******************************************************************************** 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/K562/fasta/RankLinear0.6_40/RBM22.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr12:111885508-11188558 1.0000 80 chr19:11216042-11216122 1.0000 80 chr16:87866866-87866946 1.0000 80 chr19:50434068-50434148 1.0000 80 chr11:77921348-77921428 1.0000 80 chr16:89362068-89362148 1.0000 80 chr20:45867738-45867818 1.0000 80 chr16:89352694-89352774 1.0000 80 chr1:16267883-16267963 1.0000 80 chr20:371953-372033 1.0000 80 chr16:88955306-88955386 1.0000 80 chr19:50436133-50436213 1.0000 80 chr19:55526318-55526398 1.0000 80 chr19:807267-807347 1.0000 80 chr9:128002340-128002420 1.0000 80 chr6:7248173-7248253 1.0000 80 chr1:16263712-16263792 1.0000 80 chr21:36164751-36164831 1.0000 80 chr16:89401121-89401201 1.0000 80 chr16:87873492-87873572 1.0000 80 chr6:7246653-7246733 1.0000 80 chr1:227173034-227173114 1.0000 80 chr16:87863379-87863459 1.0000 80 chr4:757156-757236 1.0000 80 chr16:88961965-88962045 1.0000 80 chr10:73574832-73574912 1.0000 80 chr20:368825-368905 1.0000 80 chr4:39773064-39773144 1.0000 80 chr6:7249046-7249126 1.0000 80 chr16:89433761-89433841 1.0000 80 chr12:111882563-11188264 1.0000 80 chr20:45837565-45837645 1.0000 80 chr16:89332330-89332410 1.0000 80 chr16:81697916-81697996 1.0000 80 chr16:88788360-88788440 1.0000 80 chr20:62154731-62154811 1.0000 80 chr6:43755257-43755337 1.0000 80 chr21:34923334-34923414 1.0000 80 chr6:15513610-15513690 1.0000 80 chr16:87871540-87871620 1.0000 80 chr16:88939253-88939333 1.0000 80 chr1:155920874-155920954 1.0000 80 chr16:87862146-87862226 1.0000 80 chr7:128588835-128588915 1.0000 80 chr16:85691097-85691177 1.0000 80 chr17:74268491-74268571 1.0000 80 chr4:1980575-1980655 1.0000 80 chr16:85687317-85687397 1.0000 80 chr18:9949471-9949551 1.0000 80 chr10:73577644-73577724 1.0000 80 chr16:89408331-89408411 1.0000 80 chr11:65620157-65620237 1.0000 80 chr16:85689077-85689157 1.0000 80 chr19:15348938-15349018 1.0000 80 chr1:11844453-11844533 1.0000 80 chr1:27107045-27107125 1.0000 80 chr12:57630085-57630165 1.0000 80 chr20:57582198-57582278 1.0000 80 chr6:7217204-7217284 1.0000 80 chr16:87864379-87864459 1.0000 80 chr16:87868294-87868374 1.0000 80 chr16:88938287-88938367 1.0000 80 chr21:46862709-46862789 1.0000 80 chr19:3456341-3456421 1.0000 80 chr7:127743726-127743806 1.0000 80 chr6:43749136-43749216 1.0000 80 chr16:85694902-85694982 1.0000 80 chr2:241771920-241772000 1.0000 80 chr1:33237504-33237584 1.0000 80 chr21:36192064-36192144 1.0000 80 chr8:145540324-145540404 1.0000 80 chr3:47891390-47891470 1.0000 80 chr6:158363580-158363660 1.0000 80 chr1:155911984-155912064 1.0000 80 chr9:128000588-128000668 1.0000 80 chr19:5693400-5693480 1.0000 80 chr19:3464101-3464181 1.0000 80 chr7:128486127-128486207 1.0000 80 chr11:77924094-77924174 1.0000 80 chrX:39951148-39951228 1.0000 80 chr1:16260896-16260976 1.0000 80 chr19:15334365-15334445 1.0000 80 chr16:89804581-89804661 1.0000 80 chr16:87872741-87872821 1.0000 80 chr21:44473973-44474053 1.0000 80 chr19:55690771-55690851 1.0000 80 chr19:10943686-10943766 1.0000 80 chr20:362038-362118 1.0000 80 chr16:89364751-89364831 1.0000 80 chr1:28607269-28607349 1.0000 80 chr16:89359141-89359221 1.0000 80 chr9:127997288-127997368 1.0000 80 chr12:111891448-11189152 1.0000 80 chr10:868301-868381 1.0000 80 chr20:49204259-49204339 1.0000 80 chr19:2278703-2278783 1.0000 80 chr15:90728476-90728556 1.0000 80 chr16:89384712-89384792 1.0000 80 chr16:81743131-81743211 1.0000 80 chr19:13266824-13266904 1.0000 80 chr1:228286414-228286494 1.0000 80 chr3:42814702-42814782 1.0000 80 chr2:74648737-74648817 1.0000 80 chr12:9904828-9904908 1.0000 80 chr16:24046751-24046831 1.0000 80 chr6:32940690-32940770 1.0000 80 chr3:39222400-39222480 1.0000 80 chr10:73576372-73576452 1.0000 80 chr9:125874520-125874600 1.0000 80 chr1:27729889-27729969 1.0000 80 chr19:55558735-55558815 1.0000 80 chr1:32827000-32827080 1.0000 80 chr8:41583150-41583230 1.0000 80 chr1:183901799-183901879 1.0000 80 chr1:151682820-151682900 1.0000 80 chr22:42299102-42299182 1.0000 80 chr16:85676471-85676551 1.0000 80 chr3:171927635-171927715 1.0000 80 chr1:8421039-8421119 1.0000 80 chr17:79479404-79479484 1.0000 80 chr19:4357366-4357446 1.0000 80 chr16:89401967-89402047 1.0000 80 chr1:27731720-27731800 1.0000 80 chr16:88945758-88945838 1.0000 80 chr12:111882766-11188284 1.0000 80 chr19:2050388-2050468 1.0000 80 chr6:43755473-43755553 1.0000 80 chr4:56458355-56458435 1.0000 80 chr16:759703-759783 1.0000 80 chr16:88947872-88947952 1.0000 80 chr2:232469516-232469596 1.0000 80 chr16:88937141-88937221 1.0000 80 chr16:88948909-88948989 1.0000 80 chr11:2964135-2964215 1.0000 80 chr16:81705491-81705571 1.0000 80 chr16:87868661-87868741 1.0000 80 chr3:47452628-47452708 1.0000 80 chr1:156111213-156111293 1.0000 80 chrX:24043752-24043832 1.0000 80 chr1:68151826-68151906 1.0000 80 chr1:17752428-17752508 1.0000 80 chr16:85707738-85707818 1.0000 80 chr17:56405241-56405321 1.0000 80 chr7:127725094-127725174 1.0000 80 chr7:45129054-45129134 1.0000 80 chr7:100278572-100278652 1.0000 80 chr3:43405432-43405512 1.0000 80 chr6:31502446-31502526 1.0000 80 chr17:74137365-74137445 1.0000 80 chr12:96883295-96883375 1.0000 80 chr1:54694463-54694543 1.0000 80 chrX:119695201-119695281 1.0000 80 chr3:150263757-150263837 1.0000 80 chr17:80014746-80014826 1.0000 80 chr1:100817828-100817908 1.0000 80 chr14:100808679-10080875 1.0000 80 chr16:88780172-88780252 1.0000 80 chr16:81712187-81712267 1.0000 80 chr14:103801230-10380131 1.0000 80 chr4:10112980-10113060 1.0000 80 chr1:151263218-151263298 1.0000 80 chr5:137802825-137802905 1.0000 80 chr14:23356085-23356165 1.0000 80 chr22:38857691-38857771 1.0000 80 chr7:128486326-128486406 1.0000 80 chr17:64188356-64188436 1.0000 80 chr19:9945460-9945540 1.0000 80 chr16:85682241-85682321 1.0000 80 chr20:49203178-49203258 1.0000 80 chr11:65269804-65269884 1.0000 80 