******************************************************************************** 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/RFX5.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr5:168161797-168161817 1.0000 20 chr4:96449757-96449777 1.0000 20 chr21:39235139-39235159 1.0000 20 chr18:7830634-7830654 1.0000 20 chr6:29532843-29532863 1.0000 20 chr22:24825423-24825443 1.0000 20 chr2:228250476-228250496 1.0000 20 chr3:120482645-120482665 1.0000 20 chr3:114238484-114238504 1.0000 20 chr16:67196502-67196522 1.0000 20 chr2:17702216-17702236 1.0000 20 chr19:16889776-16889796 1.0000 20 chr5:96176222-96176242 1.0000 20 chr14:93640487-93640507 1.0000 20 chr18:21769087-21769107 1.0000 20 chr5:8578087-8578107 1.0000 20 chr16:12074595-12074615 1.0000 20 chr20:3203690-3203710 1.0000 20 chr19:55840463-55840483 1.0000 20 chr2:33709902-33709922 1.0000 20 chr18:3725292-3725312 1.0000 20 chr6:25995932-25995952 1.0000 20 chrX:144631192-144631212 1.0000 20 chr5:94957299-94957319 1.0000 20 chr9:119563222-119563242 1.0000 20 chr5:45454401-45454421 1.0000 20 chr5:70829650-70829670 1.0000 20 chr11:69453873-69453893 1.0000 20 chr20:20672304-20672324 1.0000 20 chr1:207998167-207998187 1.0000 20 chr11:62323770-62323790 1.0000 20 chr3:16353666-16353686 1.0000 20 chr19:722703-722723 1.0000 20 chr14:93520533-93520553 1.0000 20 chr12:5089010-5089030 1.0000 20 chr20:30948017-30948037 1.0000 20 chr10:72147435-72147455 1.0000 20 chr1:173391733-173391753 1.0000 20 chr6:52172454-52172474 1.0000 20 chr12:103508653-10350867 1.0000 20 chr19:49163233-49163253 1.0000 20 chr17:73294389-73294409 1.0000 20 chr12:92246023-92246043 1.0000 20 chr5:89318698-89318718 1.0000 20 chr4:166319884-166319904 1.0000 20 chr20:53612273-53612293 1.0000 20 chr5:14214134-14214154 1.0000 20 chr3:121820173-121820193 1.0000 20 chr1:159158400-159158420 1.0000 20 chr2:218298975-218298995 1.0000 20 chr6:134373816-134373836 1.0000 20 chr9:130332393-130332413 1.0000 20 chr3:124296812-124296832 1.0000 20 chr6:32986791-32986811 1.0000 20 chr9:137341616-137341636 1.0000 20 chr2:32205951-32205971 1.0000 20 chr8:80813263-80813283 1.0000 20 chr9:33164600-33164620 1.0000 20 chrX:39060788-39060808 1.0000 20 chr14:59823191-59823211 1.0000 20 chr15:41171181-41171201 1.0000 20 chr5:127271300-127271320 1.0000 20 chr5:133927143-133927163 1.0000 20 chr6:26402420-26402440 1.0000 20 chr2:122258919-122258939 1.0000 20 chr6:33080115-33080135 1.0000 20 chrX:106809678-106809698 1.0000 20 chr21:34576404-34576424 1.0000 20 chr1:108614443-108614463 1.0000 20 chr12:67835752-67835772 1.0000 20 chr11:69455881-69455901 1.0000 20 chr18:57501701-57501721 1.0000 20 chr15:78128906-78128926 1.0000 20 chr10:11680268-11680288 1.0000 20 chr12:4381246-4381266 1.0000 20 chr2:231778753-231778773 1.0000 20 chr11:33369207-33369227 1.0000 20 chrX:105724767-105724787 1.0000 20 chr6:26365309-26365329 1.0000 20 