******************************************************************************** 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/USF2.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr10:77162190-77162210 1.0000 20 chr13:50159707-50159727 1.0000 20 chr16:29832599-29832619 1.0000 20 chr11:44578587-44578607 1.0000 20 chr17:46688395-46688415 1.0000 20 chr5:150537398-150537418 1.0000 20 chrX:55744129-55744149 1.0000 20 chrX:101914850-101914870 1.0000 20 chr3:184032306-184032326 1.0000 20 chr7:27135684-27135704 1.0000 20 chr10:50396464-50396484 1.0000 20 chr1:173446180-173446200 1.0000 20 chr9:74825563-74825583 1.0000 20 chr17:80455115-80455135 1.0000 20 chr20:31407550-31407570 1.0000 20 chr3:16883529-16883549 1.0000 20 chr19:11487992-11488012 1.0000 20 chr13:30969742-30969762 1.0000 20 chr18:21699170-21699190 1.0000 20 chr14:92573081-92573101 1.0000 20 chrX:100878118-100878138 1.0000 20 chrX:24497378-24497398 1.0000 20 chr11:61501030-61501050 1.0000 20 chr11:7535156-7535176 1.0000 20 chr2:208576132-208576152 1.0000 20 chr19:49835012-49835032 1.0000 20 chr7:6312315-6312335 1.0000 20 chr5:112073520-112073540 1.0000 20 chr2:211035514-211035534 1.0000 20 chr15:44084254-44084274 1.0000 20 chr17:46655790-46655810 1.0000 20 chr6:158653157-158653177 1.0000 20 chr2:118761027-118761047 1.0000 20 chr20:33413561-33413581 1.0000 20 chr10:70883921-70883941 1.0000 20 chr20:570140-570160 1.0000 20 chr17:19552019-19552039 1.0000 20 chr17:79925901-79925921 1.0000 20 chr19:18452200-18452220 1.0000 20 chr12:112451173-11245119 1.0000 20 chrX:13671191-13671211 1.0000 20 chr20:443225-443245 1.0000 20 chr14:91580940-91580960 1.0000 20 chr9:140523254-140523274 1.0000 20 chrX:102883825-102883845 1.0000 20 chr1:156265469-156265489 1.0000 20 chr17:8095643-8095663 1.0000 20 chr21:44299158-44299178 1.0000 20 chr1:226271208-226271228 1.0000 20 chr20:1878336-1878356 1.0000 20 chr1:220445880-220445900 1.0000 20 chrX:100872983-100873003 1.0000 20 chr2:45837708-45837728 1.0000 20 chr19:8305387-8305407 1.0000 20 chr13:21635721-21635741 1.0000 20 chr22:22523102-22523122 1.0000 20 chr11:3071281-3071301 1.0000 20 chr4:48205554-48205574 1.0000 20 chr3:15387427-15387447 1.0000 20 chr5:172198318-172198338 1.0000 20 chr17:21179152-21179172 1.0000 20 chr11:71814504-71814524 1.0000 20 chr16:89428869-89428889 1.0000 20 chr6:159495543-159495563 1.0000 20 chr2:37788904-37788924 1.0000 20 chr12:108662390-10866241 1.0000 20 chr12:133069209-13306922 1.0000 20 chr5:68628655-68628675 1.0000 20 chr14:96828506-96828526 1.0000 20 chr16:21963915-21963935 1.0000 20 chr5:141392625-141392645 1.0000 20 chr1:2487188-2487208 1.0000 20 chr11:8223720-8223740 1.0000 20 chr12:72148628-72148648 1.0000 20 chr1:44440561-44440581 1.0000 20 chr5:131132844-131132864 1.0000 20 chr1:220621777-220621797 1.0000 20 chr19:19600240-19600260 1.0000 20 chr21:38936173-38936193 1.0000 20 chr2:120097006-120097026 1.0000 20 chr1:11796091-11796111 1.0000 20 chr5:90677631-90677651 1.0000 20 chr2:220083821-220083841 1.0000 20 chr7:26904449-26904469 1.0000 20 chr2:43449181-43449201 1.0000 20 chr8:104033280-104033300 1.0000 20 chr2:25496377-25496397 1.0000 20 chr1:156427192-156427212 1.0000 20 chr15:34611034-34611054 1.0000 20 chr3:158519824-158519844 1.0000 20 chr6:163835100-163835120 1.0000 20 chr17:6939131-6939151 1.0000 20 chr15:40213195-40213215 1.0000 20 chr9:139844586-139844606 1.0000 20 chr12:121342212-12134223 1.0000 20 chr16:2041278-2041298 1.0000 20 chr3:129409393-129409413 1.0000 20 chr3:52091344-52091364 1.0000 20 chr6:44225083-44225103 1.0000 20 chr15:50979032-50979052 1.0000 20 chr19:36545314-36545334 1.0000 20 chr3:169899574-169899594 1.0000 20 chr6:36391219-36391239 1.0000 20 chr1:26232964-26232984 1.0000 20 chr16:50730721-50730741 1.0000 20 chr5:132299344-132299364 1.0000 20 chr2:241526088-241526108 1.0000 20 chr5:126112698-126112718 1.0000 20 chr19:5680967-5680987 1.0000 20 chr6:106440467-106440487 1.0000 20 chr20:40321485-40321505 1.0000 20 chr9:140009192-140009212 1.0000 20 chr1:155294193-155294213 1.0000 20 chr14:93799482-93799502 1.0000 20 chr19:47633956-47633976 1.0000 20 chr1:28559532-28559552 1.0000 20 chr15:45997987-45998007 1.0000 20 chr10:14050586-14050606 1.0000 20 chr1:151170912-151170932 1.0000 20 chr8:72760985-72761005 1.0000 20 chr21:44030046-44030066 1.0000 20 chr22:50964087-50964107 1.0000 20 chrX:30671257-30671277 1.0000 20 chr12:111028773-11102879 1.0000 20 chr15:73925889-73925909 1.0000 20 chr2:8820575-8820595 1.0000 20 chr5:36725307-36725327 1.0000 20 chr16:88923489-88923509 1.0000 20 chr12:65153221-65153241 1.0000 20 chr6:43337524-43337544 1.0000 20 chr19:40324865-40324885 1.0000 20 chr16:69796197-69796217 1.0000 20 chr3:170626586-170626606 1.0000 20 chr3:50628066-50628086 1.0000 20 chr1:42921725-42921745 1.0000 20 chr6:31865514-31865534 1.0000 20 chr19:49137813-49137833 1.0000 20 chr12:76953651-76953671 1.0000 20 chr11:6640655-6640675 1.0000 20 chr22:35695856-35695876 1.0000 20 chr5:176937429-176937449 1.0000 20 chr7:2393712-2393732 1.0000 20 chr16:58718670-58718690 1.0000 20 chr18:3013536-3013556 1.0000 20 chr17:49199281-49199301 1.0000 20 chr3:13082017-13082037 1.0000 20 chr11:17230033-17230053 1.0000 20 chr17:33895038-33895058 1.0000 20 chr1:15930167-15930187 1.0000 20 chr16:84178783-84178803 1.0000 20 chr3:38038483-38038503 1.0000 20 chr1:25314807-25314827 1.0000 20 chr17:18759592-18759612 1.0000 20 chr5:64777813-64777833 1.0000 20 chr5:176730728-176730748 1.0000 20 chr19:18133131-18133151 1.0000 20 chr16:4588860-4588880 1.0000 20 chr2:29339434-29339454 1.0000 20 chr16:74729903-74729923 1.0000 20 chr8:144352158-144352178 1.0000 20 chr1:1015680-1015700 1.0000 20 chr9:131709918-131709938 1.0000 20 chr4:36243597-36243617 1.0000 20 