chr21:43916463-43916543 1.0000 80 chr16:88943628-88943708 1.0000 80 chr17:77806775-77806855 1.0000 80 chrX:12993665-12993745 1.0000 80 chr16:88799164-88799244 1.0000 80 chr6:31696634-31696714 1.0000 80 chr19:10799419-10799499 1.0000 80 chr1:29448591-29448671 1.0000 80 chr5:170815216-170815296 1.0000 80 chr7:5566034-5566114 1.0000 80 chr16:88941554-88941634 1.0000 80 chr20:362352-362432 1.0000 80 chr17:76170753-76170833 1.0000 80 chr17:74449336-74449416 1.0000 80 chr19:46032363-46032443 1.0000 80 chr19:3976582-3976662 1.0000 80 chr1:36397094-36397174 1.0000 80 chr7:5568018-5568098 1.0000 80 chr17:56409417-56409497 1.0000 80 chr21:44476864-44476944 1.0000 80 chr11:85661775-85661855 1.0000 80 chr16:88953250-88953330 1.0000 80 chr19:3979825-3979905 1.0000 80 chr16:89344332-89344412 1.0000 80 chr1:144938752-144938832 1.0000 80 chr17:2296557-2296637 1.0000 80 chr3:184053781-184053861 1.0000 80 chr3:186501870-186501950 1.0000 80 chr19:2250378-2250458 1.0000 80 chr2:178093437-178093517 1.0000 80 chr12:122618337-12261841 1.0000 80 chr19:13207608-13207688 1.0000 80 chr19:17012782-17012862 1.0000 80 chr17:62075668-62075748 1.0000 80 chr8:145537989-145538069 1.0000 80 chr5:137803162-137803242 1.0000 80 chr12:13254218-13254298 1.0000 80 chr17:56408369-56408449 1.0000 80 chr19:6417908-6417988 1.0000 80 chr19:46296112-46296192 1.0000 80 chr19:49378940-49379020 1.0000 80 chr16:85697598-85697678 1.0000 80 chr9:138824671-138824751 1.0000 80 chr19:10793240-10793320 1.0000 80 chr5:90676809-90676889 1.0000 80 chr1:29447633-29447713 1.0000 80 chr19:13842474-13842554 1.0000 80 chr19:5705678-5705758 1.0000 80 chr1:155164676-155164756 1.0000 80 chr20:1305917-1305997 1.0000 80 chr19:55556270-55556350 1.0000 80 chr16:87881296-87881376 1.0000 80 chr3:195808470-195808550 1.0000 80 chr9:132267631-132267711 1.0000 80 chr16:838677-838757 1.0000 80 chr17:7476478-7476558 1.0000 80 chr7:155556570-155556650 1.0000 80 chr7:5566254-5566334 1.0000 80 chr6:43478084-43478164 1.0000 80 chr13:50700235-50700315 1.0000 80 chr16:1820882-1820962 1.0000 80 chr8:124217734-124217814 1.0000 80 chr11:102980092-10298017 1.0000 80 chr21:44847191-44847271 1.0000 80 chr19:14518824-14518904 1.0000 80 chr5:180661537-180661617 1.0000 80 chr11:537405-537485 1.0000 80 chr19:47280531-47280611 1.0000 80 chr17:17715906-17715986 1.0000 80 chr16:88942288-88942368 1.0000 80 chr16:88958623-88958703 1.0000 80 chr6:43739077-43739157 1.0000 80 chr4:80885957-80886037 1.0000 80 chr12:93796303-93796383 1.0000 80 chr11:65661579-65661659 1.0000 80 chr3:72424761-72424841 1.0000 80 chr16:85621826-85621906 1.0000 80 chr5:34839201-34839281 1.0000 80 chr1:149857380-149857460 1.0000 80 chr17:77810536-77810616 1.0000 80 ******************************************************************************** ******************************************************************************** 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/K562/inference_raw/MEME/RankLinear0.6_40_RBM22/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/K562/fasta/RankLinear0.6_40/RBM22.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= 20000 N= 250 sample: seed= 0 hsfrac= 0 searchsize= 20000 norand= no csites= 1000 Letter frequencies in dataset: A 0.17 C 0.334 G 0.33 T 0.166 Background letter frequencies (from file dataset with add-one prior applied): A 0.17 C 0.334 G 0.33 T 0.166 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF CATGGCVA MEME-1 width = 8 sites = 43 llr = 338 E-value = 9.2e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif CATGGCVA MEME-1 Description -------------------------------------------------------------------------------- Simplified A :821::48 pos.-specific C a2:::92: probability G :::9a:32 matrix T ::8::1:: bits 2.6 2.3 2.1 * 1.8 * * Relative 1.6 *** * * Entropy 1.3 ****** * (11.3 bits) 1.0 ****** * 0.8 ****** * 0.5 ****** * 0.3 ******** 0.0 -------- Multilevel CATGGCAA consensus C G sequence C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CATGGCVA MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr5:34839201-34839281 56 9.91e-06 GTTCCGTTCC CATGGCAA CGGTATTGTC chr6:43478084-43478164 22 9.91e-06 GGCGAGTTCC CATGGCAA CGGCCGCGTC chr19:17012782-17012862 57 9.91e-06 CATCCATCAC CATGGCAA CAAACATCTT chr17:2296557-2296637 23 9.91e-06 CTCAGGCCGC CATGGCAA CCGCCTGACG chr1:151682820-151682900 25 9.91e-06 GAATGCGCAC CATGGCAA CCGCCCACTC chr12:57630085-57630165 42 9.91e-06 GCGGCGTCGT CATGGCAA CCCGGCCGGG chr1:155164676-155164756 51 2.91e-05 CACGCGTCAC CATGGCGA CGGCTCCGCG chr17:64188356-64188436 61 2.91e-05 GCCCCGTTGC CATGGCGA CGCTCCTGCT chr17:74137365-74137445 21 2.91e-05 CTCCTGCTGC CATGGCGA CGCTCCGCCC chr1:32827000-32827080 64 2.91e-05 GGCTCCCGCC CATGGCGA GGTAGACGT chr9:138824671-138824751 1 4.86e-05 . CATGGCCA CAAGGCCTCC chr14:23356085-23356165 45 4.86e-05 CCGCGGTCGC CATGGCCA CTGCGGTCGC chr15:90728476-90728556 56 4.86e-05 CCCGCGTTCC CATGGCCA CCGGGGGCCT chr19:5693400-5693480 5 4.86e-05 TGCC CATGGCCA GGGACAGCAG chr1:11844453-11844533 32 4.86e-05 GCCTTCCCAG CATGGCCA GTGGCCCCGG chr10:73577644-73577724 70 4.86e-05 AAGAGCTGGA CATGGCCA GAA chr17:62075668-62075748 37 6.37e-05 TCGGCGTCGC CAAGGCAA CCGGCGCCAG chr19:9945460-9945540 6 6.37e-05 ATCTC CAAGGCAA CTGCATTGCT chr2:232469516-232469596 56 6.37e-05 GTTTGGTTCC CAAGGCAA CTGGCCGGGC chr21:43916463-43916543 23 6.88e-05 TGCGTACTGT CATAGCAA CGGGAAGGGC chr16:759703-759783 15 6.88e-05 CAGCCATCAC CATAGCAA CACGCGTCGC chr3:42814702-42814782 41 8.82e-05 CACGCGCTGC CCTGGCAA CCGTCACCAG chr1:54694463-54694543 56 1.07e-04 AAGCACAGGG CATGGCAG CTCAGCGGGC chr16:89408331-89408411 41 1.07e-04 AGCCACGGCC CATGGCAG GAGTGCTGCA chr21:34923334-34923414 3 1.07e-04 CT CATGGCAG CTGGGGCACT chr6:15513610-15513690 40 1.17e-04 GCTACCTGTC CATGGTGA GCCCGCCTGG chr16:81697916-81697996 35 1.17e-04 tcaagcataa catggtga gtcaccctgc chr3:184053781-184053861 41 1.37e-04 CTACCCTCTG CAAGGCGA TGGCCCGCGC chr11:102980092-10298017 62 1.66e-04 GCTCCGTCGC CATAGCGA CTACCCCTGG chr21:44847191-44847271 