chr22:44576761-44576781 1.0000 20 chr19:47178255-47178275 1.0000 20 chr3:144812543-144812563 1.0000 20 chr9:92105017-92105037 1.0000 20 chr19:10565162-10565182 1.0000 20 chr11:10336421-10336441 1.0000 20 chr3:119211155-119211175 1.0000 20 chr10:31074344-31074364 1.0000 20 chr1:16563052-16563072 1.0000 20 chr22:19930254-19930274 1.0000 20 chr2:461108-461128 1.0000 20 chr17:21251669-21251689 1.0000 20 chr20:30483082-30483102 1.0000 20 chr10:77164210-77164230 1.0000 20 chr2:183507230-183507250 1.0000 20 chr1:51887828-51887848 1.0000 20 chr6:32595864-32595884 1.0000 20 chr7:70172857-70172877 1.0000 20 chr20:45980470-45980490 1.0000 20 chr3:119043951-119043971 1.0000 20 chrX:40331455-40331475 1.0000 20 chr19:47082737-47082757 1.0000 20 chr3:16838558-16838578 1.0000 20 chr6:26440670-26440690 1.0000 20 chr12:29206636-29206656 1.0000 20 chr5:118603901-118603921 1.0000 20 chr11:47235935-47235955 1.0000 20 chr7:100401326-100401346 1.0000 20 chr9:35727124-35727144 1.0000 20 chr6:29520535-29520555 1.0000 20 chr9:35617204-35617224 1.0000 20 chr14:105714763-10571478 1.0000 20 chr6:32784880-32784900 1.0000 20 chr10:90147068-90147088 1.0000 20 chr12:113418754-11341877 1.0000 20 chr17:6735071-6735091 1.0000 20 chr12:14982026-14982046 1.0000 20 chr2:13334157-13334177 1.0000 20 chr7:112506640-112506660 1.0000 20 chr12:54090193-54090213 1.0000 20 chr6:32572441-32572461 1.0000 20 chr14:50061606-50061626 1.0000 20 chr19:51111420-51111440 1.0000 20 chr12:57609647-57609667 1.0000 20 chr5:116228892-116228912 1.0000 20 chr16:58887942-58887962 1.0000 20 chr22:43547330-43547350 1.0000 20 chr9:92864711-92864731 1.0000 20 chr19:3857790-3857810 1.0000 20 chr20:5461679-5461699 1.0000 20 chr19:50703462-50703482 1.0000 20 chr5:88025356-88025376 1.0000 20 chr4:185770432-185770452 1.0000 20 chr3:43805655-43805675 1.0000 20 chrX:77041805-77041825 1.0000 20 chr6:26421601-26421621 1.0000 20 chr16:17557339-17557359 1.0000 20 chr19:49078118-49078138 1.0000 20 chr14:89960570-89960590 1.0000 20 chr9:127563054-127563074 1.0000 20 chr20:306026-306046 1.0000 20 chr13:77582636-77582656 1.0000 20 chr19:21688318-21688338 1.0000 20 chr14:89290935-89290955 1.0000 20 chr2:48559631-48559651 1.0000 20 chr6:30227239-30227259 1.0000 20 chr17:70607497-70607517 1.0000 20 chr10:14625392-14625412 1.0000 20 chr19:49285866-49285886 1.0000 20 chr4:79566032-79566052 1.0000 20 chr7:129588842-129588862 1.0000 20 chr1:100543315-100543335 1.0000 20 chr19:45430497-45430517 1.0000 20 chr8:29743426-29743446 1.0000 20 chr14:100208597-10020861 1.0000 20 chr11:94987611-94987631 1.0000 20 chr19:50554401-50554421 1.0000 20 chr5:90676878-90676898 1.0000 20 chr9:135988287-135988307 1.0000 20 chr19:45418411-45418431 1.0000 20 chr1:30788531-30788551 1.0000 20 chr1:150534718-150534738 1.0000 20 chr12:66628020-66628040 1.0000 20 chr6:136641065-136641085 1.0000 20 chr11:72433614-72433634 1.0000 20 chr7:75947444-75947464 