GAAGGTCA 1 chr3:182448181-182448201 ( 13) GAAGGTCA 1 chr11:91033392-91033412 ( 8) AAGGGTCA 1 chr5:142798208-142798228 ( 1) ACAGGTCA 1 chr2:43184457-43184477 ( 6) ACAGGTCA 1 chr15:72230204-72230224 ( 10) ACAGGTCA 1 chr12:125053635-12505365 ( 8) ATAGGTCA 1 chr22:47158766-47158786 ( 12) AGGGGTCA 1 chr2:101769388-101769408 ( 5) GGAGGTCA 1 chr3:118960518-118960538 ( 8) ATAGGTCA 1 chr12:31905105-31905125 ( 11) CAAGGTCA 1 chr4:146856990-146857010 ( 4) CAAGGTCA 1 chr7:101034306-101034326 ( 11) TGAGGTCA 1 chr14:74195644-74195664 ( 2) TGAGGTCA 1 chr6:24775010-24775030 ( 8) GAGGGTCA 1 chr10:22989603-22989623 ( 11) GCAGGTCA 1 chr6:29856023-29856043 ( 1) GCAGGTCA 1 chr14:52351207-52351227 ( 6) TAGGGTCA 1 chr17:1957332-1957352 ( 7) GGGGGTCA 1 chr18:72885150-72885170 ( 5) CAGGGTCA 1 chr7:141349403-141349423 ( 13) CAGGGTCA 1 chr12:93752006-93752026 ( 5) AAAGGTTA 1 chr3:88191385-88191405 ( 8) TTAGGTCA 1 chr2:101706092-101706112 ( 13) TGGGGTCA 1 chr6:36749632-36749652 ( 1) AGAGGTGA 1 chr19:1260355-1260375 ( 8) GCGGGTCA 1 chr19:39616634-39616654 ( 13) CGGGGTCA 1 chr5:58440040-58440060 ( 1) GTGGGTCA 1 chr2:197134488-197134508 ( 7) AAAGGACA 1 chr16:33460414-33460434 ( 4) AAAGGTCC 1 chr2:111943276-111943296 ( 7) AGGGGTGA 1 chr1:164633504-164633524 ( 9) TGAGGTTA 1 chr22:50329890-50329910 ( 5) GCAGGTGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ARAGGTCA MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 7.77211 E= 8.3e-024 119 -119 -24 -67 97 -71 14 -125 165 -1204 14 -1204 -1204 -1204 183 -1204 -1204 -1204 183 -1204 -320 -1204 -1204 211 -1204 169 -198 -225 215 -351 -1204 -1204 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ARAGGTCA MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 42 E= 8.3e-024 0.500000 0.119048 0.238095 0.142857 0.428571 0.166667 0.309524 0.095238 0.690476 0.000000 0.309524 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.023810 0.000000 0.000000 0.976190 0.000000 0.880952 0.071429 0.047619 0.976190 0.023810 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ARAGGTCA MEME-2 regular expression -------------------------------------------------------------------------------- [AG][AG][AG]GGTCA -------------------------------------------------------------------------------- Time 2.72 secs. ******************************************************************************** ******************************************************************************** MOTIF AAAAAARA MEME-3 width = 8 sites = 7 llr = 66 E-value = 5.3e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif AAAAAARA MEME-3 Description -------------------------------------------------------------------------------- Simplified A aa99a74a pos.-specific C :::::::: probability G :::::14: matrix T ::11:11: bits 2.2 ** * * 2.0 ** * * 1.8 ** * * 1.5 ***** * Relative 1.3 ***** * Entropy 1.1 ***** * (13.5 bits) 0.9 ****** * 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel AAAAAAAA consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAAARA MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr10:91091997-91092017 6 5.29e-06 ctgag aaaaaaaa cagtcac chr5:130548582-130548602 3 5.29e-06 ta aaaaaaaa taataatccg chr9:139894742-139894762 7 1.21e-05 GAGCTG AAAAAAGA CGCAAG chr6:30809745-30809765 5 4.09e-05 ctga aaataaaa tcctaagc chr16:69597956-69597976 12 7.08e-05 GGATTCACAG AAAAAGGA A chr2:179855489-179855509 2 7.08e-05 t aataaaga gcagaatggt chr10:111846002-11184602 12 7.65e-05 