59 2.24e-04 AGGCCGTTGC CCTGGCGA CCGCGGGCCG chr17:80014746-80014826 53 2.24e-04 AGCGCCGCGC CAAGGCCA TGATGCTGCG chr16:89352694-89352774 57 2.24e-04 CCAGGGACTG CCTGGCGA GGCTCTGGGT chr19:50434068-50434148 48 2.24e-04 CCATGTCACT CCTGGCGA CCCTGGGGCT chr19:55556270-55556350 54 2.71e-04 CTACTGCGGG CATGGCGG CCGCCAGTCC chr3:47452628-47452708 42 2.71e-04 GGAGAGCCAG CATGGCGG CACTCAGTCT chr1:183901799-183901879 25 3.14e-04 GCGCAGCCTC CCTGGCCA GCCTGCAGGC chr6:7249046-7249126 21 3.14e-04 GCCGTCTGAG CCTGGCCA GGGTGACCTT chr21:36164751-36164831 11 3.55e-04 TGGCCGAGCC CATGGCCG ACATGCCGAT chr1:100817828-100817908 56 3.70e-04 CCGCGGGGCG CCTGGTAA CTGGGGCTGC chr12:96883295-96883375 44 3.90e-04 GAGACCGTCG CCAGGCAA CCGCGTGTAC chr1:29447633-29447713 48 4.29e-04 AGCTGTTGAG CAAGGCAG GTAACCCCAA chr1:16267883-16267963 53 4.76e-04 CTGAGCCAGG CCTGGCAG CAGTGGCCTG chr17:77810536-77810616 63 4.96e-04 CAGCCGCTGA CATGGTTA CAGGGTGGTG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CATGGCVA MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr5:34839201-34839281 9.9e-06 55_[+1]_17 chr6:43478084-43478164 9.9e-06 21_[+1]_51 chr19:17012782-17012862 9.9e-06 56_[+1]_16 chr17:2296557-2296637 9.9e-06 22_[+1]_50 chr1:151682820-151682900 9.9e-06 24_[+1]_48 chr12:57630085-57630165 9.9e-06 41_[+1]_31 chr1:155164676-155164756 2.9e-05 50_[+1]_22 chr17:64188356-64188436 2.9e-05 60_[+1]_12 chr17:74137365-74137445 2.9e-05 20_[+1]_52 chr1:32827000-32827080 2.9e-05 63_[+1]_9 chr9:138824671-138824751 4.9e-05 [+1]_72 chr14:23356085-23356165 4.9e-05 44_[+1]_28 chr15:90728476-90728556 4.9e-05 55_[+1]_17 chr19:5693400-5693480 4.9e-05 4_[+1]_68 chr1:11844453-11844533 4.9e-05 31_[+1]_41 chr10:73577644-73577724 4.9e-05 69_[+1]_3 chr17:62075668-62075748 6.4e-05 36_[+1]_36 chr19:9945460-9945540 6.4e-05 5_[+1]_67 chr2:232469516-232469596 6.4e-05 55_[+1]_17 chr21:43916463-43916543 6.9e-05 22_[+1]_50 chr16:759703-759783 6.9e-05 14_[+1]_58 chr3:42814702-42814782 8.8e-05 40_[+1]_32 chr1:54694463-54694543 0.00011 55_[+1]_17 chr16:89408331-89408411 0.00011 40_[+1]_32 chr21:34923334-34923414 0.00011 2_[+1]_70 chr6:15513610-15513690 0.00012 39_[+1]_33 chr16:81697916-81697996 0.00012 34_[+1]_38 chr3:184053781-184053861 0.00014 40_[+1]_32 chr11:102980092-10298017 0.00017 61_[+1]_11 chr21:44847191-44847271 0.00022 58_[+1]_14 chr17:80014746-80014826 0.00022 52_[+1]_20 chr16:89352694-89352774 0.00022 56_[+1]_16 chr19:50434068-50434148 0.00022 47_[+1]_25 chr19:55556270-55556350 0.00027 53_[+1]_19 chr3:47452628-47452708 0.00027 41_[+1]_31 chr1:183901799-183901879 0.00031 24_[+1]_48 chr6:7249046-7249126 0.00031 20_[+1]_52 chr21:36164751-36164831 0.00035 10_[+1]_62 chr1:100817828-100817908 0.00037 55_[+1]_17 chr12:96883295-96883375 0.00039 43_[+1]_29 chr1:29447633-29447713 0.00043 47_[+1]_25 chr1:16267883-16267963 0.00048 52_[+1]_20 chr17:77810536-77810616 0.0005 62_[+1]_10 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CATGGCVA MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CATGGCVA width=8 seqs=43 chr5:34839201-34839281 ( 56) CATGGCAA 1 chr6:43478084-43478164 ( 22) CATGGCAA 1 chr19:17012782-17012862 ( 57) CATGGCAA 1 chr17:2296557-2296637 ( 23) CATGGCAA 1 chr1:151682820-151682900 ( 25) CATGGCAA 1 chr12:57630085-57630165 ( 42) CATGGCAA 1 chr1:155164676-155164756 ( 51) CATGGCGA 1 chr17:64188356-64188436 ( 61) CATGGCGA 1 chr17:74137365-74137445 ( 21) CATGGCGA 1 chr1:32827000-32827080 ( 64) CATGGCGA 1 chr9:138824671-138824751 ( 1) CATGGCCA 1 chr14:23356085-23356165 ( 45) CATGGCCA 1 chr15:90728476-90728556 ( 56) CATGGCCA 1 chr19:5693400-5693480 ( 5) CATGGCCA 1 chr1:11844453-11844533 ( 32) CATGGCCA 1 chr10:73577644-73577724 ( 70) CATGGCCA 1 chr17:62075668-62075748 ( 37) CAAGGCAA 1 chr19:9945460-9945540 ( 6) CAAGGCAA 1 chr2:232469516-232469596 ( 56) CAAGGCAA 1 chr21:43916463-43916543 ( 23) CATAGCAA 1 chr16:759703-759783 ( 15) CATAGCAA 1 chr3:42814702-42814782 ( 41) CCTGGCAA 1 chr1:54694463-54694543 ( 56) CATGGCAG 1 chr16:89408331-89408411 ( 41) CATGGCAG 1 chr21:34923334-34923414 ( 3) CATGGCAG 1 chr6:15513610-15513690 ( 40) CATGGTGA 1 chr16:81697916-81697996 ( 35) CATGGTGA 1 chr3:184053781-184053861 ( 41) CAAGGCGA 1 chr11:102980092-10298017 ( 62) CATAGCGA 1 chr21:44847191-44847271 ( 59) CCTGGCGA 1 chr17:80014746-80014826 ( 53) CAAGGCCA 1 chr16:89352694-89352774 ( 57) CCTGGCGA 1 chr19:50434068-50434148 ( 48) CCTGGCGA 1 chr19:55556270-55556350 ( 54) CATGGCGG 1 chr3:47452628-47452708 ( 42) CATGGCGG 1 chr1:183901799-183901879 ( 25) CCTGGCCA 1 chr6:7249046-7249126 ( 21) CCTGGCCA 1 chr21:36164751-36164831 ( 11) CATGGCCG 1 chr1:100817828-100817908 ( 56) CCTGGTAA 1 chr12:96883295-96883375 ( 44) CCAGGCAA 1 chr1:29447633-29447713 ( 48) CAAGGCAG 1 chr1:16267883-16267963 ( 53) CCTGGCAG 1 chr17:77810536-77810616 ( 63) CATGGTTA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CATGGCVA MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.05698 E= 9.2e-001 -1207 158 -1207 -1207 222 -67 -1207 -1207 -6 -1207 -1207 233 -128 -1207 149 -1207 -1207 -1207 160 -1207 -1207 144 -1207 -83 138 -52 -13 -283 226 -1207 -83 -1207 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CATGGCVA MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 43 E= 9.2e-001 0.000000 1.000000 0.000000 0.000000 0.790698 0.209302 0.000000 0.000000 0.162791 0.000000 0.000000 0.837209 0.069767 0.000000 0.930233 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.906977 0.000000 0.093023 0.441860 0.232558 0.302326 0.023256 0.813953 0.000000 0.186047 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CATGGCVA MEME-1 regular expression -------------------------------------------------------------------------------- C[AC]TGGC[AGC]A -------------------------------------------------------------------------------- Time 5.12 secs. ******************************************************************************** ******************************************************************************** MOTIF DSCTGSWG MEME-2 width = 8 sites = 72 llr = 502 E-value = 1.8e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif DSCTGSWG MEME-2 Description -------------------------------------------------------------------------------- Simplified A 3:::::7: pos.