1.0000 20 chr5:133576543-133576563 1.0000 20 chr5:158480433-158480453 1.0000 20 chrX:150038120-150038140 1.0000 20 chr19:47854955-47854975 1.0000 20 chr6:33025215-33025235 1.0000 20 chr19:18215360-18215380 1.0000 20 chr22:29518226-29518246 1.0000 20 chr2:198753911-198753931 1.0000 20 chr19:17866907-17866927 1.0000 20 chr6:75156891-75156911 1.0000 20 chr6:32908884-32908904 1.0000 20 chr4:129838230-129838250 1.0000 20 chr7:154998373-154998393 1.0000 20 chr16:79804616-79804636 1.0000 20 chr7:22911893-22911913 1.0000 20 chr6:43478108-43478128 1.0000 20 chr1:249133183-249133203 1.0000 20 chr6:26458081-26458101 1.0000 20 chr6:32658182-32658202 1.0000 20 chrX:13274858-13274878 1.0000 20 chr12:656317-656337 1.0000 20 chr19:10356210-10356230 1.0000 20 chr2:196521543-196521563 1.0000 20 chr7:122259000-122259020 1.0000 20 chr19:35728063-35728083 1.0000 20 chr6:32634555-32634575 1.0000 20 chr19:50935006-50935026 1.0000 20 chr12:123604544-12360456 1.0000 20 chr5:149790294-149790314 1.0000 20 chr19:39842368-39842388 1.0000 20 chr20:38082611-38082631 1.0000 20 chr9:126962610-126962630 1.0000 20 chr3:111393468-111393488 1.0000 20 chr2:173504704-173504724 1.0000 20 chr2:203243872-203243892 1.0000 20 chr10:112328048-11232806 1.0000 20 chr16:30131779-30131799 1.0000 20 chr18:20912572-20912592 1.0000 20 chr1:249132488-249132508 1.0000 20 chr19:46504300-46504320 1.0000 20 chr5:35370707-35370727 1.0000 20 chr10:64134934-64134954 1.0000 20 chr6:32441462-32441482 1.0000 20 chr8:110551777-110551797 1.0000 20 chr12:120450270-12045029 1.0000 20 chr1:160323244-160323264 1.0000 20 chr3:120136329-120136349 1.0000 20 chr6:32636274-32636294 1.0000 20 chr5:74199364-74199384 1.0000 20 chr6:29691089-29691109 1.0000 20 chr6:33043635-33043655 1.0000 20 chr6:42952238-42952258 1.0000 20 chr19:44079895-44079915 1.0000 20 chr4:87521406-87521426 1.0000 20 chr20:3389433-3389453 1.0000 20 chr1:203290275-203290295 1.0000 20 chr6:26383278-26383298 1.0000 20 chr22:45714222-45714242 1.0000 20 chr4:40059625-40059645 1.0000 20 chr7:39661770-39661790 1.0000 20 chr16:29984903-29984923 1.0000 20 chr11:10995181-10995201 1.0000 20 chr1:181003028-181003048 1.0000 20 chr7:106239318-106239338 1.0000 20 chr19:56028457-56028477 1.0000 20 chr13:97874481-97874501 1.0000 20 chr19:36927672-36927692 1.0000 20 chrX:129065483-129065503 1.0000 20 chr19:2042315-2042335 1.0000 20 chrX:135333812-135333832 1.0000 20 chr17:52828508-52828528 1.0000 20 chr11:86454945-86454965 1.0000 20 chr17:38375060-38375080 1.0000 20 chr10:1779781-1779801 1.0000 20 chr5:149789503-149789523 1.0000 20 chr3:13115023-13115043 1.0000 20 chr19:50372865-50372885 1.0000 20 chr6:37517533-37517553 1.0000 20 chr12:4140529-4140549 1.0000 20 chr10:102241436-10224145 1.0000 20 chr8:23305124-23305144 1.0000 20 chr21:26829211-26829231 1.0000 20 chr12:49582953-49582973 1.0000 20 chr1:28573796-28573816 1.0000 20 chr1:46049207-46049227 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_RFX5/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/GM12878/fasta/RankLinear0.6_10/RFX5.