chr2:42396368-42396388 1.0000 20 chr1:68962822-68962842 1.0000 20 chr1:6661315-6661335 1.0000 20 chr19:8509807-8509827 1.0000 20 chr8:99129476-99129496 1.0000 20 chr1:31327157-31327177 1.0000 20 chr17:38269619-38269639 1.0000 20 chr12:120755576-12075559 1.0000 20 chr21:38445507-38445527 1.0000 20 chr15:72565016-72565036 1.0000 20 chr12:113623364-11362338 1.0000 20 chr9:34646565-34646585 1.0000 20 chr9:138391743-138391763 1.0000 20 chr16:9233943-9233963 1.0000 20 chr3:51428617-51428637 1.0000 20 chr5:172410749-172410769 1.0000 20 chr12:2986352-2986372 1.0000 20 chr1:203240312-203240332 1.0000 20 chr4:164471551-164471571 1.0000 20 chr3:44903320-44903340 1.0000 20 chr15:40857382-40857402 1.0000 20 chr13:49684383-49684403 1.0000 20 chr2:107920630-107920650 1.0000 20 chr5:40486693-40486713 1.0000 20 chr20:10492392-10492412 1.0000 20 chr3:57678872-57678892 1.0000 20 chr20:37590823-37590843 1.0000 20 chr1:154600480-154600500 1.0000 20 chr19:10426688-10426708 1.0000 20 chrX:100914886-100914906 1.0000 20 chr3:132136301-132136321 1.0000 20 chr6:7590380-7590400 1.0000 20 chr11:63706658-63706678 1.0000 20 chr1:33896748-33896768 1.0000 20 chr11:107879641-10787966 1.0000 20 chr1:39325558-39325578 1.0000 20 chr19:14477639-14477659 1.0000 20 chr3:195277175-195277195 1.0000 20 chr14:105487776-10548779 1.0000 20 chr11:113746448-11374646 1.0000 20 chr17:40719046-40719066 1.0000 20 chr2:26987117-26987137 1.0000 20 chr21:40721339-40721359 1.0000 20 chr7:140098346-140098366 1.0000 20 chr3:39424810-39424830 1.0000 20 chr17:21226445-21226465 1.0000 20 chr12:53886978-53886998 1.0000 20 chr3:197686906-197686926 1.0000 20 chr4:775662-775682 1.0000 20 chr4:37688288-37688308 1.0000 20 chr22:46957577-46957597 1.0000 20 chr10:104271880-10427190 1.0000 20 chr17:77702518-77702538 1.0000 20 chr11:68606849-68606869 1.0000 20 chr1:171454578-171454598 1.0000 20 chr19:4007692-4007712 1.0000 20 chr9:126102646-126102666 1.0000 20 chr1:28195751-28195771 1.0000 20 chr11:1785172-1785192 1.0000 20 chr7:92054065-92054085 1.0000 20 chr16:11457396-11457416 1.0000 20 chr18:32621282-32621302 1.0000 20 chr7:32930242-32930262 1.0000 20 chr3:167468256-167468276 1.0000 20 chr6:150326487-150326507 1.0000 20 chr4:17616193-17616213 1.0000 20 chr19:5143585-5143605 1.0000 20 chr1:2477566-2477586 1.0000 20 chr1:228594653-228594673 1.0000 20 chr17:26698378-26698398 1.0000 20 chr3:122512675-122512695 1.0000 20 chr2:98612697-98612717 1.0000 20 chr16:88877899-88877919 1.0000 20 chr11:8615852-8615872 1.0000 20 chr19:4670413-4670433 1.0000 20 chr17:7819254-7819274 1.0000 20 chr7:2354064-2354084 1.0000 20 chr16:27386551-27386571 1.0000 20 chr14:65569260-65569280 1.0000 20 chr1:153934666-153934686 1.0000 20 chr1:78148640-78148660 1.0000 20 chr12:51157720-51157740 1.0000 20 chr11:75525863-75525883 1.0000 20 chr6:37534188-37534208 1.0000 20 chr16:4897391-4897411 1.0000 20 chr22:38577856-38577876 1.0000 20 chr17:60143339-60143359 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_USF2/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/GM12878/fasta/RankLinear0.6_10/USF2.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 0.163 C 0.326 G 0.34 T 0.171 Background letter frequencies (from file dataset with add-one prior applied): A 0.163 C 0.326 G 0.34 T 0.171 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF TCACGTGA MEME-1 width = 8 sites = 94 llr = 776 E-value = 1.8e-140 ******************************************************************************** -------------------------------------------------------------------------------- Motif TCACGTGA MEME-1 Description -------------------------------------------------------------------------------- Simplified A 1:a:1::6 pos.-specific C 2a:9:::1 probability G ::::91a3 matrix T 7::1:9:: bits 2.6 * 2.4 * 2.1 * * 1.8 * * Relative 1.6 ** ** Entropy 1.3 ** ** (11.9 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel TCACGTGA consensus C G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCACGTGA MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3:122512675-122512695 11 9.54e-06 CACGTGGAGG TCACGTGA CG chr22:46957577-46957597 12 9.54e-06 TGCCTGGTGG TCACGTGA T chr12:53886978-53886998 4 9.54e-06 GGA TCACGTGA GCGCGACGT chr3:39424810-39424830 6 9.54e-06 CACCC TCACGTGA CAAGCGT chr2:26987117-26987137 7 9.54e-06 GAGGGG TCACGTGA CGCCCG chr11:107879641-10787966 2 9.54e-06 G TCACGTGA CGTGGCCGCG chrX:100914886-100914906 3 9.54e-06 GG TCACGTGA GGGCTGCATC chr3:57678872-57678892 3 9.54e-06 GG TCACGTGA CCCTGGGAGC chr13:49684383-49684403 11 9.54e-06 GTGATGACTG TCACGTGA CT chr9:138391743-138391763 11 9.54e-06 GACGGCCAGG TCACGTGA CT chr1:68962822-68962842 8 9.54e-06 CCGCGGG TCACGTGA CGCCA chr1:42921725-42921745 7 9.54e-06 CCGGCG TCACGTGA CGATCG chr12:111028773-11102879 8 9.54e-06 aaacaca TCACGTGA TCCAA chr10:14050586-14050606 2 9.54e-06 A TCACGTGA CTCCCAAGCC chr2:241526088-241526108 10 9.54e-06 GGCCGCCTG TCACGTGA CCC chr19:36545314-36545334 2 9.54e-06 G TCACGTGA CGAATGGGCC chr12:121342212-12134223 8 9.54e-06 AACACGC TCACGTGA TGCGC chr3:158519824-158519844 3 9.54e-06 CG TCACGTGA GCTCCCGGAG chr1:11796091-11796111 12 9.54e-06 CAAGCGGCGG TCACGTGA C chr13:21635721-21635741 3 9.54e-06 CG TCACGTGA CCCCGCCTCC chrX:100872983-100873003 2 9.54e-06 G TCACGTGA CGGCCACGTC chr1:220445880-220445900 8 9.54e-06 GCCCGGG TCACGTGA CTACG chr11:6640655-6640675 12 1.41e-05 ATGTGACGGA TCACATGA G chr19:19600240-19600260 11 1.41e-05 AATGCCTTTG TCACATGA CT chr20:1878336-1878356 12 1.41e-05 CTGGGAGGTG TCACATGA T chr1:156265469-156265489 6 1.41e-05 GAGGG TCACATGA CTCGCGT chr14:91580940-91580960 12 1.41e-05 AACTCCCAGG TCACATGA A chrX:24497378-24497398 9 1.91e-05 TGATGTGC TCATGTGA GCAC chr19:11487992-11488012 11 1.91e-05 gtgactgggg tcatgtga ct chrX:101914850-101914870 