-specific C 24a::4:: probability G 25::a5:a matrix T 31:a::3: bits 2.6 * 2.3 * 2.1 * 1.8 * Relative 1.6 *** ** Entropy 1.3 *** ** (10.1 bits) 1.0 *** ** 0.8 *** ** 0.5 ****** 0.3 ******** 0.0 -------- Multilevel TGCTGGAG consensus AC CT sequence G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif DSCTGSWG MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr19:55558735-55558815 29 1.86e-05 CCGAGTGTGG TGCTGGAG AAGGTGGAGC chr16:85691097-85691177 38 1.86e-05 CGGCAGCAGG TGCTGGAG CAGCACCTGG chr6:7249046-7249126 73 1.86e-05 GGGCAGGACC TGCTGGAG chr20:371953-372033 6 1.86e-05 GGCCG TGCTGGAG CCCTATGCGC chr16:838677-838757 72 5.63e-05 TTCGCGGCCG AGCTGGAG G chr7:45129054-45129134 3 5.63e-05 TG AGCTGGAG CTGCAGCTCT chr19:2050388-2050468 15 5.63e-05 GGGCACAACC AGCTGGAG CTTGCAGGGG chr1:27731720-27731800 9 5.63e-05 TGGAGGCG AGCTGGAG CCTGGGCCAG chr10:73577644-73577724 50 5.63e-05 GCTGGAGCCT AGCTGGAG GAAAGAGCTG chr21:34923334-34923414 45 5.63e-05 AGTCTGGGGC AGCTGGAG CACTGGAGCT chr20:62154731-62154811 33 5.63e-05 CCCTTGGCTG AGCTGGAG GGCTTGGGGT chr19:807267-807347 30 5.63e-05 GAGACAGCGC TGCTGCAG GGCTTGGCTG chr1:149857380-149857460 11 7.51e-05 CTGAATTGTG TCCTGGAG TTCTCTTAAA chr17:76170753-76170833 4 7.51e-05 TCC TCCTGGAG TGGCTGGGCA chr20:368825-368905 47 7.51e-05 CCCTATGTCC TCCTGGAG CCCGAGGAGG chr19:13207608-13207688 16 9.44e-05 CGAGGTCGGA AGCTGCAG GCCAGCTggg chr3:47452628-47452708 5 9.44e-05 CCGC AGCTGCAG ACCTGCTCTC chr19:46032363-46032443 21 1.33e-04 GGCTCGCACC TCCTGCAG CTGAGCGCGC chr16:81705491-81705571 40 1.33e-04 TGGGCCCCAC TCCTGCAG GCTTCTCACC chr16:89364751-89364831 1 1.33e-04 . TCCTGCAG GGCACAGGCC chr1:155920874-155920954 2 1.33e-04 C TCCTGCAG CAGCGCATGT chr19:2250378-2250458 33 1.51e-04 GAGCTGGCGC TGCTGGTG CTGTACCCTG chr6:43755473-43755553 27 1.51e-04 GGAGGAATTG TGCTGGTG GTGGGGAAGC chr21:46862709-46862789 7 1.51e-04 tggtgg tgctggtg tgggcggagg chr20:45867738-45867818 28 1.51e-04 GTGGAGGACG TGCTGGTG GTGGCTGTGG chr19:55556270-55556350 1 1.70e-04 . ACCTGCAG GCCAGTCCAC chr4:10112980-10113060 5 1.70e-04 TGGC ACCTGCAG CCACTCAGAT chr19:10943686-10943766 34 1.70e-04 GAGCGTGCAG ACCTGCAG CACAGCCACC chr16:87862146-87862226 73 1.70e-04 TGGTAGCAGC ACCTGCAG chr4:757156-757236 23 2.07e-04 AGGTTTGCGC TGCTGCTG CGTTAACCGT chr16:85697598-85697678 15 2.25e-04 GGGTGTTGTG TCCTGGTG GCCGGAGGCC chr17:56408369-56408449 40 2.44e-04 GCAGCAGAGG AGCTGCTG TGGCCTTTCC chr16:81712187-81712267 40 2.44e-04 GAAATCCTCA AGCTGCTG TGAGTgcccc chr19:10799419-10799499 1 3.28e-04 . ACCTGGTG GGAGCAGACA chr17:64188356-64188436 72 3.28e-04 ATGGCGACGC TCCTGCTG G chr17:74137365-74137445 12 3.28e-04 CAAAGGCTTC TCCTGCTG CCATGGCGAC chr19:3464101-3464181 4 3.28e-04 ACA TTCTGGAG CGACCCCCCT chr3:47891390-47891470 15 3.28e-04 GACCTGCTGC GGCTGGAG GGTGACTCGC chr6:43755257-43755337 41 3.28e-04 GCAGGGTGGA GGCTGGAG ACACGGGCAA chr12:111882563-11188264 63 3.28e-04 GCTGCAACCT GGCTGGAG CCTCTGGCAT chr19:50434068-50434148 62 3.28e-04 GCGACCCTGG GGCTGGAG CTGGACAGGG chr1:151263218-151263298 68 4.03e-04 GCGGACCTGG ATCTGGAG GCCAT chr16:88945758-88945838 62 4.03e-04 CGACACGGCT TTCTGCAG CTCCGACATG chr19:4357366-4357446 2 4.03e-04 C GGCTGCAG GGCTCCAGCA chr1:8421039-8421119 45 4.03e-04 CCCAGTCAGA GGCTGCAG CGGgggatgt chr7:128588835-128588915 41 4.03e-04 GCAATAACAA GGCTGCAG ACGGTGACTG chr16:88955306-88955386 31 4.03e-04 CGCGGGCGGC ACCTGCTG GGGCGTGGCC chr16:85676471-85676551 72 4.78e-04 GTCTACAGTG CGCTGGAG A chr10:73574832-73574912 70 4.78e-04 CTGGGCCGCT CGCTGGAG ACG chr16:87868661-87868741 47 5.63e-04 GCTGCAAGGA GCCTGCAG GCCGCAACCT chr1:183901799-183901879 33 5.63e-04 TCCCTGGCCA GCCTGCAG GCTTTGCAGT chr20:362352-362432 31 6.46e-04 GGCTGGGGTG CCCTGGAG CGGGGGAGCC chr22:42299102-42299182 71 6.46e-04 AGGCCCAGCT GGCTGGTG GG chr19:50436133-50436213 71 6.46e-04 GAGGGTGAGG CCCTGGAG GG chr11:77921348-77921428 64 6.46e-04 GCCTGCCACT GGCTGGTG GCCGTGGCC chr19:10793240-10793320 2 6.55e-04 G TGCTGAAG GCAGGGACTC chr19:3976582-3976662 59 7.49e-04 TGGCTGGGGC GGCTGCTG TTGTCGAAGG chr7:128486326-128486406 35 7.49e-04 CCAGGCGTGC ATCTGGTG GAGGTCCTGT chr1:100817828-100817908 68 7.49e-04 TGGTAACTGG GGCTGCTG CGGAG chr19:2278703-2278783 58 7.49e-04 GGTACGGAGG CCCTGCAG CTGCCGCGCA chr16:88938287-88938367 34 7.49e-04 GAGAGGGCGG CCCTGCAG CGTCGCGGCC chr16:87868294-87868374 2 7.49e-04 C GGCTGCTG ACTTCCAGGT chr16:85694902-85694982 71 8.31e-04 GCAGCCGTGC CGCTGGTG AA chr17:17715906-17715986 73 8.51e-04 GCGCATGAGC ATCTGCTG chr11:65269804-65269884 19 8.51e-04 GGCTTAATGA TCCTGAAG GGATTTCTTC chr5:180661537-180661617 48 9.43e-04 ACAGAACAGA CGCTGCTG AGCCCCAGTG chr3:171927635-171927715 41 9.43e-04 ggtgcccaac gtctggag ggagtccagg chr1:227173034-227173114 36 9.43e-04 GATCCCCTGG GCCTGCTG ACCCAGGGCC chr1:156111213-156111293 17 9.90e-04 CTCAGCTGAA CCCTGGTG AGCTGGCTGC chr12:111891448-11189152 31 9.90e-04 CACACGCCTC ACCTGAAG GGTGCGTCAT chr1:155911984-155912064 25 9.90e-04 GCGGCGGCTG CCCTGGTG ACGGTGCCCA chr16:87866866-87866946 56 9.90e-04 ACGAACCAGG CCCTGGTG TCTCAGCAAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif DSCTGSWG MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr19:55558735-55558815 1.9e-05 28_[+2]_44 chr16:85691097-85691177 1.9e-05 37_[+2]_35 chr6:7249046-7249126 1.9e-05 72_[+2] chr20:371953-372033 1.9e-05 5_[+2]_67 chr16:838677-838757 5.6e-05 71_[+2]_1 chr7:45129054-45129134 5.6e-05 2_[+2]_70 chr19:2050388-2050468 5.6e-05 14_[+2]_58 chr1:27731720-27731800 5.6e-05 8_[+2]_64 chr10:73577644-73577724 5.6e-05 49_[+2]_23 chr21:34923334-34923414 5.6e-05 44_[+2]_28 chr20:62154731-62154811 5.6e-05 32_[+2]_40 chr19:807267-807347 5.6e-05 29_[+2]_43 chr1:149857380-149857460 7.5e-05 10_[+2]_62 chr17:76170753-76170833 7.5e-05 3_[+2]_69 chr20:368825-368905 7.5e-05 46_[+2]_26 chr19:13207608-13207688 9.4e-05 15_[+2]_57 chr3:47452628-47452708 9.4e-05 