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 0.259 C 0.256 G 0.241 T 0.243 Background letter frequencies (from file dataset with add-one prior applied): A 0.259 C 0.256 G 0.241 T 0.243 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF TCABYWGT MEME-1 width = 8 sites = 45 llr = 340 E-value = 3.6e-030 ******************************************************************************** -------------------------------------------------------------------------------- Motif TCABYWGT MEME-1 Description -------------------------------------------------------------------------------- Simplified A ::a::3:: pos.-specific C :9:26::: probability G :1:4:1a: matrix T a::446:a bits 2.1 * 1.8 * * ** 1.6 * * ** 1.4 *** ** Relative 1.2 *** ** Entropy 1.0 *** ** (10.9 bits) 0.8 *** * ** 0.6 *** **** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TCATCTGT consensus GTA sequence C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCABYWGT MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr7:106239318-106239338 2 1.43e-05 G TCATCTGT CTCTCAGAGA chr19:47082737-47082757 8 1.43e-05 TTCCTGA TCATCTGT TGCCA chr6:32595864-32595884 9 1.43e-05 AAGCAGCA TCATCTGT CTCT chr5:133927143-133927163 3 1.43e-05 AC TCATCTGT CACCAGGTGA chr6:52172454-52172474 10 1.43e-05 CTCTCTGCG TCATCTGT TGT chr5:94957299-94957319 8 1.43e-05 AGACGGG TCATCTGT CGCTA chrX:13274858-13274878 7 2.84e-05 CTCCCT TCAGCTGT TGCTAG chr2:231778753-231778773 7 2.84e-05 TTACTG TCAGCTGT TACCGG chr1:108614443-108614463 11 2.84e-05 TAACTCACCA TCAGCTGT AA chr20:53612273-53612293 12 2.84e-05 ACGGGGTGAC TCAGCTGT T chr12:5089010-5089030 12 2.84e-05 CTCCTGTTCA TCAGCTGT T chr1:160323244-160323264 6 4.19e-05 TCTGA TCATTTGT TGCCTAG chr20:30948017-30948037 6 4.19e-05 CCTAG TCATTTGT TGCCCAG chr21:39235139-39235159 1 4.19e-05 . TCATTTGT TGCCAGGAGG chr1:46049207-46049227 9 5.54e-05 TTTTTGCG TCAGTTGT TGCT chr10:72147435-72147455 10 5.54e-05 tctcaagcg tcagttgt tgc chr12:120450270-12045029 1 8.56e-05 . TCATCAGT TGCTAGGTTA chr6:32441462-32441482 8 8.56e-05 AATAGCA TCATCAGT TGCTG chr10:112328048-11232806 10 8.56e-05 GGGGTGTCG TCACCTGT CAC chr19:3857790-3857810 2 8.56e-05 G TCACCTGT TGCTGGAAGG chr15:41171181-41171201 4 8.56e-05 GAG TCACCTGT TTCTCAGAG chr14:59823191-59823211 7 8.56e-05 ctgttg tcacctgt tgtcag chr2:173504704-173504724 3 1.01e-04 AG TCAGCAGT GACATTTGCC chr1:30788531-30788551 6 1.01e-04 TGACA TCAGCAGT CACCAGG chr5:116228892-116228912 10 1.01e-04 ATATGTCAG TCAGCAGT TGC chr9:119563222-119563242 3 1.01e-04 TA TCAGCAGT TGCTAGGTGG chr17:52828508-52828528 6 1.29e-04 caacg tcattagt caccagg chr19:35728063-35728083 7 1.29e-04 gcaaca tcattagt tgctat chr14:93640487-93640507 3 1.29e-04 ga tcacttgt ttccagggga chr20:30483082-30483102 4 1.44e-04 