13 1.91e-05 TGACGGTGGG TCATGTGA chr17:26698378-26698398 6 3.90e-05 CGATG TCACGTGG GGCGGGG chr9:126102646-126102666 4 3.90e-05 CTG TCACGTGG GTGATCATG chr17:77702518-77702538 1 3.90e-05 . tcacgtgg ccctgctttg chr19:8509807-8509827 9 3.90e-05 GCGTCGGG TCACGTGG GCGC chr2:29339434-29339454 10 3.90e-05 AGCACAGGA TCACGTGG TGC chr15:45997987-45998007 7 3.90e-05 cccagg tcacgtgg ctagga chr5:126112698-126112718 7 3.90e-05 TGGTAG TCACGTGG AGGCGC chr16:50730721-50730741 13 3.90e-05 GAGCTCCGAG TCACGTGG chr6:36391219-36391239 1 3.90e-05 . TCACGTGG GCCAGCTGTG chr6:44225083-44225103 1 3.90e-05 . TCACGTGG CCCGGGGGCT chr17:6939131-6939151 11 3.90e-05 AGTCCCCGCG TCACGTGG GG chr1:44440561-44440581 13 3.90e-05 CGGCGTGGGG TCACGTGG chr14:96828506-96828526 8 3.90e-05 CGATCTG TCACGTGG AGCAA chr3:15387427-15387447 7 3.90e-05 ctgccg tcacgtgg aaggtt chr6:158653157-158653177 10 3.90e-05 cgcgccggg tcacgtgg cgc chr11:7535156-7535176 10 3.90e-05 CCCGCCCCG TCACGTGG GCG chr13:50159707-50159727 11 3.90e-05 GCCCGCCGGG TCACGTGG CC chr7:2354064-2354084 7 5.72e-05 GCGCTC CCACGTGA CTTCCT chr18:32621282-32621302 7 5.72e-05 GGCTGG CCACGTGA CCAGGG chr7:2393712-2393732 5 5.72e-05 GCCC CCACGTGA CCCGCGCT chr6:43337524-43337544 5 5.72e-05 GCCG CCACGTGA CCCCTGTG chr17:46655790-46655810 3 5.72e-05 GC CCACGTGA TCCTCCGAGC chr18:21699170-21699190 12 5.72e-05 ACCTAAAAGG CCACGTGA T chr3:16883529-16883549 8 5.72e-05 GAGGGGG CCACGTGA CGCCT chr10:50396464-50396484 11 5.72e-05 AGGACAAGAC CCACGTGA CT chr17:46688395-46688415 7 5.72e-05 TCCGGA CCACGTGA CCCCGC chr7:32930242-32930262 8 6.63e-05 ATAAACA ACACGTGA CCAGT chr4:775662-775682 9 6.63e-05 AGGCCTCC ACACGTGA GCCT chr3:38038483-38038503 4 6.63e-05 TGC ACACGTGA CACATCCCA chr14:92573081-92573101 2 6.63e-05 G ACACGTGA CCTTGGTAGC chr13:30969742-30969762 9 6.63e-05 TGACCTGG ACACGTGA CTTG chr9:74825563-74825583 5 6.63e-05 GAGC ACACGTGA TTCGCGGT chr10:104271880-10427190 3 7.87e-05 GG TCACGTGT TGGGAGCAAT chr17:49199281-49199301 13 7.87e-05 TGGGAGAGTG TCACGTGT chr1:31327157-31327177 3 8.83e-05 ag tcacatgg ccccacctgg chr19:49137813-49137833 4 1.27e-04 GAG TCACGTGC TGACGCCTG chr9:139844586-139844606 6 1.27e-04 GGAGG TCACGTGC CCACCCT chr2:220083821-220083841 9 1.27e-04 CGGCTTGG TCACGTGC CCAG chr11:75525863-75525883 4 1.55e-04 TAA TCAGGTGA CTCTCCCGC chr1:39325558-39325578 5 1.55e-04 GGAA TCACCTGA CTCAGAGC chr16:74729903-74729923 4 1.55e-04 tgg ccatgtga ctagttctc chr15:73925889-73925909 9 1.55e-04 GCCTCTGG CCATGTGA CGGG chr21:44030046-44030066 2 1.55e-04 g ccatgtga ccgcacccaa chr3:129409393-129409413 5 1.55e-04 aagg ccatgtga ctagttct chr7:26904449-26904469 8 1.55e-04 TGCTGCG TCACCTGA TCCAG chr17:21179152-21179172 7 1.55e-04 GCGCGG CCATGTGA GCAAGC chr4:48205554-48205574 13 1.55e-04 ATGATGGTCC CCATGTGA chr16:11457396-11457416 12 1.60e-04 CTGAGCTTGG ACACATGA C chr21:40721339-40721359 6 2.16e-04 GCACG TCACGGGA CCGCGGG chr2:25496377-25496397 10 2.16e-04 TGAAGTGCC CCACGTGG TGG chr2:118761027-118761047 12 2.40e-04 CTATGCAGGG GCACGTGA T chr11:44578587-44578607 2 2.64e-04 g tcacatgt gcccaaagtc chr1:153934666-153934686 6 2.83e-04 GCAAG TCACATGC CCAGGCC chr3:132136301-132136321 7 3.32e-04 ACTGGG TCTCGTGA CAGCCT chr11:8223720-8223740 5 3.32e-04 cacc ccacgtgt tgcacagg chr3:44903320-44903340 1 3.64e-04 . TCACAGGA GCGTCGCGTC chr20:570140-570160 7 4.55e-04 aggtgg gcacatga ccagac chr16:29832599-29832619 11 4.55e-04 ACGTGGGGTA TCAGGTGG CT chr1:1015680-1015700 12 5.00e-04 TCCTGGCTGA CCACGTGC T chr9:140009192-140009212 9 5.86e-04 GGGCGGGG TCACGGGG CCGC chr15:72565016-72565036 13 6.93e-04 TGACACGATG GCACGTGG chr2:8820575-8820595 1 1.10e-03 . TCATGGGG CGCATAGCTG chr8:104033280-104033300 1 1.10e-03 . TCAGCTGA CTGCTGGGCT chr3:52091344-52091364 7 1.48e-03 CTTTTT CCACGGGG CCGGTG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCACGTGA MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3:122512675-122512695 9.5e-06 10_[+1]_2 chr22:46957577-46957597 9.5e-06 11_[+1]_1 chr12:53886978-53886998 9.5e-06 3_[+1]_9 chr3:39424810-39424830 9.5e-06 5_[+1]_7 chr2:26987117-26987137 9.5e-06 6_[+1]_6 chr11:107879641-10787966 9.5e-06 1_[+1]_11 chrX:100914886-100914906 9.5e-06 2_[+1]_10 chr3:57678872-57678892 9.5e-06 2_[+1]_10 chr13:49684383-49684403 9.5e-06 10_[+1]_2 chr9:138391743-138391763 9.5e-06 10_[+1]_2 chr1:68962822-68962842 9.5e-06 7_[+1]_5 chr1:42921725-42921745 9.5e-06 6_[+1]_6 chr12:111028773-11102879 9.5e-06 7_[+1]_5 chr10:14050586-14050606 9.5e-06 1_[+1]_11 chr2:241526088-241526108 9.5e-06 9_[+1]_3 chr19:36545314-36545334 9.5e-06 1_[+1]_11 chr12:121342212-12134223 9.5e-06 7_[+1]_5 chr3:158519824-158519844 9.5e-06 2_[+1]_10 chr1:11796091-11796111 9.5e-06 11_[+1]_1 chr13:21635721-21635741 9.5e-06 2_[+1]_10 chrX:100872983-100873003 9.5e-06 1_[+1]_11 chr1:220445880-220445900 9.5e-06 7_[+1]_5 chr11:6640655-6640675 1.4e-05 11_[+1]_1 chr19:19600240-19600260 1.4e-05 10_[+1]_2 chr20:1878336-1878356 1.4e-05 11_[+1]_1 chr1:156265469-156265489 1.4e-05 5_[+1]_7 chr14:91580940-91580960 1.4e-05 11_[+1]_1 chrX:24497378-24497398 1.9e-05 8_[+1]_4 chr19:11487992-11488012 1.9e-05 10_[+1]_2 chrX:101914850-101914870 1.9e-05 12_[+1] chr17:26698378-26698398 3.9e-05 5_[+1]_7 chr9:126102646-126102666 3.9e-05 3_[+1]_9 chr17:77702518-77702538 3.9e-05 [+1]_12 chr19:8509807-8509827 3.9e-05 8_[+1]_4 chr2:29339434-29339454 3.9e-05 9_[+1]_3 chr15:45997987-45998007 3.9e-05 6_[+1]_6 chr5:126112698-126112718 3.9e-05 6_[+1]_6 chr16:50730721-50730741 3.9e-05 12_[+1] chr6:36391219-36391239 3.9e-05 [+1]_12 chr6:44225083-44225103 3.9e-05 [+1]_12 chr17:6939131-6939151 3.9e-05 10_[+1]_2 chr1:44440561-44440581 3.9e-05 12_[+1] chr14:96828506-96828526 3.9e-05 7_[+1]_5 chr3:15387427-15387447 3.9e-05 6_[+1]_6 chr6:158653157-158653177 3.9e-05 9_[+1]_3 chr11:7535156-7535176 3.9e-05 