4_[+2]_68 chr19:46032363-46032443 0.00013 20_[+2]_52 chr16:81705491-81705571 0.00013 39_[+2]_33 chr16:89364751-89364831 0.00013 [+2]_72 chr1:155920874-155920954 0.00013 1_[+2]_71 chr19:2250378-2250458 0.00015 32_[+2]_40 chr6:43755473-43755553 0.00015 26_[+2]_46 chr21:46862709-46862789 0.00015 6_[+2]_66 chr20:45867738-45867818 0.00015 27_[+2]_45 chr19:55556270-55556350 0.00017 [+2]_72 chr4:10112980-10113060 0.00017 4_[+2]_68 chr19:10943686-10943766 0.00017 33_[+2]_39 chr16:87862146-87862226 0.00017 72_[+2] chr4:757156-757236 0.00021 22_[+2]_50 chr16:85697598-85697678 0.00023 14_[+2]_58 chr17:56408369-56408449 0.00024 39_[+2]_33 chr16:81712187-81712267 0.00024 39_[+2]_33 chr19:10799419-10799499 0.00033 [+2]_72 chr17:64188356-64188436 0.00033 71_[+2]_1 chr17:74137365-74137445 0.00033 11_[+2]_61 chr19:3464101-3464181 0.00033 3_[+2]_69 chr3:47891390-47891470 0.00033 14_[+2]_58 chr6:43755257-43755337 0.00033 40_[+2]_32 chr12:111882563-11188264 0.00033 62_[+2]_10 chr19:50434068-50434148 0.00033 61_[+2]_11 chr1:151263218-151263298 0.0004 67_[+2]_5 chr16:88945758-88945838 0.0004 61_[+2]_11 chr19:4357366-4357446 0.0004 1_[+2]_71 chr1:8421039-8421119 0.0004 44_[+2]_28 chr7:128588835-128588915 0.0004 40_[+2]_32 chr16:88955306-88955386 0.0004 30_[+2]_42 chr16:85676471-85676551 0.00048 71_[+2]_1 chr10:73574832-73574912 0.00048 69_[+2]_3 chr16:87868661-87868741 0.00056 46_[+2]_26 chr1:183901799-183901879 0.00056 32_[+2]_40 chr20:362352-362432 0.00065 30_[+2]_42 chr22:42299102-42299182 0.00065 70_[+2]_2 chr19:50436133-50436213 0.00065 70_[+2]_2 chr11:77921348-77921428 0.00065 63_[+2]_9 chr19:10793240-10793320 0.00066 1_[+2]_71 chr19:3976582-3976662 0.00075 58_[+2]_14 chr7:128486326-128486406 0.00075 34_[+2]_38 chr1:100817828-100817908 0.00075 67_[+2]_5 chr19:2278703-2278783 0.00075 57_[+2]_15 chr16:88938287-88938367 0.00075 33_[+2]_39 chr16:87868294-87868374 0.00075 1_[+2]_71 chr16:85694902-85694982 0.00083 70_[+2]_2 chr17:17715906-17715986 0.00085 72_[+2] chr11:65269804-65269884 0.00085 18_[+2]_54 chr5:180661537-180661617 0.00094 47_[+2]_25 chr3:171927635-171927715 0.00094 40_[+2]_32 chr1:227173034-227173114 0.00094 35_[+2]_37 chr1:156111213-156111293 0.00099 16_[+2]_56 chr12:111891448-11189152 0.00099 30_[+2]_42 chr1:155911984-155912064 0.00099 24_[+2]_48 chr16:87866866-87866946 0.00099 55_[+2]_17 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif DSCTGSWG MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF DSCTGSWG width=8 seqs=72 chr19:55558735-55558815 ( 29) TGCTGGAG 1 chr16:85691097-85691177 ( 38) TGCTGGAG 1 chr6:7249046-7249126 ( 73) TGCTGGAG 1 chr20:371953-372033 ( 6) TGCTGGAG 1 chr16:838677-838757 ( 72) AGCTGGAG 1 chr7:45129054-45129134 ( 3) AGCTGGAG 1 chr19:2050388-2050468 ( 15) AGCTGGAG 1 chr1:27731720-27731800 ( 9) AGCTGGAG 1 chr10:73577644-73577724 ( 50) AGCTGGAG 1 chr21:34923334-34923414 ( 45) AGCTGGAG 1 chr20:62154731-62154811 ( 33) AGCTGGAG 1 chr19:807267-807347 ( 30) TGCTGCAG 1 chr1:149857380-149857460 ( 11) TCCTGGAG 1 chr17:76170753-76170833 ( 4) TCCTGGAG 1 chr20:368825-368905 ( 47) TCCTGGAG 1 chr19:13207608-13207688 ( 16) AGCTGCAG 1 chr3:47452628-47452708 ( 5) AGCTGCAG 1 chr19:46032363-46032443 ( 21) TCCTGCAG 1 chr16:81705491-81705571 ( 40) TCCTGCAG 1 chr16:89364751-89364831 ( 1) TCCTGCAG 1 chr1:155920874-155920954 ( 2) TCCTGCAG 1 chr19:2250378-2250458 ( 33) TGCTGGTG 1 chr6:43755473-43755553 ( 27) TGCTGGTG 1 chr21:46862709-46862789 ( 7) TGCTGGTG 1 chr20:45867738-45867818 ( 28) TGCTGGTG 1 chr19:55556270-55556350 ( 1) ACCTGCAG 1 chr4:10112980-10113060 ( 5) ACCTGCAG 1 chr19:10943686-10943766 ( 34) ACCTGCAG 1 chr16:87862146-87862226 ( 73) ACCTGCAG 1 chr4:757156-757236 ( 23) TGCTGCTG 1 chr16:85697598-85697678 ( 15) TCCTGGTG 1 chr17:56408369-56408449 ( 40) AGCTGCTG 1 chr16:81712187-81712267 ( 40) AGCTGCTG 1 chr19:10799419-10799499 ( 1) ACCTGGTG 1 chr17:64188356-64188436 ( 72) TCCTGCTG 1 chr17:74137365-74137445 ( 12) TCCTGCTG 1 chr19:3464101-3464181 ( 4) TTCTGGAG 1 chr3:47891390-47891470 ( 15) GGCTGGAG 1 chr6:43755257-43755337 ( 41) GGCTGGAG 1 chr12:111882563-11188264 ( 63) GGCTGGAG 1 chr19:50434068-50434148 ( 62) GGCTGGAG 1 chr1:151263218-151263298 ( 68) ATCTGGAG 1 chr16:88945758-88945838 ( 62) TTCTGCAG 1 chr19:4357366-4357446 ( 2) GGCTGCAG 1 chr1:8421039-8421119 ( 45) GGCTGCAG 1 chr7:128588835-128588915 ( 41) GGCTGCAG 1 chr16:88955306-88955386 ( 31) ACCTGCTG 1 chr16:85676471-85676551 ( 72) CGCTGGAG 1 chr10:73574832-73574912 ( 70) CGCTGGAG 1 chr16:87868661-87868741 ( 47) GCCTGCAG 1 chr1:183901799-183901879 ( 33) GCCTGCAG 1 chr20:362352-362432 ( 31) CCCTGGAG 1 chr22:42299102-42299182 ( 71) GGCTGGTG 1 chr19:50436133-50436213 ( 71) CCCTGGAG 1 chr11:77921348-77921428 ( 64) GGCTGGTG 1 chr19:10793240-10793320 ( 2) TGCTGAAG 1 chr19:3976582-3976662 ( 59) GGCTGCTG 1 chr7:128486326-128486406 ( 35) ATCTGGTG 1 chr1:100817828-100817908 ( 68) GGCTGCTG 1 chr19:2278703-2278783 ( 58) CCCTGCAG 1 chr16:88938287-88938367 ( 34) CCCTGCAG 1 chr16:87868294-87868374 ( 2) GGCTGCTG 1 chr16:85694902-85694982 ( 71) CGCTGGTG 1 chr17:17715906-17715986 ( 73) ATCTGCTG 1 chr11:65269804-65269884 ( 19) TCCTGAAG 1 chr5:180661537-180661617 ( 48) CGCTGCTG 1 chr3:171927635-171927715 ( 41) GTCTGGAG 1 chr1:227173034-227173114 ( 36) GCCTGCTG 1 chr1:156111213-156111293 ( 17) CCCTGGTG 1 chr12:111891448-11189152 ( 31) ACCTGAAG 1 chr1:155911984-155912064 ( 25) CCCTGGTG 1 chr16:87866866-87866946 ( 56) CCCTGGTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif DSCTGSWG MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.38792 E= 1.8e+000 78 -113 -57 101 -1281 22 68 -99 -1281 158 -1281 -1281 -1281 -1281 -1281 259 -1281 -1281 160 -1281 -202 37 68 -1281 194 -1281 -1281 107 -1281 -1281 160 -1281 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif DSCTGSWG MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 72 E= 1.8e+000 0.291667 0.152778 0.222222 0.333333 0.000000 0.388889 0.527778 0.083333 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.041667 0.430556 0.527778 0.000000 0.652778 0.000000 0.000000 0.347222 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif DSCTGSWG MEME-2 regular expression -------------------------------------------------------------------------------- [TAG][GC]CTG[GC][AT]G -------------------------------------------------------------------------------- Time 8.88 secs. ******************************************************************************** ******************************************************************************** MOTIF TTWTAAWT MEME-3 width = 8 sites = 8 llr = 89 E-value = 1.5e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif TTWTAAWT MEME-3 Description -------------------------------------------------------------------------------- Simplified A ::439a51 pos.