gtg tcagtagt tgctaggta chr14:100208597-10020861 10 2.57e-04 TATGTGACG TCAGTGGT TGC chr19:18215360-18215380 6 3.67e-04 TGGCG TCACTGGT TGCTATG chr5:89318698-89318718 1 3.67e-04 . TCATGTGT TGCTGGATAT chr5:8578087-8578107 11 3.67e-04 atgtatgaca tcactggt cg chr4:185770432-185770452 13 3.80e-04 tccccttgcg tcaggtgt chr12:113418754-11341877 11 4.07e-04 atttccctag tgattagt ga chr1:100543315-100543335 8 4.21e-04 GGGGACT TGAGTAGT GACGC chr2:461108-461128 11 4.51e-04 ttctgtgagg tcatctgc cc chr9:126962610-126962630 6 5.94e-04 ACAGC TGACTAGT TCATGTG chr16:12074595-12074615 5 5.94e-04 ctag tgactagt gatgttga chr6:29520535-29520555 11 6.49e-04 tggctgcttc tgattggt tg chr15:78128906-78128926 12 6.49e-04 AGACCAAATA TGATTGGT C chr11:94987611-94987631 1 7.70e-04 . TCAGCAGC CAGGGAGAAC chr5:118603901-118603921 9 7.70e-04 GGAGCGCG TCAGCTAT CGTA chr19:722703-722723 6 7.70e-04 CTGCA TCACCCGT TGCTGGG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCABYWGT MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr7:106239318-106239338 1.4e-05 1_[+1]_11 chr19:47082737-47082757 1.4e-05 7_[+1]_5 chr6:32595864-32595884 1.4e-05 8_[+1]_4 chr5:133927143-133927163 1.4e-05 2_[+1]_10 chr6:52172454-52172474 1.4e-05 9_[+1]_3 chr5:94957299-94957319 1.4e-05 7_[+1]_5 chrX:13274858-13274878 2.8e-05 6_[+1]_6 chr2:231778753-231778773 2.8e-05 6_[+1]_6 chr1:108614443-108614463 2.8e-05 10_[+1]_2 chr20:53612273-53612293 2.8e-05 11_[+1]_1 chr12:5089010-5089030 2.8e-05 11_[+1]_1 chr1:160323244-160323264 4.2e-05 5_[+1]_7 chr20:30948017-30948037 4.2e-05 5_[+1]_7 chr21:39235139-39235159 4.2e-05 [+1]_12 chr1:46049207-46049227 5.5e-05 8_[+1]_4 chr10:72147435-72147455 5.5e-05 9_[+1]_3 chr12:120450270-12045029 8.6e-05 [+1]_12 chr6:32441462-32441482 8.6e-05 7_[+1]_5 chr10:112328048-11232806 8.6e-05 9_[+1]_3 chr19:3857790-3857810 8.6e-05 1_[+1]_11 chr15:41171181-41171201 8.6e-05 3_[+1]_9 chr14:59823191-59823211 8.6e-05 6_[+1]_6 chr2:173504704-173504724 0.0001 2_[+1]_10 chr1:30788531-30788551 0.0001 5_[+1]_7 chr5:116228892-116228912 0.0001 9_[+1]_3 chr9:119563222-119563242 0.0001 2_[+1]_10 chr17:52828508-52828528 0.00013 5_[+1]_7 chr19:35728063-35728083 0.00013 6_[+1]_6 chr14:93640487-93640507 0.00013 2_[+1]_10 chr20:30483082-30483102 0.00014 3_[+1]_9 chr14:100208597-10020861 0.00026 9_[+1]_3 chr19:18215360-18215380 0.00037 5_[+1]_7 chr5:89318698-89318718 0.00037 [+1]_12 chr5:8578087-8578107 0.00037 10_[+1]_2 chr4:185770432-185770452 0.00038 12_[+1] chr12:113418754-11341877 0.00041 10_[+1]_2 chr1:100543315-100543335 0.00042 7_[+1]_5 chr2:461108-461128 0.00045 10_[+1]_2 chr9:126962610-126962630 0.00059 5_[+1]_7 chr16:12074595-12074615 0.00059 4_[+1]_8 chr6:29520535-29520555 0.00065 10_[+1]_2 chr15:78128906-78128926 0.00065 11_[+1]_1 chr11:94987611-94987631 0.00077 [+1]_12 chr5:118603901-118603921 0.00077 8_[+1]_4 chr19:722703-722723 0.00077 5_[+1]_7 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCABYWGT MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TCABYWGT width=8 seqs=45 chr7:106239318-106239338 ( 2) TCATCTGT 1 chr19:47082737-47082757 ( 8) TCATCTGT 1 chr6:32595864-32595884 ( 9) TCATCTGT 1 chr5:133927143-133927163 ( 3) TCATCTGT 1 chr6:52172454-52172474 ( 10) TCATCTGT 1 chr5:94957299-94957319 ( 8) TCATCTGT 1 chrX:13274858-13274878 ( 7) TCAGCTGT 1 chr2:231778753-231778773 ( 7) TCAGCTGT 1 chr1:108614443-108614463 ( 11) TCAGCTGT 1 chr20:53612273-53612293 ( 12) TCAGCTGT 1 chr12:5089010-5089030 ( 12) TCAGCTGT 1 chr1:160323244-160323264 ( 6) TCATTTGT 1 chr20:30948017-30948037 ( 6) TCATTTGT 1 chr21:39235139-39235159 ( 1) TCATTTGT 1 chr1:46049207-46049227 ( 9) TCAGTTGT 1 chr10:72147435-72147455 ( 10) TCAGTTGT 1 chr12:120450270-12045029 ( 1) TCATCAGT 1 chr6:32441462-32441482 ( 8) TCATCAGT 1 chr10:112328048-11232806 ( 10) TCACCTGT 1 chr19:3857790-3857810 ( 2) TCACCTGT 1 chr15:41171181-41171201 ( 4) TCACCTGT 1 chr14:59823191-59823211 ( 7) TCACCTGT 1 chr2:173504704-173504724 ( 3) TCAGCAGT 1 chr1:30788531-30788551 ( 6) TCAGCAGT 1 chr5:116228892-116228912 ( 10) TCAGCAGT 1 chr9:119563222-119563242 ( 3) TCAGCAGT 1 chr17:52828508-52828528 ( 6) TCATTAGT 1 chr19:35728063-35728083 ( 7) TCATTAGT 1 chr14:93640487-93640507 ( 3) TCACTTGT 1 chr20:30483082-30483102 ( 4) TCAGTAGT 1 chr14:100208597-10020861 ( 10) TCAGTGGT 1 chr19:18215360-18215380 ( 6) TCACTGGT 1 chr5:89318698-89318718 ( 1) TCATGTGT 1 chr5:8578087-8578107 ( 11) TCACTGGT 1 chr4:185770432-185770452 ( 13) TCAGGTGT 1 chr12:113418754-11341877 ( 11) TGATTAGT 1 chr1:100543315-100543335 ( 8) TGAGTAGT 1 chr2:461108-461128 ( 11) TCATCTGC 1 chr9:126962610-126962630 ( 6) TGACTAGT 1 chr16:12074595-12074615 ( 5) TGACTAGT 1 chr6:29520535-29520555 ( 11) TGATTGGT 1 chr15:78128906-78128926 ( 12) TGATTGGT 1 chr11:94987611-94987631 ( 1) TCAGCAGC 1 chr5:118603901-118603921 ( 9) TCAGCTAT 1 chr19:722703-722723 ( 6) TCACCCGT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCABYWGT MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 7.21026 E= 3.6e-030 -1214 -1214 -1214 204 -1214 176 -85 -1214 195 -1214 -1214 -1214 -1214 -21 65 72 -1214 112 -244 72 26 -352 -112 119 -354 -1214 202 -1214 -1214 -253 -1214 197 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCABYWGT MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 45 E= 3.6e-030 0.000000 0.000000 0.000000 1.000000 0.000000 0.866667 0.133333 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.222222 0.377778 0.400000 0.000000 0.555556 0.044444 0.400000 0.311111 0.022222 0.111111 0.555556 0.022222 0.000000 0.977778 0.000000 0.000000 0.044444 0.000000 0.955556 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCABYWGT MEME-1 regular expression -------------------------------------------------------------------------------- TCA[TGC][CT][TA]GT -------------------------------------------------------------------------------- Time 