9_[+1]_3 chr13:50159707-50159727 3.9e-05 10_[+1]_2 chr7:2354064-2354084 5.7e-05 6_[+1]_6 chr18:32621282-32621302 5.7e-05 6_[+1]_6 chr7:2393712-2393732 5.7e-05 4_[+1]_8 chr6:43337524-43337544 5.7e-05 4_[+1]_8 chr17:46655790-46655810 5.7e-05 2_[+1]_10 chr18:21699170-21699190 5.7e-05 11_[+1]_1 chr3:16883529-16883549 5.7e-05 7_[+1]_5 chr10:50396464-50396484 5.7e-05 10_[+1]_2 chr17:46688395-46688415 5.7e-05 6_[+1]_6 chr7:32930242-32930262 6.6e-05 7_[+1]_5 chr4:775662-775682 6.6e-05 8_[+1]_4 chr3:38038483-38038503 6.6e-05 3_[+1]_9 chr14:92573081-92573101 6.6e-05 1_[+1]_11 chr13:30969742-30969762 6.6e-05 8_[+1]_4 chr9:74825563-74825583 6.6e-05 4_[+1]_8 chr10:104271880-10427190 7.9e-05 2_[+1]_10 chr17:49199281-49199301 7.9e-05 12_[+1] chr1:31327157-31327177 8.8e-05 2_[+1]_10 chr19:49137813-49137833 0.00013 3_[+1]_9 chr9:139844586-139844606 0.00013 5_[+1]_7 chr2:220083821-220083841 0.00013 8_[+1]_4 chr11:75525863-75525883 0.00016 3_[+1]_9 chr1:39325558-39325578 0.00016 4_[+1]_8 chr16:74729903-74729923 0.00016 3_[+1]_9 chr15:73925889-73925909 0.00016 8_[+1]_4 chr21:44030046-44030066 0.00016 1_[+1]_11 chr3:129409393-129409413 0.00016 4_[+1]_8 chr7:26904449-26904469 0.00016 7_[+1]_5 chr17:21179152-21179172 0.00016 6_[+1]_6 chr4:48205554-48205574 0.00016 12_[+1] chr16:11457396-11457416 0.00016 11_[+1]_1 chr21:40721339-40721359 0.00022 5_[+1]_7 chr2:25496377-25496397 0.00022 9_[+1]_3 chr2:118761027-118761047 0.00024 11_[+1]_1 chr11:44578587-44578607 0.00026 1_[+1]_11 chr1:153934666-153934686 0.00028 5_[+1]_7 chr3:132136301-132136321 0.00033 6_[+1]_6 chr11:8223720-8223740 0.00033 4_[+1]_8 chr3:44903320-44903340 0.00036 [+1]_12 chr20:570140-570160 0.00045 6_[+1]_6 chr16:29832599-29832619 0.00045 10_[+1]_2 chr1:1015680-1015700 0.0005 11_[+1]_1 chr9:140009192-140009212 0.00059 8_[+1]_4 chr15:72565016-72565036 0.00069 12_[+1] chr2:8820575-8820595 0.0011 [+1]_12 chr8:104033280-104033300 0.0011 [+1]_12 chr3:52091344-52091364 0.0015 6_[+1]_6 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCACGTGA MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TCACGTGA width=8 seqs=94 chr3:122512675-122512695 ( 11) TCACGTGA 1 chr22:46957577-46957597 ( 12) TCACGTGA 1 chr12:53886978-53886998 ( 4) TCACGTGA 1 chr3:39424810-39424830 ( 6) TCACGTGA 1 chr2:26987117-26987137 ( 7) TCACGTGA 1 chr11:107879641-10787966 ( 2) TCACGTGA 1 chrX:100914886-100914906 ( 3) TCACGTGA 1 chr3:57678872-57678892 ( 3) TCACGTGA 1 chr13:49684383-49684403 ( 11) TCACGTGA 1 chr9:138391743-138391763 ( 11) TCACGTGA 1 chr1:68962822-68962842 ( 8) TCACGTGA 1 chr1:42921725-42921745 ( 7) TCACGTGA 1 chr12:111028773-11102879 ( 8) TCACGTGA 1 chr10:14050586-14050606 ( 2) TCACGTGA 1 chr2:241526088-241526108 ( 10) TCACGTGA 1 chr19:36545314-36545334 ( 2) TCACGTGA 1 chr12:121342212-12134223 ( 8) TCACGTGA 1 chr3:158519824-158519844 ( 3) TCACGTGA 1 chr1:11796091-11796111 ( 12) TCACGTGA 1 chr13:21635721-21635741 ( 3) TCACGTGA 1 chrX:100872983-100873003 ( 2) TCACGTGA 1 chr1:220445880-220445900 ( 8) TCACGTGA 1 chr11:6640655-6640675 ( 12) TCACATGA 1 chr19:19600240-19600260 ( 11) TCACATGA 1 chr20:1878336-1878356 ( 12) TCACATGA 1 chr1:156265469-156265489 ( 6) TCACATGA 1 chr14:91580940-91580960 ( 12) TCACATGA 1 chrX:24497378-24497398 ( 9) TCATGTGA 1 chr19:11487992-11488012 ( 11) TCATGTGA 1 chrX:101914850-101914870 ( 13) TCATGTGA 1 chr17:26698378-26698398 ( 6) TCACGTGG 1 chr9:126102646-126102666 ( 4) TCACGTGG 1 chr17:77702518-77702538 ( 1) TCACGTGG 1 chr19:8509807-8509827 ( 9) TCACGTGG 1 chr2:29339434-29339454 ( 10) TCACGTGG 1 chr15:45997987-45998007 ( 7) TCACGTGG 1 chr5:126112698-126112718 ( 7) TCACGTGG 1 chr16:50730721-50730741 ( 13) TCACGTGG 1 chr6:36391219-36391239 ( 1) TCACGTGG 1 chr6:44225083-44225103 ( 1) TCACGTGG 1 chr17:6939131-6939151 ( 11) TCACGTGG 1 chr1:44440561-44440581 ( 13) TCACGTGG 1 chr14:96828506-96828526 ( 8) TCACGTGG 1 chr3:15387427-15387447 ( 7) TCACGTGG 1 chr6:158653157-158653177 ( 10) TCACGTGG 1 chr11:7535156-7535176 ( 10) TCACGTGG 1 chr13:50159707-50159727 ( 11) TCACGTGG 1 chr7:2354064-2354084 ( 7) CCACGTGA 1 chr18:32621282-32621302 ( 7) CCACGTGA 1 chr7:2393712-2393732 ( 5) CCACGTGA 1 chr6:43337524-43337544 ( 5) CCACGTGA 1 chr17:46655790-46655810 ( 3) CCACGTGA 1 chr18:21699170-21699190 ( 12) CCACGTGA 1 chr3:16883529-16883549 ( 8) CCACGTGA 1 chr10:50396464-50396484 ( 11) CCACGTGA 1 chr17:46688395-46688415 ( 7) CCACGTGA 1 chr7:32930242-32930262 ( 8) ACACGTGA 1 chr4:775662-775682 ( 9) ACACGTGA 1 chr3:38038483-38038503 ( 4) ACACGTGA 1 chr14:92573081-92573101 ( 2) ACACGTGA 1 chr13:30969742-30969762 ( 9) ACACGTGA 1 chr9:74825563-74825583 ( 5) ACACGTGA 1 chr10:104271880-10427190 ( 3) TCACGTGT 1 chr17:49199281-49199301 ( 13) TCACGTGT 1 chr1:31327157-31327177 ( 3) TCACATGG 1 chr19:49137813-49137833 ( 4) TCACGTGC 1 chr9:139844586-139844606 ( 6) TCACGTGC 1 chr2:220083821-220083841 ( 9) TCACGTGC 1 chr11:75525863-75525883 ( 4) TCAGGTGA 1 chr1:39325558-39325578 ( 5) TCACCTGA 1 chr16:74729903-74729923 ( 4) CCATGTGA 1 chr15:73925889-73925909 ( 9) CCATGTGA 1 chr21:44030046-44030066 ( 2) CCATGTGA 1 chr3:129409393-129409413 ( 5) CCATGTGA 1 chr7:26904449-26904469 ( 8) TCACCTGA 1 chr17:21179152-21179172 ( 7) CCATGTGA 1 chr4:48205554-48205574 ( 13) CCATGTGA 1 chr16:11457396-11457416 ( 12) ACACATGA 1 chr21:40721339-40721359 ( 6) TCACGGGA 1 chr2:25496377-25496397 ( 10) CCACGTGG 1 chr2:118761027-118761047 ( 12) GCACGTGA 1 chr11:44578587-44578607 ( 2) TCACATGT 1 chr1:153934666-153934686 ( 6) TCACATGC 1 chr3:132136301-132136321 ( 7) TCTCGTGA 1 chr11:8223720-8223740 ( 5) CCACGTGT 1 chr3:44903320-44903340 ( 1) TCACAGGA 1 chr20:570140-570160 ( 7) GCACATGA 1 chr16:29832599-29832619 ( 11) TCAGGTGG 1 chr1:1015680-1015700 ( 12) CCACGTGC 1 chr9:140009192-140009212 ( 9) TCACGGGG 1 chr15:72565016-72565036 ( 13) GCACGTGG 1 chr2:8820575-8820595 ( 1) TCATGGGG 1 chr8:104033280-104033300 ( 1) TCAGCTGA 1 chr3:52091344-52091364 ( 7) CCACGGGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCACGTGA MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 7.30664 E= 1.8e-140 -113 -69 -341 201 -1320 162 -1320 -1320 260 -1320 -1320 -401 -1320 140 -341 -69 -48 -335 132 -1320 -1320 -1320 -268 247 -1320 -1320 155 -1320 200 -261 -41 -201 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCACGTGA MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 94 E= 1.8e-140 0.074468 0.202128 0.031915 0.691489 0.000000 1.000000 0.000000 0.000000 0.989362 0.000000 0.000000 0.010638 0.000000 0.861702 0.031915 0.106383 0.117021 0.031915 0.851064 0.000000 0.000000 0.000000 0.053191 0.946809 0.000000 0.000000 1.000000 0.000000 0.648936 0.053191 0.255319 0.042553 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCACGTGA MEME-1 regular expression -------------------------------------------------------------------------------- [TC]CACGTG[AG] -------------------------------------------------------------------------------- Time 2.26 secs. ******************************************************************************** ******************************************************************************** MOTIF SGTCACGT MEME-2 width = 8 sites = 12 llr = 105 E-value = 2.1e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif SGTCACGT MEME-2 Description -------------------------------------------------------------------------------- Simplified A 11::a::1 pos.-specific C 3:3a:a:: probability G 69::::a: matrix T ::8::::9 bits 2.6 * 2.4 * 2.1 * * 1.8 * * Relative 1.6 ****** Entropy 1.3 ******* (12.7 bits) 1.0 ******* 0.8 ******* 0.5 ******* 0.3 ******** 0.0 -------- Multilevel GGTCACGT consensus C C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SGTCACGT MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr19:4007692-4007712 12 1.99e-05 AGTGGTGAGC GGTCACGT G chr11:113746448-11374646 12 1.99e-05 ACCAGACGTC GGTCACGT G chr15:50979032-50979052 13 1.99e-05 ccgcgggTCG GGTCACGT chr6:150326487-150326507 12 3.90e-05 CTCCGGGGCT CGTCACGT G chr16:21963915-21963935 13 3.90e-05 CGCCCCAAGT CGTCACGT chr17:80455115-80455135 12 3.90e-05 AGCCGCCGGC CGTCACGT G chr4:164471551-164471571 13 4.85e-05 CTTCCGTAAC AGTCACGT chr19:4670413-4670433 6 9.60e-05 CCGGA GGCCACGT CGGCGTC chr6:163835100-163835120 12 9.60e-05 CTACGTGTCG GGCCACGT G chrX:100872983-100873003 11 9.60e-05 GTCACGTGAC GGCCACGT CA chr1:173446180-173446200 13 1.42e-04 CCGAGCCCCG CATCACGT chr1:2487188-2487208 2 1.61e-04 G GGTCACGA GGTTCCATGT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SGTCACGT MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr19:4007692-4007712 2e-05 11_[+2]_1 chr11:113746448-11374646 2e-05 11_[+2]_1 chr15:50979032-50979052 2e-05 12_[+2] chr6:150326487-150326507 3.9e-05 11_[+2]_1 chr16:21963915-21963935 3.9e-05 12_[+2] chr17:80455115-80455135 3.9e-05 11_[+2]_1 chr4:164471551-164471571 4.9e-05 12_[+2] chr19:4670413-4670433 9.6e-05 5_[+2]_7 chr6:163835100-163835120 9.6e-05 11_[+2]_1 chrX:100872983-100873003 9.6e-05 10_[+2]_2 chr1:173446180-173446200 0.00014 12_[+2] chr1:2487188-2487208 0.00016 1_[+2]_11 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SGTCACGT MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF SGTCACGT width=8 seqs=12 chr19:4007692-4007712 ( 12) GGTCACGT 1 chr11:113746448-11374646 ( 12) GGTCACGT 1 chr15:50979032-50979052 ( 13) GGTCACGT 1 chr6:150326487-150326507 ( 12) CGTCACGT 1 chr16:21963915-21963935 ( 13) CGTCACGT 1 chr17:80455115-80455135 ( 12) CGTCACGT 1 chr4:164471551-164471571 ( 13) AGTCACGT 1 chr19:4670413-4670433 ( 6) GGCCACGT 1 chr6:163835100-163835120 ( 12) GGCCACGT 1 chrX:100872983-100873003 ( 11) GGCCACGT 1 chr1:173446180-173446200 ( 13) CATCACGT 1 chr1:2487188-2487208 ( 2) GGTCACGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SGTCACGT MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 8.52481 E= 2.1e+000 -96 3 78 -1023 -96 -1023 143 -1023 -1023 -38 -1023 213 -1023 162 -1023 -1023 262 -1023 -1023 -1023 -1023 162 -1023 -1023 -1023 -1023 155 -1023 -96 -1023 -1023 242 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SGTCACGT MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 12 E= 2.1e+000 0.083333 0.333333 0.583333 0.000000 0.083333 0.000000 0.916667 0.000000 0.000000 0.250000 0.000000 0.750000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.083333 0.000000 0.000000 0.916667 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif SGTCACGT MEME-2 regular expression -------------------------------------------------------------------------------- [GC]G[TC]CACGT -------------------------------------------------------------------------------- Time 3.03 secs. ******************************************************************************** ******************************************************************************** MOTIF TGRCCAAT MEME-3 width = 8 sites = 11 llr = 98 E-value = 1.6e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGRCCAAT MEME-3 Description -------------------------------------------------------------------------------- Simplified A 234::aa: pos.