-specific C :1:::::: probability G :::::::: matrix T a9681:59 bits 2.6 * * 2.3 * * 2.1 * ** * 1.8 ** *** * Relative 1.6 ******** Entropy 1.3 ******** (16.1 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel TTTTAAAT consensus AA T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTWTAAWT MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr17:77810536-77810616 16 1.22e-06 ACAGCCTGCG TTTTAATT CTTCAGGGAC chr9:128000588-128000668 22 1.22e-06 GTTATTTAAC TTTTAATT CAAGTTCTCC chr11:537405-537485 34 2.48e-06 CCCCGGCGAC TTATAAAT ATTTGCGTAT chr1:144938752-144938832 53 3.73e-06 agacaggggc tTTAAATT GATGACTACC chr9:128002340-128002420 11 5.01e-06 ACCATTCTGA TTAAAATT TTTGAAACCC chr4:39773064-39773144 38 7.46e-06 GCGCTGTTTT TTTTTAAT CCCCTATTTT chr18:9949471-9949551 24 9.97e-06 CTGATAAATC TTATAAAA TGAGTATTGT chr1:149857380-149857460 22 1.24e-05 CCTGGAGTTC TCTTAAAT GACAGCCGAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTWTAAWT MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr17:77810536-77810616 1.2e-06 15_[+3]_57 chr9:128000588-128000668 1.2e-06 21_[+3]_51 chr11:537405-537485 2.5e-06 33_[+3]_39 chr1:144938752-144938832 3.7e-06 52_[+3]_20 chr9:128002340-128002420 5e-06 10_[+3]_62 chr4:39773064-39773144 7.5e-06 37_[+3]_35 chr18:9949471-9949551 1e-05 23_[+3]_49 chr1:149857380-149857460 1.2e-05 21_[+3]_51 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTWTAAWT MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TTWTAAWT width=8 seqs=8 chr17:77810536-77810616 ( 16) TTTTAATT 1 chr9:128000588-128000668 ( 22) TTTTAATT 1 chr11:537405-537485 ( 34) TTATAAAT 1 chr1:144938752-144938832 ( 53) TTTAAATT 1 chr9:128002340-128002420 ( 11) TTAAAATT 1 chr4:39773064-39773144 ( 38) TTTTTAAT 1 chr18:9949471-9949551 ( 24) TTATAAAA 1 chr1:149857380-149857460 ( 22) TCTTAAAT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTWTAAWT MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.155 E= 1.5e+001 -965 -965 -965 259 -965 -142 -965 240 114 -965 -965 191 56 -965 -965 218 237 -965 -965 -41 256 -965 -965 -965 156 -965 -965 159 -44 -965 -965 240 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTWTAAWT MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 8 E= 1.5e+001 0.000000 0.000000 0.000000 1.000000 0.000000 0.125000 0.000000 0.875000 0.375000 0.000000 0.000000 0.625000 0.250000 0.000000 0.000000 0.750000 0.875000 0.000000 0.000000 0.125000 1.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.500000 0.125000 0.000000 0.000000 0.875000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTWTAAWT MEME-3 regular expression -------------------------------------------------------------------------------- TT[TA][TA]AA[AT]T -------------------------------------------------------------------------------- Time 12.54 secs. ******************************************************************************** ******************************************************************************** MOTIF CTTTTTTM MEME-4 width = 8 sites = 2 llr = 25 E-value = 2.3e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif CTTTTTTM MEME-4 Description -------------------------------------------------------------------------------- Simplified A :::::::5 pos.-specific C a::::::5 probability G :::::::: matrix T :aaaaaa: bits 2.6 ****** 2.3 ****** 2.1 ****** 1.8 ****** Relative 1.6 ******* Entropy 1.3 ******* (18.2 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel CTTTTTTA consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTTTTTM MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr18:9949471-9949551 72 1.19e-06 TAGTAAATGT CTTTTTTA G chr16:81705491-81705571 69 3.52e-06 CAGCCCTCTG CTTTTTTC CAGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTTTTTM MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr18:9949471-9949551 1.2e-06 71_[+4]_1 chr16:81705491-81705571 3.5e-06 68_[+4]_4 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTTTTTM MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CTTTTTTM width=8 seqs=2 chr18:9949471-9949551 ( 72) CTTTTTTA 1 chr16:81705491-81705571 ( 69) CTTTTTTC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTTTTTM MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.3895 E= 2.3e+004 -765 158 -765 -765 -765 -765 -765 259 -765 -765 -765 259 -765 -765 -765 259 -765 -765 -765 259 -765 -765 -765 259 -765 -765 -765 259 156 58 -765 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTTTTTM MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 2.3e+004 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.500000 0.500000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTTTTTM MEME-4 regular expression -------------------------------------------------------------------------------- CTTTTTT[AC] -------------------------------------------------------------------------------- Time 16.19 secs. ******************************************************************************** ******************************************************************************** MOTIF TAAYTWTT MEME-5 width = 8 sites = 2 llr = 25 E-value = 4.1e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif TAAYTWTT MEME-5 Description -------------------------------------------------------------------------------- Simplified A :aa::5:: pos.