ctaaatatac aaaaatta c -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAAARA MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr10:91091997-91092017 5.3e-06 5_[+3]_7 chr5:130548582-130548602 5.3e-06 2_[+3]_10 chr9:139894742-139894762 1.2e-05 6_[+3]_6 chr6:30809745-30809765 4.1e-05 4_[+3]_8 chr16:69597956-69597976 7.1e-05 11_[+3]_1 chr2:179855489-179855509 7.1e-05 1_[+3]_11 chr10:111846002-11184602 7.7e-05 11_[+3]_1 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAAARA MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF AAAAAARA width=8 seqs=7 chr10:91091997-91092017 ( 6) AAAAAAAA 1 chr5:130548582-130548602 ( 3) AAAAAAAA 1 chr9:139894742-139894762 ( 7) AAAAAAGA 1 chr6:30809745-30809765 ( 5) AAATAAAA 1 chr16:69597956-69597976 ( 12) AAAAAGGA 1 chr2:179855489-179855509 ( 2) AATAAAGA 1 chr10:111846002-11184602 ( 12) AAAAATTA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAAARA MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 10.0799 E= 5.3e+002 219 -945 -945 -945 219 -945 -945 -945 197 -945 -945 -67 197 -945 -945 -67 219 -945 -945 -945 170 -945 -98 -67 97 -945 61 -67 219 -945 -945 -945 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAAARA MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 7 E= 5.3e+002 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.857143 0.000000 0.000000 0.142857 0.857143 0.000000 0.000000 0.142857 1.000000 0.000000 0.000000 0.000000 0.714286 0.000000 0.142857 0.142857 0.428571 0.000000 0.428571 0.142857 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAAARA MEME-3 regular expression -------------------------------------------------------------------------------- AAAAAA[AG]A -------------------------------------------------------------------------------- Time 3.68 secs. ******************************************************************************** ******************************************************************************** MOTIF TTTSATTT MEME-4 width = 8 sites = 9 llr = 80 E-value = 2.9e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif TTTSATTT MEME-4 Description -------------------------------------------------------------------------------- Simplified A 2:::6::: pos.-specific C :::7:::: probability G :::32::2 matrix T 8aa:2aa8 bits 2.2 ** ** 2.0 ** ** 1.8 ** ** 1.5 ** ** Relative 1.3 *** *** Entropy 1.1 *** *** (12.9 bits) 0.9 **** *** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TTTCATTT consensus A GG G sequence T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTSATTT MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr9:116036954-116036974 12 8.15e-06 gaacaattcg tttcattt c chr10:1716819-1716839 9 1.66e-05 GGTCCGGT TTTGATTT CTAG chr14:61911151-61911171 2 2.50e-05 G TTtctttt acatgacctg chr4:144434717-144434737 13 3.55e-05 TCAGTCTCTC TTTCGTTT chr13:78503206-78503226 5 4.34e-05 AGTG ATTCATTT CCTGTACT chr18:20864089-20864109 3 5.35e-05 ac tttcattg ccaccttggt chr7:141349403-141349423 5 7.32e-05 gaac tttggttt cagggtca chr19:7410476-7410496 2 8.13e-05 c attgattt atatgcctga chr15:90094880-90094900 6 1.21e-04 cagtg tttctttg aagttca -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTSATTT MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr9:116036954-116036974 8.2e-06 11_[+4]_1 chr10:1716819-1716839 1.7e-05 8_[+4]_4 chr14:61911151-61911171 2.5e-05 1_[+4]_11 chr4:144434717-144434737 3.6e-05 12_[+4] chr13:78503206-78503226 4.3e-05 4_[+4]_8 chr18:20864089-20864109 