-specific C 21:aa::: probability G :66::::2 matrix T 6::::::8 bits 2.6 ** 2.4 ** 2.1 ** 1.8 ** Relative 1.6 ***** Entropy 1.3 ***** (12.8 bits) 1.0 * ****** 0.8 * ****** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel TGGCCAAT consensus AA sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGRCCAAT MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr1:220621777-220621797 8 4.58e-06 tggattc tgaccaat gggtc chr5:90677631-90677651 8 6.77e-06 ACGCGTG TAACCAAT CTGCT chr16:27386551-27386571 13 1.63e-05 gactcaggct tggccaat chr2:37788904-37788924 11 1.63e-05 tggcttgctt tggccaat ga chr17:19552019-19552039 12 3.64e-05 TGGGCCGCCC AGGCCAAT A chr5:150537398-150537418 1 3.64e-05 . AGGCCAAT CCGGCGCGCC chr12:2986352-2986372 8 8.54e-05 CGGAACG TCGCCAAT CGGCG chr1:33896748-33896768 8 1.03e-04 GCCGCTC CAGCCAAT GGTCA chr5:132299344-132299364 3 1.03e-04 TG TGACCAAG ACCGGGCGGG chrX:100878118-100878138 2 1.03e-04 G TGACCAAG AGCTGACGTG chr7:27135684-27135704 6 1.03e-04 GGTGT CAGCCAAT GGCTGAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGRCCAAT MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:220621777-220621797 4.6e-06 7_[+3]_5 chr5:90677631-90677651 6.8e-06 7_[+3]_5 chr16:27386551-27386571 1.6e-05 12_[+3] chr2:37788904-37788924 1.6e-05 10_[+3]_2 chr17:19552019-19552039 3.6e-05 11_[+3]_1 chr5:150537398-150537418 3.6e-05 [+3]_12 chr12:2986352-2986372 8.5e-05 7_[+3]_5 chr1:33896748-33896768 0.0001 7_[+3]_5 chr5:132299344-132299364 0.0001 2_[+3]_10 chrX:100878118-100878138 0.0001 1_[+3]_11 chr7:27135684-27135704 0.0001 5_[+3]_7 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGRCCAAT MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TGRCCAAT width=8 seqs=11 chr1:220621777-220621797 ( 8) TGACCAAT 1 chr5:90677631-90677651 ( 8) TAACCAAT 1 chr16:27386551-27386571 ( 13) TGGCCAAT 1 chr2:37788904-37788924 ( 11) TGGCCAAT 1 chr17:19552019-19552039 ( 12) AGGCCAAT 1 chr5:150537398-150537418 ( 1) AGGCCAAT 1 chr12:2986352-2986372 ( 8) TCGCCAAT 1 chr1:33896748-33896768 ( 8) CAGCCAAT 1 chr5:132299344-132299364 ( 3) TGACCAAG 1 chrX:100878118-100878138 ( 2) TGACCAAG 1 chr7:27135684-27135704 ( 6) CAGCCAAT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGRCCAAT MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 9.73854 E= 1.6e+001 16 -84 -1010 189 74 -184 90 -1010 116 -1010 90 -1010 -1010 162 -1010 -1010 -1010 162 -1010 -1010 262 -1010 -1010 -1010 262 -1010 -1010 -1010 -1010 -1010 -90 226 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGRCCAAT MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 11 E= 1.6e+001 0.181818 0.181818 0.000000 0.636364 0.272727 0.090909 0.636364 0.000000 0.363636 0.000000 0.636364 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.181818 0.818182 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGRCCAAT MEME-3 regular expression -------------------------------------------------------------------------------- T[GA][GA]CCAAT -------------------------------------------------------------------------------- Time 3.86 secs. ******************************************************************************** ******************************************************************************** MOTIF AMCTARAA MEME-4 width = 8 sites = 2 llr = 23 E-value = 3.1e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif AMCTARAA MEME-4 Description -------------------------------------------------------------------------------- Simplified A a5::a5aa pos.-specific C :5a::::: probability G :::::5:: matrix T :::a:::: bits 2.6 * ** ** 2.4 * ** ** 2.1 * ** ** 1.8 * ** ** Relative 1.6 * *** ** Entropy 1.3 * *** ** (16.9 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel AACTAAAA consensus C G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AMCTARAA MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr18:21699170-21699190 2 3.14e-06 T ACCTAAAA GGCCACGTGA chr4:36243597-36243617 10 5.32e-06 CAACTTTCT AACTAGAA AAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AMCTARAA MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr18:21699170-21699190 3.1e-06 1_[+4]_11 chr4:36243597-36243617 5.3e-06 9_[+4]_3 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AMCTARAA MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF AMCTARAA width=8 seqs=2 chr18:21699170-21699190 ( 2) ACCTAAAA 1 chr4:36243597-36243617 ( 10) AACTAGAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AMCTARAA MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 10.6653 E= 3.1e+003 261 -765 -765 -765 162 62 -765 -765 -765 161 -765 -765 -765 -765 -765 254 261 -765 -765 -765 162 -765 55 -765 261 -765 -765 -765 261 -765 -765 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AMCTARAA MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 3.1e+003 1.000000 0.000000 0.000000 0.000000 0.500000 0.500000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.500000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AMCTARAA MEME-4 regular expression -------------------------------------------------------------------------------- A[AC]CTA[AG]AA -------------------------------------------------------------------------------- Time 4.53 secs. ******************************************************************************** ******************************************************************************** MOTIF GACAAGAC MEME-5 width = 8 sites = 2 llr = 23 E-value = 3.7e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GACAAGAC MEME-5 Description -------------------------------------------------------------------------------- Simplified A :a:aa:a: pos.