-specific C :::5:::: probability G :::::::: matrix T a::5a5aa bits 2.6 *** * ** 2.3 *** * ** 2.1 *** * ** 1.8 *** * ** Relative 1.6 *** **** Entropy 1.3 *** **** (18.1 bits) 1.0 ******** 0.8 ******** 0.5 ******** 0.3 ******** 0.0 -------- Multilevel TAACTATT consensus T T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAAYTWTT MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr12:9904828-9904908 30 1.22e-06 CTATGAGGAG TAATTATT ACAGAGCATC chr12:122618337-12261841 72 3.69e-06 CAGCCACGGT TAACTTTT G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAAYTWTT MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr12:9904828-9904908 1.2e-06 29_[+5]_43 chr12:122618337-12261841 3.7e-06 71_[+5]_1 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAAYTWTT MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TAAYTWTT width=8 seqs=2 chr12:9904828-9904908 ( 30) TAATTATT 1 chr12:122618337-12261841 ( 72) TAACTTTT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAAYTWTT MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 13.1555 E= 4.1e+004 -765 -765 -765 259 255 -765 -765 -765 255 -765 -765 -765 -765 58 -765 159 -765 -765 -765 259 156 -765 -765 159 -765 -765 -765 259 -765 -765 -765 259 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAAYTWTT MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 4.1e+004 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 0.500000 0.000000 0.500000 0.000000 0.000000 0.000000 1.000000 0.500000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAAYTWTT MEME-5 regular expression -------------------------------------------------------------------------------- TAA[CT]T[AT]TT -------------------------------------------------------------------------------- Time 19.84 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr12:111885508-11188558 9.93e-01 80 chr19:11216042-11216122 9.67e-01 80 chr16:87866866-87866946 3.78e-01 80 chr19:50434068-50434148 4.32e-02 80 chr11:77921348-77921428 6.50e-01 80 chr16:89362068-89362148 7.03e-01 80 chr20:45867738-45867818 2.67e-01 80 chr16:89352694-89352774 4.46e-01 80 chr1:16267883-16267963 4.27e-01 80 chr20:371953-372033 5.95e-02 5_[+2(1.86e-05)]_67 chr16:88955306-88955386 5.03e-01 80 chr19:50436133-50436213 5.82e-01 80 chr19:55526318-55526398 3.61e-01 80 chr19:807267-807347 2.43e-01 29_[+2(5.63e-05)]_43 chr9:128002340-128002420 6.03e-05 10_[+3(5.01e-06)]_62 chr6:7248173-7248253 9.73e-01 80 chr1:16263712-16263792 8.29e-01 80 chr21:36164751-36164831 5.01e-01 80 chr16:89401121-89401201 5.24e-01 80 chr16:87873492-87873572 5.59e-01 80 chr6:7246653-7246733 9.58e-01 80 chr1:227173034-227173114 3.65e-02 80 chr16:87863379-87863459 9.01e-01 80 chr4:757156-757236 1.86e-01 80 chr16:88961965-88962045 6.81e-01 80 chr10:73574832-73574912 5.33e-01 80 chr20:368825-368905 2.28e-01 46_[+2(7.51e-05)]_26 chr4:39773064-39773144 4.89e-05 37_[+3(7.46e-06)]_35 chr6:7249046-7249126 1.59e-02 72_[+2(1.86e-05)] chr16:89433761-89433841 8.89e-01 80 chr12:111882563-11188264 1.11e-01 80 chr20:45837565-45837645 9.13e-01 80 chr16:89332330-89332410 4.69e-01 80 chr16:81697916-81697996 9.36e-02 80 chr16:88788360-88788440 9.81e-01 80 chr20:62154731-62154811 1.60e-01 32_[+2(5.63e-05)]_40 chr6:43755257-43755337 4.52e-01 80 chr21:34923334-34923414 2.13e-03 44_[+2(5.63e-05)]_28 chr6:15513610-15513690 1.59e-01 80 chr16:87871540-87871620 9.99e-01 80 chr16:88939253-88939333 3.39e-01 80 chr1:155920874-155920954 1.33e-01 80 chr16:87862146-87862226 1.91e-01 80 chr7:128588835-128588915 1.54e-01 80 chr16:85691097-85691177 1.32e-01 37_[+2(1.86e-05)]_35 chr17:74268491-74268571 7.90e-01 80 chr4:1980575-1980655 7.38e-01 80 chr16:85687317-85687397 9.39e-01 80 chr18:9949471-9949551 3.71e-06 23_[+3(9.97e-06)]_40_[+4(1.19e-06)]_\ 1 chr10:73577644-73577724 1.36e-02 49_[+2(5.63e-05)]_12_[+1(4.86e-05)]_\ 3 chr16:89408331-89408411 1.82e-01 80 chr11:65620157-65620237 7.96e-01 80 chr16:85689077-85689157 5.04e-01 80 chr19:15348938-15349018 9.11e-01 80 chr1:11844453-11844533 1.78e-01 31_[+1(4.86e-05)]_41 chr1:27107045-27107125 3.12e-01 80 chr12:57630085-57630165 9.69e-02 41_[+1(9.91e-06)]_31 chr20:57582198-57582278 1.00e+00 80 chr6:7217204-7217284 8.28e-01 80 chr16:87864379-87864459 8.74e-01 80 chr16:87868294-87868374 2.49e-01 80 chr16:88938287-88938367 4.96e-01 80 chr21:46862709-46862789 4.13e-01 80 chr19:3456341-3456421 9.88e-01 80 chr7:127743726-127743806 8.27e-01 80 chr6:43749136-43749216 8.86e-01 80 chr16:85694902-85694982 2.94e-01 80 chr2:241771920-241772000 7.05e-01 80 chr1:33237504-33237584 7.90e-01 80 chr21:36192064-36192144 7.74e-01 80 chr8:145540324-145540404 4.39e-01 80 chr3:47891390-47891470 6.62e-01 80 chr6:158363580-158363660 6.39e-01 80 chr1:155911984-155912064 8.61e-02 80 chr9:128000588-128000668 5.38e-06 21_[+3(1.22e-06)]_51 chr19:5693400-5693480 8.42e-02 4_[+1(4.86e-05)]_68 chr19:3464101-3464181 1.32e-01 80 chr7:128486127-128486207 9.36e-01 80 chr11:77924094-77924174 2.27e-01 80 chrX:39951148-39951228 6.49e-01 80 chr1:16260896-16260976 9.01e-01 80 chr19:15334365-15334445 5.03e-01 80 chr16:89804581-89804661 7.40e-01 80 chr16:87872741-87872821 3.39e-01 80 chr21:44473973-44474053 4.64e-01 80 chr19:55690771-55690851 5.56e-01 80 chr19:10943686-10943766 3.16e-01 80 chr20:362038-362118 9.93e-01 80 chr16:89364751-89364831 1.15e-01 80 chr1:28607269-28607349 6.26e-01 80 chr16:89359141-89359221 6.75e-01 80 chr9:127997288-127997368 1.24e-02 2_[+3(3.25e-05)]_70 chr12:111891448-11189152 2.59e-01 80 chr10:868301-868381 8.82e-01 80 chr20:49204259-49204339 1.73e-02 80 chr19:2278703-2278783 5.29e-01 80 chr15:90728476-90728556 1.52e-01 55_[+1(4.86e-05)]_17 chr16:89384712-89384792 7.85e-01 80 chr16:81743131-81743211 4.23e-01 80 chr19:13266824-13266904 8.89e-01 80 chr1:228286414-228286494 8.96e-01 80 chr3:42814702-42814782 3.40e-01 40_[+1(8.82e-05)]_32 chr2:74648737-74648817 9.05e-01 80 chr12:9904828-9904908 8.04e-04 29_[+5(1.22e-06)]_43 chr16:24046751-24046831 5.25e-01 80 