5.4e-05 2_[+4]_10 chr7:141349403-141349423 7.3e-05 4_[+4]_8 chr19:7410476-7410496 8.1e-05 1_[+4]_11 chr15:90094880-90094900 0.00012 5_[+4]_7 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTSATTT MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TTTSATTT width=8 seqs=9 chr9:116036954-116036974 ( 12) TTTCATTT 1 chr10:1716819-1716839 ( 9) TTTGATTT 1 chr14:61911151-61911171 ( 2) TTTCTTTT 1 chr4:144434717-144434737 ( 13) TTTCGTTT 1 chr13:78503206-78503226 ( 5) ATTCATTT 1 chr18:20864089-20864109 ( 3) TTTCATTG 1 chr7:141349403-141349423 ( 5) TTTGGTTT 1 chr19:7410476-7410496 ( 2) ATTGATTT 1 chr15:90094880-90094900 ( 6) TTTCTTTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTSATTT MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 8.62696 E= 2.9e+003 2 -982 -982 178 -982 -982 -982 214 -982 -982 -982 214 -982 129 24 -982 134 -982 -34 -3 -982 -982 -982 214 -982 -982 -982 214 -982 -982 -34 178 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTSATTT MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 9 E= 2.9e+003 0.222222 0.000000 0.000000 0.777778 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.666667 0.333333 0.000000 0.555556 0.000000 0.222222 0.222222 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.222222 0.777778 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTSATTT MEME-4 regular expression -------------------------------------------------------------------------------- [TA]TT[CG][AGT]TT[TG] -------------------------------------------------------------------------------- Time 6.88 secs. ******************************************************************************** ******************************************************************************** MOTIF TAATAATM MEME-5 width = 8 sites = 2 llr = 22 E-value = 4.6e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif TAATAATM MEME-5 Description -------------------------------------------------------------------------------- Simplified A :aa:aa:5 pos.-specific C :::::::5 probability G :::::::: matrix T a::a::a: bits 2.2 ******* 2.0 ******* 1.8 ******* 1.5 ******* Relative 1.3 ******* Entropy 1.1 ******** (16.2 bits) 0.9 ******** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TAATAATA consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAATAATM MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr1:77405021-77405041 5 5.89e-06 AAAC TAATAATA GCTCTGAC chr5:130548582-130548602 11 1.32e-05 taaaaaaaaa taataatc cg -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAATAATM MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:77405021-77405041 5.9e-06 4_[+5]_8 chr5:130548582-130548602 1.3e-05 10_[+5]_2 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAATAATM MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TAATAATM width=8 seqs=2 chr1:77405021-77405041 ( 5) TAATAATA 1 chr5:130548582-130548602 ( 11) TAATAATC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAATAATM MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 10.6653 E= 4.6e+003 -765 -765 -765 213 218 -765 -765 -765 218 -765 -765 -765 -765 -765 -765 213 218 -765 -765 -765 218 -765 -765 -765 -765 -765 -765 213 119 87 -765 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAATAATM MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 4.6e+003 0.000000 0.000000 0.000000 1.000000 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.500000 0.500000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAATAATM MEME-5 regular expression -------------------------------------------------------------------------------- TAATAAT[AC] -------------------------------------------------------------------------------- Time 10.16 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr8:125488662-125488682 4.54e-01 20 chr19:38806356-38806376 9.73e-01 20 chr1:164633504-164633524 1.26e-01 20 chr1:27934031-27934051 9.23e-01 20 chr1:77405021-77405041 1.04e-03 4_[+5(5.89e-06)]_8 chr2:136778610-136778630 7.36e-01 20 chr3:115985236-115985256 3.55e-01 20 chr6:99873753-99873773 3.17e-01 20 chrX:27933906-27933926 8.47e-01 20 chr5:149730214-149730234 1.84e-02 10_[+1(2.67e-05)]_2 chr2:175901458-175901478 4.73e-02 20 chr20:39770105-39770125 1.32e-01 20 chr4:47567366-47567386 5.72e-01 20 chr1:246859913-246859933 8.14e-02 20 chr19:1260355-1260375 2.63e-01 20 chr9:38061616-38061636 4.59e-01 20 chr5:132759674-132759694 4.68e-01 20 chr1:31205505-31205525 9.91e-01 20 chr2:111943276-111943296 4.46e-01 20 chr7:101331598-101331618 7.23e-01 20 chr20:48151808-48151828 2.42e-01 20 chr19:1068322-1068342 8.82e-01 20 chr14:52351207-52351227 8.79e-02 20 chr12:54688168-54688188 4.43e-01 20 chr11:91033392-91033412 1.65e-03 7_[+2(5.49e-05)]_5 chr6:29856023-29856043 7.30e-02 20 chr12:2127271-2127291 1.58e-02 10_[+1(5.86e-05)]_2 chr19:45194929-45194949 9.46e-01 20 chr4:146856990-146857010 7.05e-02 20 chr12:120451798-12045181 5.44e-01 20 chrX:40812846-40812866 7.45e-01 20 chr16:30710526-30710546 3.34e-01 20 chr2:241976122-241976142 5.25e-01 20 chr11:67033726-67033746 9.64e-01 20 chr17:27899996-27900016 8.42e-01 20 chr19:633281-633301 9.63e-01 20 chr1:9335739-9335759 3.74e-01 20 chr4:122122137-122122157 6.95e-02 20 chr3:49195738-49195758 1.42e-02 12_[+2(1.13e-05)] chr1:234866146-234866166 8.89e-04 1_[+2(2.58e-05)]_11 chr19:50181234-50181254 7.27e-01 20 chr11:119561892-11956191 1.43e-02 20 chr1:235120270-235120290 2.91e-02 20 chr3:182448181-182448201 5.76e-02 12_[+2(5.49e-05)] chr8:11718492-11718512 7.72e-01 20 chr10:1716819-1716839 3.07e-02 8_[+4(1.66e-05)]_4 chr2:42158160-42158180 6.53e-01 20 chr2:114668764-114668784 5.35e-01 20 chr5:55565517-55565537 2.07e-01 20 chr10:21814811-21814831 9.75e-01 20 chr15:90094880-90094900 3.33e-02 20 chr11:66601946-66601966 3.52e-04 12_[+1(2.67e-05)] chr2:86250345-86250365 9.33e-01 20 chr18:54318853-54318873 9.97e-01 20 chr3:128564890-128564910 9.91e-01 20 chr22:25882271-25882291 5.98e-01 20 chr12:31905105-31905125 1.70e-02 20 chr11:65406035-65406055 2.66e-01 20 chr6:119637124-119637144 5.19e-02 20 chr13:65728996-65729016 1.10e-02 [+1(2.67e-05)]_12 chr17:57774228-57774248 7.00e-01 20 chr9:3343836-3343856 1.50e-01 20 chr13:113344133-11334415 9.87e-01 20 chr1:25191082-25191102 4.45e-01 20 chr11:64027274-64027294 7.30e-02 20 chr11:118868869-11886888 1.00e+00 20 chr2:179855489-179855509 2.38e-03 1_[+3(7.08e-05)]_11 chr9:109809205-109809225 2.30e-01 20 chr19:43017116-43017136 3.96e-01 20 chr10:103815577-10381559 8.21e-01 20 chr19:50919362-50919382 6.00e-01 20 chr19:14229162-14229182 9.94e-01 20 chr5:58440040-58440060 1.95e-01 20 chr7:5270577-5270597 1.63e-01 20 chrX:7033736-7033756 2.14e-02 1_[+2(1.13e-05)]_11 chr5:153724978-153724998 4.68e-01 20 chr3:182234902-182234922 5.19e-01 20 chr12:48279074-48279094 7.32e-02 8_[+1(5.86e-05)]_4 chr7:94139001-94139021 1.00e+00 20 chr14:74195644-74195664 5.98e-02 20 chr2:99029552-99029572 5.14e-04 