-specific C ::a::::a probability G a::::a:: matrix T :::::::: bits 2.6 * ** * 2.4 * ** * 2.1 * ** * 1.8 * ** * Relative 1.6 ******** Entropy 1.3 ******** (16.8 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel GACAAGAC consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GACAAGAC MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr16:89428869-89428889 9 8.67e-06 CCGGAAGG GACAAGAC TCAA chr10:50396464-50396484 3 8.67e-06 AG GACAAGAC CCACGTGACT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GACAAGAC MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr16:89428869-89428889 8.7e-06 8_[+5]_4 chr10:50396464-50396484 8.7e-06 2_[+5]_10 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GACAAGAC MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GACAAGAC width=8 seqs=2 chr16:89428869-89428889 ( 9) GACAAGAC 1 chr10:50396464-50396484 ( 3) GACAAGAC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GACAAGAC MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 10.6653 E= 3.7e+003 -765 -765 155 -765 261 -765 -765 -765 -765 161 -765 -765 261 -765 -765 -765 261 -765 -765 -765 -765 -765 155 -765 261 -765 -765 -765 -765 161 -765 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GACAAGAC MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 3.7e+003 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GACAAGAC MEME-5 regular expression -------------------------------------------------------------------------------- GACAAGAC -------------------------------------------------------------------------------- Time 5.27 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr10:77162190-77162210 4.37e-01 20 chr13:50159707-50159727 1.74e-04 8_[+2(1.99e-05)]_4 chr16:29832599-29832619 9.45e-02 20 chr11:44578587-44578607 1.96e-02 20 chr17:46688395-46688415 2.90e-04 6_[+1(5.72e-05)]_6 chr5:150537398-150537418 3.24e-02 [+3(3.64e-05)]_12 chrX:55744129-55744149 6.17e-01 20 chrX:101914850-101914870 1.60e-03 12_[+1(1.91e-05)] chr3:184032306-184032326 8.99e-01 20 chr7:27135684-27135704 8.58e-02 20 chr10:50396464-50396484 5.59e-07 2_[+5(8.67e-06)]_[+1(5.72e-05)]_2 chr1:173446180-173446200 6.98e-02 20 chr9:74825563-74825583 5.77e-03 4_[+1(6.63e-05)]_8 chr17:80455115-80455135 5.31e-02 11_[+2(3.90e-05)]_1 chr20:31407550-31407570 2.59e-01 20 chr3:16883529-16883549 1.69e-04 7_[+1(5.72e-05)]_5 chr19:11487992-11488012 1.49e-03 10_[+1(1.91e-05)]_2 chr13:30969742-30969762 1.00e-04 8_[+1(6.63e-05)]_4 chr18:21699170-21699190 7.16e-09 1_[+4(3.14e-06)]_2_[+1(5.72e-05)]_1 chr14:92573081-92573101 3.24e-03 1_[+1(6.63e-05)]_11 chrX:100878118-100878138 1.90e-04 20 chrX:24497378-24497398 8.81e-03 8_[+1(1.91e-05)]_4 chr11:61501030-61501050 9.89e-01 20 chr11:7535156-7535176 2.90e-04 7_[+2(3.90e-05)]_5 chr2:208576132-208576152 9.97e-01 20 chr19:49835012-49835032 4.92e-02 20 chr7:6312315-6312335 9.53e-01 20 chr5:112073520-112073540 8.77e-01 20 chr2:211035514-211035534 8.12e-01 20 chr15:44084254-44084274 8.92e-01 20 chr17:46655790-46655810 3.78e-03 2_[+1(5.72e-05)]_10 chr6:158653157-158653177 2.47e-04 7_[+2(1.99e-05)]_5 chr2:118761027-118761047 8.67e-03 20 chr20:33413561-33413581 6.91e-01 20 chr10:70883921-70883941 8.89e-01 20 chr20:570140-570160 2.31e-04 20 chr17:19552019-19552039 1.28e-02 11_[+3(3.64e-05)]_1 chr17:79925901-79925921 1.00e+00 20 chr19:18452200-18452220 4.18e-01 20 chr12:112451173-11245119 8.86e-01 20 chrX:13671191-13671211 7.68e-01 20 chr20:443225-443245 8.88e-01 20 chr14:91580940-91580960 3.68e-05 11_[+1(1.41e-05)]_1 chr9:140523254-140523274 2.51e-01 20 chrX:102883825-102883845 6.52e-01 20 chr1:156265469-156265489 9.41e-05 5_[+1(1.41e-05)]_7 chr17:8095643-8095663 8.91e-01 20 chr21:44299158-44299178 7.14e-01 20 chr1:226271208-226271228 4.86e-01 20 chr20:1878336-1878356 1.43e-03 11_[+1(1.41e-05)]_1 chr1:220445880-220445900 9.90e-06 7_[+1(9.54e-06)]_5 chrX:100872983-100873003 1.40e-05 1_[+1(9.54e-06)]_1_[+2(9.60e-05)]_2 chr2:45837708-45837728 8.98e-02 20 chr19:8305387-8305407 9.21e-01 20 chr13:21635721-21635741 2.08e-05 2_[+1(9.54e-06)]_10 chr22:22523102-22523122 1.02e-01 20 chr11:3071281-3071301 7.16e-01 20 chr4:48205554-48205574 4.54e-02 20 chr3:15387427-15387447 2.23e-05 4_[+2(3.90e-05)]_8 chr5:172198318-172198338 4.39e-01 20 chr17:21179152-21179172 1.14e-03 20 chr11:71814504-71814524 7.92e-01 20 chr16:89428869-89428889 2.23e-03 8_[+5(8.67e-06)]_4 chr6:159495543-159495563 5.30e-01 20 chr2:37788904-37788924 2.59e-02 10_[+3(1.63e-05)]_2 chr12:108662390-10866241 6.65e-01 20 chr12:133069209-13306922 2.34e-01 20 chr5:68628655-68628675 2.29e-01 20 chr14:96828506-96828526 1.02e-03 7_[+1(3.90e-05)]_5 chr16:21963915-21963935 1.53e-02 12_[+2(3.90e-05)] chr5:141392625-141392645 1.37e-01 20 chr1:2487188-2487208 1.25e-02 20 chr11:8223720-8223740 1.64e-02 20 chr12:72148628-72148648 6.15e-02 20 chr1:44440561-44440581 2.94e-04 10_[+2(1.99e-05)]_2 chr5:131132844-131132864 3.99e-01 20 chr1:220621777-220621797 8.58e-03 7_[+3(4.58e-06)]_5 chr19:19600240-19600260 4.41e-04 10_[+1(1.41e-05)]_2 chr21:38936173-38936193 8.88e-01 20 chr2:120097006-120097026 3.98e-01 20 chr1:11796091-11796111 1.84e-05 11_[+1(9.54e-06)]_1 chr5:90677631-90677651 2.00e-03 7_[+3(6.77e-06)]_5 chr2:220083821-220083841 2.99e-04 6_[+2(1.99e-05)]_6 chr7:26904449-26904469 1.60e-03 20 chr2:43449181-43449201 5.04e-01 20 chr8:104033280-104033300 2.69e-01 20 chr2:25496377-25496397 1.74e-02 20 chr1:156427192-156427212 1.76e-01 20 chr15:34611034-34611054 6.39e-01 20 chr3:158519824-158519844 1.06e-04 2_[+1(9.54e-06)]_10 chr6:163835100-163835120 2.68e-02 11_[+2(9.60e-05)]_1 chr17:6939131-6939151 4.48e-04 8_[+2(3.90e-05)]_4 chr15:40213195-40213215 6.88e-01 20 chr9:139844586-139844606 2.90e-04 3_[+2(1.99e-05)]_9 chr12:121342212-12134223 6.90e-04 7_[+1(9.54e-06)]_5 chr16:2041278-2041298 9.97e-01 20 chr3:129409393-129409413 4.54e-04 20 chr3:52091344-52091364 3.84e-01 20 chr6:44225083-44225103 3.99e-02 [+1(3.90e-05)]_12 chr15:50979032-50979052 3.55e-02 12_[+2(1.99e-05)] chr19:36545314-36545334 2.93e-05 1_[+1(9.54e-06)]_11 chr3:169899574-169899594 3.39e-01 20 chr6:36391219-36391239 1.26e-02 [+1(3.90e-05)]_12 chr1:26232964-26232984 9.81e-01 20 chr16:50730721-50730741 2.77e-04 12_[+1(3.90e-05)] chr5:132299344-132299364 2.26e-04 20 chr2:241526088-241526108 1.87e-04 9_[+1(9.54e-06)]_3 chr5:126112698-126112718 8.60e-05 6_[+1(3.90e-05)]_6 chr19:5680967-5680987 8.97e-01 20 chr6:106440467-106440487 4.00e-01 20 chr20:40321485-40321505 2.66e-01 20 chr9:140009192-140009212 3.06e-02 20 chr1:155294193-155294213 