chr6:32940690-32940770 4.17e-01 80 chr3:39222400-39222480 4.81e-01 80 chr10:73576372-73576452 1.00e+00 80 chr9:125874520-125874600 4.23e-01 80 chr1:27729889-27729969 7.67e-01 80 chr19:55558735-55558815 1.20e-01 28_[+2(1.86e-05)]_44 chr1:32827000-32827080 1.36e-01 63_[+1(2.91e-05)]_9 chr8:41583150-41583230 8.68e-01 80 chr1:183901799-183901879 1.18e-01 80 chr1:151682820-151682900 1.15e-03 24_[+1(9.91e-06)]_48 chr22:42299102-42299182 2.28e-01 80 chr16:85676471-85676551 1.08e-01 80 chr3:171927635-171927715 2.71e-01 80 chr1:8421039-8421119 6.41e-01 80 chr17:79479404-79479484 7.88e-01 80 chr19:4357366-4357446 5.41e-01 80 chr16:89401967-89402047 1.82e-01 80 chr1:27731720-27731800 1.29e-01 8_[+2(5.63e-05)]_64 chr16:88945758-88945838 1.67e-01 80 chr12:111882766-11188284 7.52e-02 80 chr19:2050388-2050468 2.60e-01 14_[+2(5.63e-05)]_58 chr6:43755473-43755553 5.14e-02 80 chr4:56458355-56458435 4.35e-01 80 chr16:759703-759783 1.36e-01 14_[+1(6.88e-05)]_58 chr16:88947872-88947952 5.31e-01 80 chr2:232469516-232469596 6.23e-02 55_[+1(6.37e-05)]_17 chr16:88937141-88937221 3.69e-02 59_[+5(5.12e-05)]_13 chr16:88948909-88948989 3.85e-01 80 chr11:2964135-2964215 6.03e-01 80 chr16:81705491-81705571 1.06e-04 68_[+4(3.52e-06)]_4 chr16:87868661-87868741 3.20e-01 80 chr3:47452628-47452708 3.67e-02 4_[+2(9.44e-05)]_68 chr1:156111213-156111293 2.40e-01 80 chrX:24043752-24043832 1.63e-01 80 chr1:68151826-68151906 9.02e-01 80 chr1:17752428-17752508 9.98e-01 80 chr16:85707738-85707818 8.91e-01 80 chr17:56405241-56405321 8.11e-01 80 chr7:127725094-127725174 4.69e-01 80 chr7:45129054-45129134 2.67e-02 2_[+2(5.63e-05)]_70 chr7:100278572-100278652 9.77e-01 80 chr3:43405432-43405512 8.76e-01 80 chr6:31502446-31502526 5.95e-01 80 chr17:74137365-74137445 1.21e-02 20_[+1(2.91e-05)]_52 chr12:96883295-96883375 5.86e-01 80 chr1:54694463-54694543 4.22e-01 80 chrX:119695201-119695281 3.39e-02 80 chr3:150263757-150263837 6.27e-01 80 chr17:80014746-80014826 4.06e-02 80 chr1:100817828-100817908 1.08e-01 80 chr14:100808679-10080875 1.57e-01 80 chr16:88780172-88780252 1.78e-01 80 chr16:81712187-81712267 4.29e-01 80 chr14:103801230-10380131 9.95e-01 80 chr4:10112980-10113060 3.81e-01 80 chr1:151263218-151263298 9.93e-02 80 chr5:137802825-137802905 9.81e-01 80 chr14:23356085-23356165 3.13e-01 44_[+1(4.86e-05)]_28 chr22:38857691-38857771 1.19e-01 80 chr7:128486326-128486406 4.05e-01 80 chr17:64188356-64188436 4.43e-03 60_[+1(2.91e-05)]_12 chr19:9945460-9945540 5.56e-02 5_[+1(6.37e-05)]_67 chr16:85682241-85682321 7.74e-01 80 chr20:49203178-49203258 4.19e-01 80 chr11:65269804-65269884 7.57e-05 45_[+4(4.98e-05)]_27 chr21:43916463-43916543 1.48e-01 22_[+1(6.88e-05)]_50 chr16:88943628-88943708 9.33e-01 80 chr17:77806775-77806855 9.95e-01 80 chrX:12993665-12993745 1.35e-02 80 chr16:88799164-88799244 7.22e-01 80 chr6:31696634-31696714 7.33e-01 80 chr19:10799419-10799499 2.55e-01 80 chr1:29448591-29448671 7.85e-01 80 chr5:170815216-170815296 7.02e-01 80 chr7:5566034-5566114 7.48e-01 80 chr16:88941554-88941634 8.20e-01 80 chr20:362352-362432 7.27e-01 80 chr17:76170753-76170833 2.17e-01 3_[+2(7.51e-05)]_69 chr17:74449336-74449416 7.88e-01 80 chr19:46032363-46032443 2.46e-01 80 chr19:3976582-3976662 1.57e-02 80 chr1:36397094-36397174 9.91e-01 80 chr7:5568018-5568098 2.42e-01 80 chr17:56409417-56409497 1.86e-01 80 chr21:44476864-44476944 7.54e-01 80 chr11:85661775-85661855 2.57e-01 80 chr16:88953250-88953330 9.89e-01 80 chr19:3979825-3979905 7.20e-01 80 chr16:89344332-89344412 6.92e-01 80 chr1:144938752-144938832 4.39e-03 52_[+3(3.73e-06)]_20 chr17:2296557-2296637 7.34e-02 22_[+1(9.91e-06)]_50 chr3:184053781-184053861 3.56e-01 80 chr3:186501870-186501950 2.21e-01 80 chr19:2250378-2250458 2.59e-01 80 chr2:178093437-178093517 9.59e-03 80 chr12:122618337-12261841 1.15e-02 71_[+5(3.69e-06)]_1 chr19:13207608-13207688 2.92e-01 15_[+2(9.44e-05)]_57 chr19:17012782-17012862 2.55e-02 4_[+1(9.91e-06)]_44_[+1(9.91e-06)]_\ 16 chr17:62075668-62075748 3.17e-01 36_[+1(6.37e-05)]_36 chr8:145537989-145538069 9.28e-01 80 chr5:137803162-137803242 9.89e-01 80 chr12:13254218-13254298 1.50e-01 80 chr17:56408369-56408449 2.60e-01 80 chr19:6417908-6417988 9.83e-01 80 chr19:46296112-46296192 5.07e-01 80 chr19:49378940-49379020 9.87e-01 80 chr16:85697598-85697678 1.35e-01 80 chr9:138824671-138824751 1.26e-01 [+1(4.86e-05)]_72 chr19:10793240-10793320 5.80e-01 80 chr5:90676809-90676889 8.79e-01 80 chr1:29447633-29447713 7.97e-02 80 chr19:13842474-13842554 9.55e-01 80 chr19:5705678-5705758 9.23e-01 80 chr1:155164676-155164756 1.23e-01 50_[+1(2.91e-05)]_22 chr20:1305917-1305997 1.22e-01 80 chr19:55556270-55556350 6.38e-02 80 chr16:87881296-87881376 9.64e-01 80 chr3:195808470-195808550 9.73e-01 80 chr9:132267631-132267711 7.92e-01 80 chr16:838677-838757 1.38e-01 71_[+2(5.63e-05)]_1 chr17:7476478-7476558 6.97e-01 80 chr7:155556570-155556650 5.22e-01 80 chr7:5566254-5566334 5.99e-01 80 chr6:43478084-43478164 1.46e-01 21_[+1(9.91e-06)]_51 chr13:50700235-50700315 9.89e-01 80 chr16:1820882-1820962 9.05e-01 80 chr8:124217734-124217814 8.84e-01 80 chr11:102980092-10298017 4.62e-01 80 chr21:44847191-44847271 4.83e-01 80 chr19:14518824-14518904 9.21e-01 80 chr5:180661537-180661617 5.91e-01 80 chr11:537405-537485 1.11e-04 33_[+3(2.48e-06)]_39 chr19:47280531-47280611 3.68e-01 80 chr17:17715906-17715986 7.36e-01 80 chr16:88942288-88942368 9.64e-01 80 chr16:88958623-88958703 9.13e-01 80 chr6:43739077-43739157 9.88e-01 80 chr4:80885957-80886037 3.19e-01 80 chr12:93796303-93796383 3.53e-02 80 chr11:65661579-65661659 9.82e-01 80 chr3:72424761-72424841 2.36e-03 80 chr16:85621826-85621906 6.35e-01 80 chr5:34839201-34839281 3.36e-02 55_[+1(9.91e-06)]_17 chr1:149857380-149857460 8.15e-04 10_[+2(7.51e-05)]_3_[+3(1.24e-05)]_\ 51 chr17:77810536-77810616 8.00e-07 15_[+3(1.22e-06)]_57 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c22n04.farnam.hpc.yale.internal ********************************************************************************