3_[+2(5.49e-05)]_9 chr17:28679441-28679461 1.46e-01 20 chr13:78503206-78503226 5.36e-02 4_[+4(4.34e-05)]_8 chr21:45432630-45432650 1.51e-01 20 chr10:121452900-12145292 9.36e-01 20 chr8:144635846-144635866 9.11e-01 20 chr6:30809745-30809765 3.08e-03 4_[+3(4.09e-05)]_8 chr3:14989199-14989219 9.99e-01 20 chr14:61911151-61911171 1.52e-03 1_[+4(2.50e-05)]_11 chr3:79042726-79042746 2.83e-03 2_[+1(2.67e-05)]_10 chr12:98795399-98795419 8.20e-01 20 chr3:160384141-160384161 2.28e-03 12_[+1(2.67e-05)] chr19:51670502-51670522 9.29e-01 20 chr12:11882618-11882638 1.37e-03 [+1(2.67e-05)]_12 chr17:79884566-79884586 9.99e-01 20 chr16:84150943-84150963 7.70e-01 20 chr8:127145786-127145806 4.68e-02 11_[+1(5.86e-05)]_1 chr1:65613690-65613710 9.94e-01 20 chr2:99077277-99077297 1.40e-01 20 chr3:58071080-58071100 2.90e-01 20 chr6:43215372-43215392 9.51e-01 20 chr7:55639688-55639708 9.95e-01 20 chr14:61834088-61834108 8.00e-01 20 chr17:37027862-37027882 4.78e-01 20 chr10:111846002-11184602 9.88e-03 11_[+3(7.65e-05)]_1 chr1:181103811-181103831 4.74e-01 20 chr17:79565648-79565668 7.47e-01 20 chr20:32194138-32194158 5.36e-02 11_[+1(2.67e-05)]_1 chr6:33476392-33476412 4.03e-01 20 chr19:7410476-7410496 2.91e-02 1_[+4(8.13e-05)]_11 chr11:6411465-6411485 1.88e-01 20 chr7:7779117-7779137 5.98e-01 20 chr15:97687487-97687507 5.15e-01 20 chr9:132342657-132342677 1.60e-01 20 chr19:10197309-10197329 7.29e-01 20 chr2:113578915-113578935 6.57e-01 20 chr12:93752006-93752026 5.36e-03 20 chr5:76652698-76652718 8.71e-02 [+1(8.43e-05)]_12 chr20:32953753-32953773 2.54e-01 20 chr14:106048292-10604831 1.06e-01 20 chr6:28351190-28351210 8.89e-01 20 chr14:71130588-71130608 6.17e-01 20 chr7:100048216-100048236 8.93e-01 20 chr9:74164132-74164152 3.12e-01 20 chr19:18335124-18335144 9.11e-01 20 chr8:11275546-11275566 2.94e-01 20 chr3:118960518-118960538 5.61e-02 20 chr2:101769388-101769408 1.02e-01 20 chr7:10980263-10980283 8.96e-01 20 chr6:145047388-145047408 1.13e-01 8_[+1(5.86e-05)]_4 chr17:1957332-1957352 3.16e-01 20 chr8:100905603-100905623 7.57e-01 20 chr22:41809879-41809899 9.99e-01 20 chr1:168523371-168523391 1.55e-01 20 chr10:22989603-22989623 1.22e-01 20 chr1:168793794-168793814 4.52e-02 20 chr19:44267729-44267749 2.23e-01 20 chr5:150505945-150505965 2.06e-02 12_[+1(5.86e-05)] chr17:42425007-42425027 4.96e-01 20 chr7:141349403-141349423 4.30e-03 4_[+4(7.32e-05)]_8 chr22:47158766-47158786 2.33e-01 20 chr18:72885150-72885170 1.10e-01 20 chr3:10262490-10262510 2.48e-03 [+2(2.58e-05)]_12 chr1:28974622-28974642 9.00e-01 20 chr7:1067872-1067892 9.57e-01 20 chr4:40476110-40476130 5.67e-01 20 chr4:180049593-180049613 3.77e-01 20 chr3:60522314-60522334 9.35e-04 2_[+2(1.13e-05)]_10 chr7:99867485-99867505 8.26e-01 20 chr1:157146552-157146572 6.93e-02 20 chrX:48456372-48456392 9.93e-01 20 chr2:74757263-74757283 1.89e-01 20 chr3:138510297-138510317 2.12e-01 20 chr1:1610458-1610478 8.48e-01 20 chr12:95467268-95467288 8.49e-01 20 chr7:100113953-100113973 1.74e-01 20 chr18:30812140-30812160 9.66e-02 20 chr18:20864089-20864109 2.79e-02 2_[+4(5.35e-05)]_10 chr15:72230204-72230224 8.59e-02 9_[+2(6.90e-05)]_3 chr5:130548582-130548602 4.17e-05 1_[+3(5.29e-06)]_1_[+5(1.32e-05)]_2 chr16:69597956-69597976 2.03e-02 11_[+3(7.08e-05)]_1 chr16:2034180-2034200 2.85e-01 20 chr22:50329890-50329910 2.48e-01 20 chr11:64073621-64073641 1.94e-02 6_[+2(1.13e-05)]_6 chr12:56321653-56321673 1.95e-01 20 chr4:144434717-144434737 8.97e-02 