6.82e-01 20 chr14:93799482-93799502 5.56e-01 20 chr19:47633956-47633976 9.98e-01 20 chr1:28559532-28559552 8.61e-01 20 chr15:45997987-45998007 3.06e-05 4_[+2(1.99e-05)]_8 chr10:14050586-14050606 2.84e-03 1_[+1(9.54e-06)]_11 chr1:151170912-151170932 2.18e-01 20 chr8:72760985-72761005 2.03e-01 20 chr21:44030046-44030066 2.75e-02 20 chr22:50964087-50964107 8.77e-01 20 chrX:30671257-30671277 9.60e-01 20 chr12:111028773-11102879 1.03e-05 7_[+1(9.54e-06)]_5 chr15:73925889-73925909 1.78e-03 20 chr2:8820575-8820595 3.13e-01 20 chr5:36725307-36725327 4.17e-02 20 chr16:88923489-88923509 4.54e-01 20 chr12:65153221-65153241 8.51e-01 20 chr6:43337524-43337544 9.40e-05 4_[+1(5.72e-05)]_8 chr19:40324865-40324885 5.91e-01 20 chr16:69796197-69796217 8.03e-01 20 chr3:170626586-170626606 8.82e-01 20 chr3:50628066-50628086 8.90e-01 20 chr1:42921725-42921745 3.47e-05 6_[+1(9.54e-06)]_6 chr6:31865514-31865534 6.01e-01 20 chr19:49137813-49137833 1.10e-03 1_[+2(4.85e-05)]_11 chr12:76953651-76953671 9.99e-01 20 chr11:6640655-6640675 8.27e-05 11_[+1(1.41e-05)]_1 chr22:35695856-35695876 9.86e-01 20 chr5:176937429-176937449 5.07e-01 20 chr7:2393712-2393732 2.34e-03 4_[+1(5.72e-05)]_8 chr16:58718670-58718690 6.28e-01 20 chr18:3013536-3013556 5.14e-01 20 chr17:49199281-49199301 4.35e-03 12_[+1(7.87e-05)] chr3:13082017-13082037 2.22e-01 20 chr11:17230033-17230053 7.91e-01 20 chr17:33895038-33895058 4.52e-01 20 chr1:15930167-15930187 2.63e-01 20 chr16:84178783-84178803 8.92e-01 20 chr3:38038483-38038503 7.67e-04 3_[+1(6.63e-05)]_9 chr1:25314807-25314827 2.28e-01 20 chr17:18759592-18759612 2.15e-01 20 chr5:64777813-64777833 5.31e-01 20 chr5:176730728-176730748 6.81e-01 20 chr19:18133131-18133151 4.93e-01 20 chr16:4588860-4588880 1.01e-01 20 chr2:29339434-29339454 1.58e-04 9_[+1(3.90e-05)]_3 chr16:74729903-74729923 3.35e-04 20 chr8:144352158-144352178 9.87e-01 20 chr1:1015680-1015700 8.21e-04 20 chr9:131709918-131709938 9.47e-01 20 chr4:36243597-36243617 2.32e-03 9_[+4(5.32e-06)]_3 chr2:42396368-42396388 8.63e-02 20 chr1:68962822-68962842 2.67e-05 7_[+1(9.54e-06)]_5 chr1:6661315-6661335 8.58e-01 20 chr19:8509807-8509827 2.47e-04 6_[+2(1.99e-05)]_6 chr8:99129476-99129496 4.09e-01 20 chr1:31327157-31327177 2.92e-03 2_[+1(8.83e-05)]_10 chr17:38269619-38269639 9.79e-01 20 chr12:120755576-12075559 3.97e-01 20 chr21:38445507-38445527 9.54e-01 20 chr15:72565016-72565036 8.07e-03 20 chr12:113623364-11362338 9.83e-01 20 chr9:34646565-34646585 4.06e-01 20 chr9:138391743-138391763 3.85e-06 10_[+1(9.54e-06)]_2 chr16:9233943-9233963 3.04e-01 20 chr3:51428617-51428637 9.64e-01 20 chr5:172410749-172410769 9.76e-01 20 chr12:2986352-2986372 2.77e-02 7_[+3(8.54e-05)]_5 chr1:203240312-203240332 1.93e-01 20 chr4:164471551-164471571 1.64e-02 12_[+2(4.85e-05)] chr3:44903320-44903340 7.03e-03 20 chr15:40857382-40857402 7.93e-01 20 chr13:49684383-49684403 1.77e-04 10_[+1(9.54e-06)]_2 chr2:107920630-107920650 7.83e-01 20 chr5:40486693-40486713 8.62e-01 20 chr20:10492392-10492412 9.50e-01 20 chr3:57678872-57678892 6.53e-06 2_[+1(9.54e-06)]_10 chr20:37590823-37590843 9.84e-01 20 chr1:154600480-154600500 4.16e-01 20 chr19:10426688-10426708 4.65e-01 20 chrX:100914886-100914906 6.57e-05 2_[+1(9.54e-06)]_10 chr3:132136301-132136321 1.65e-02 20 chr6:7590380-7590400 1.95e-01 20 chr11:63706658-63706678 3.85e-01 20 chr1:33896748-33896768 8.04e-02 20 chr11:107879641-10787966 2.50e-04 1_[+1(9.54e-06)]_11 chr1:39325558-39325578 1.72e-03 20 chr19:14477639-14477659 5.71e-02 20 chr3:195277175-195277195 8.85e-02 20 chr14:105487776-10548779 8.52e-01 20 chr11:113746448-11374646 1.78e-04 11_[+2(1.99e-05)]_1 chr17:40719046-40719066 9.99e-01 20 chr2:26987117-26987137 2.67e-05 6_[+1(9.54e-06)]_6 chr21:40721339-40721359 4.18e-03 20 chr7:140098346-140098366 6.72e-01 20 chr3:39424810-39424830 1.71e-05 5_[+1(9.54e-06)]_7 chr17:21226445-21226465 9.05e-01 20 chr12:53886978-53886998 1.90e-04 3_[+1(9.54e-06)]_9 chr3:197686906-197686926 9.95e-01 20 chr4:775662-775682 2.19e-02 8_[+1(6.63e-05)]_4 chr4:37688288-37688308 5.28e-01 20 chr22:46957577-46957597 2.66e-05 11_[+1(9.54e-06)]_1 chr10:104271880-10427190 9.44e-05 [+2(1.99e-05)]_12 chr17:77702518-77702538 3.99e-02 [+1(3.90e-05)]_12 chr11:68606849-68606869 1.84e-01 20 chr1:171454578-171454598 9.98e-01 20 chr19:4007692-4007712 2.43e-02 11_[+2(1.99e-05)]_1 chr9:126102646-126102666 9.89e-04 3_[+1(3.90e-05)]_9 chr1:28195751-28195771 7.62e-01 20 chr11:1785172-1785192 8.31e-01 20 chr7:92054065-92054085 3.22e-02 20 chr16:11457396-11457416 1.14e-03 20 chr18:32621282-32621302 3.17e-05 6_[+1(5.72e-05)]_6 chr7:32930242-32930262 1.50e-06 7_[+1(6.63e-05)]_5 chr3:167468256-167468276 9.90e-01 20 chr6:150326487-150326507 2.62e-02 11_[+2(3.90e-05)]_1 chr4:17616193-17616213 5.91e-02 20 chr19:5143585-5143605 4.66e-01 20 chr1:2477566-2477586 3.57e-01 20 chr1:228594653-228594673 7.36e-01 20 chr17:26698378-26698398 2.07e-03 5_[+1(3.90e-05)]_7 chr3:122512675-122512695 6.04e-06 10_[+1(9.54e-06)]_2 chr2:98612697-98612717 4.30e-01 20 chr16:88877899-88877919 9.87e-01 20 chr11:8615852-8615872 3.57e-01 20 chr19:4670413-4670433 3.17e-03 5_[+2(9.60e-05)]_7 chr17:7819254-7819274 8.77e-01 20 chr7:2354064-2354084 1.04e-02 6_[+1(5.72e-05)]_6 chr16:27386551-27386571 1.13e-02 12_[+3(1.63e-05)] chr14:65569260-65569280 9.15e-01 20 chr1:153934666-153934686 7.30e-04 20 chr1:78148640-78148660 9.85e-01 20 chr12:51157720-51157740 6.85e-01 20 chr11:75525863-75525883 9.08e-03 20 chr6:37534188-37534208 5.54e-01 20 chr16:4897391-4897411 5.64e-01 20 chr22:38577856-38577876 3.91e-01 20 chr17:60143339-60143359 4.42e-01 20 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c22n05.farnam.hpc.yale.internal ********************************************************************************