12_[+4(3.55e-05)] chr8:97158040-97158060 1.46e-01 20 chr2:197134488-197134508 2.33e-02 20 chr16:30198550-30198570 8.64e-02 11_[+1(5.86e-05)]_1 chr5:180626299-180626319 7.59e-01 20 chr17:72941817-72941837 1.80e-01 20 chr6:24403312-24403332 6.67e-01 20 chr1:65426524-65426544 3.67e-02 4_[+1(2.67e-05)]_8 chr6:42072064-42072084 9.90e-01 20 chr16:85587049-85587069 9.98e-01 20 chr3:73427523-73427543 1.78e-01 20 chr16:29655834-29655854 8.09e-01 20 chr10:120925020-12092504 9.90e-01 20 chr1:113579495-113579515 4.01e-01 20 chr8:54437256-54437276 8.80e-01 20 chr16:4401237-4401257 9.91e-01 20 chr17:44233478-44233498 2.84e-01 20 chr4:153564771-153564791 6.00e-01 20 chr21:45553615-45553635 9.83e-01 20 chr6:24775010-24775030 2.15e-01 20 chr9:139894742-139894762 8.28e-03 6_[+3(1.21e-05)]_6 chr7:101034306-101034326 4.93e-02 20 chr2:203777165-203777185 6.55e-01 20 chr22:19609553-19609573 4.61e-01 20 chr19:7759617-7759637 9.94e-01 20 chr22:51020975-51020995 8.78e-01 20 chr16:33460414-33460434 2.25e-01 20 chr10:91091997-91092017 3.34e-03 5_[+3(5.29e-06)]_7 chr7:30280161-30280181 5.10e-01 20 chr2:43184457-43184477 1.32e-02 5_[+2(6.90e-05)]_7 chr1:17863020-17863040 5.39e-01 20 chr19:46012366-46012386 8.06e-02 20 chr5:142798208-142798228 5.86e-02 [+2(6.90e-05)]_12 chr22:43659397-43659417 2.83e-01 20 chr17:18064759-18064779 1.21e-02 5_[+2(2.58e-05)]_7 chr3:37285181-37285201 9.85e-01 20 chr3:45919785-45919805 1.24e-03 1_[+1(5.86e-05)]_11 chr1:67450347-67450367 8.64e-01 20 chr13:53383619-53383639 2.12e-01 20 chr13:115046934-11504695 9.93e-01 20 chr11:62539060-62539080 1.72e-01 20 chr5:137990222-137990242 7.57e-01 20 chr10:43951172-43951192 9.93e-01 20 chr1:173384767-173384787 7.49e-01 20 chr19:4078367-4078387 8.04e-01 20 chr4:1015543-1015563 3.41e-01 20 chr13:109614006-10961402 3.77e-02 20 chr13:24699094-24699114 3.89e-01 20 chr12:125053635-12505365 1.09e-01 20 chr9:116036954-116036974 1.35e-03 11_[+4(8.15e-06)]_1 chr3:152209915-152209935 3.01e-01 20 chr10:70815992-70816012 6.00e-03 4_[+2(1.13e-05)]_8 chr12:100536233-10053625 1.00e+00 20 chr2:101706092-101706112 2.37e-01 20 chr9:35749125-35749145 1.00e+00 20 chr19:39616634-39616654 4.22e-01 20 chr14:93553224-93553244 9.14e-01 20 chr22:24921527-24921547 3.01e-01 20 chr2:61344889-61344909 1.48e-02 5_[+1(2.67e-05)]_7 chr7:149322031-149322051 9.00e-01 20 chr4:169802495-169802515 5.90e-01 20 chr10:112172686-11217270 7.90e-01 20 chr16:2041222-2041242 1.98e-01 20 chr3:61710050-61710070 6.79e-03 11_[+1(8.43e-05)]_1 chr10:102822303-10282232 7.97e-01 20 chr3:15900519-15900539 9.90e-01 20 chr3:127473013-127473033 7.59e-01 20 chr15:38915262-38915282 9.93e-01 20 chr12:123868243-12386826 8.24e-01 20 chr12:93594487-93594507 9.40e-01 20 chr1:32053445-32053465 2.81e-01 20 chr20:3780641-3780661 7.83e-01 20 chr16:88716979-88716999 8.49e-01 20 chr3:88191385-88191405 2.88e-03 20 chr22:18260201-18260221 1.58e-01 20 chr15:59596461-59596481 9.44e-01 20 chr8:105598257-105598277 7.74e-01 20 chr2:54900237-54900257 2.73e-01 20 chr8:8869710-8869730 8.25e-03 20 chr6:36749632-36749652 5.01e-02 20 chr7:128171114-128171134 9.97e-01 20 chrX:48774798-48774818 9.94e-01 20 chr1:39738085-39738105 1.24e-01 10_[+2(5.49e-05)]_2 chrX:19898054-19898074 8.96e-01 20 chr8:38722941-38722961 4.33e-01 20 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c17n09.farnam.hpc.yale.internal ********************************************************************************