1.86 secs. ******************************************************************************** ******************************************************************************** MOTIF TRGCAACW MEME-2 width = 8 sites = 42 llr = 312 E-value = 3.5e-023 ******************************************************************************** -------------------------------------------------------------------------------- Motif TRGCAACW MEME-2 Description -------------------------------------------------------------------------------- Simplified A :61:9a:5 pos.-specific C 1::7::a1 probability G :49:1::: matrix T 8::3:::4 bits 2.1 * 1.8 ** 1.6 *** 1.4 * *** Relative 1.2 * * *** Entropy 1.0 ******* (10.7 bits) 0.8 ******* 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TAGCAACA consensus G T T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TRGCAACW MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr7:122259000-122259020 11 1.73e-05 TAGATAGACA TAGCAACA GA chr5:90676878-90676898 3 1.73e-05 CT TAGCAACA GGCTAACAAA chr13:77582636-77582656 8 1.73e-05 ATCATCC TAGCAACA GATGA chr12:57609647-57609667 11 1.73e-05 CCTCAGTGCA TAGCAACA GC chr10:90147068-90147088 5 1.73e-05 GCCC TAGCAACA CTGAAAAG chr5:127271300-127271320 13 1.73e-05 TTGCTCTGAT TAGCAACA chr2:32205951-32205971 5 1.73e-05 CATC TAGCAACA GATGACTA chr5:96176222-96176242 1 1.73e-05 . TAGCAACA AATGACAAAT chr11:86454945-86454965 13 3.35e-05 CATTATCCCC TAGCAACT chr3:144812543-144812563 6 3.35e-05 ctacc tagcaact gctgaca chr3:120482645-120482665 6 3.35e-05 tgtca tagcaact agtgatc chr3:13115023-13115043 6 4.95e-05 CGCCA TGGCAACA GCAGCAT chr11:33369207-33369227 7 4.95e-05 CCTGCC TGGCAACA GGTGAC chr3:16353666-16353686 13 4.95e-05 CTTCCTTCTC TGGCAACA chr5:168161797-168161817 12 4.95e-05 gcactctgcc tggcaaca g chr19:50554401-50554421 4 6.46e-05 CCA TGGCAACT GTCTACGCC chr8:29743426-29743446 6 6.46e-05 CACCA TGGCAACT GTTAATT chr11:69453873-69453893 2 8.10e-05 C TAGTAACA GCGCCGCGCC chr3:119043951-119043971 11 9.64e-05 CACTGCCTTC TAGTAACT AG chr6:25995932-25995952 13 9.64e-05 tgcatttccc tagtaact chr3:43805655-43805675 6 1.12e-04 TGTCC TGGTAACA CCAATCA chr7:70172857-70172877 2 1.29e-04 C TAGCAACC GATGACATAA chr9:130332393-130332413 2 1.43e-04 c tggtaact aagcactcac chr19:50935006-50935026 3 1.59e-04 CC TGGCAACC CGTGACATCA chr18:20912572-20912592 12 2.29e-04 AAATTTCACC TAACAACA G chr1:249133183-249133203 11 2.29e-04 AAAGTTTGCC CAGCAACT TG chr6:26402420-26402440 13 2.29e-04 GGTTTCTGCC CAGCAACT chr19:46504300-46504320 8 3.12e-04 TACGCCT TGGTAACC CGGAC chr17:6735071-6735091 3 3.12e-04 CA TGACAACA AGTGACGCGT chr1:207998167-207998187 11 3.12e-04 CAAGAAGATC TGACAACA TG chr6:75156891-75156911 3 3.61e-04 TA TGACAACT TGTGGCTTAT chr1:16563052-16563072 3 4.27e-04 GG GAGCAACA GGTGACACTC chr9:33164600-33164620 2 4.27e-04 C CAGTAACT GGTGACAAGC chr1:173391733-173391753 13 4.27e-04 cttactgacc cagtaact chr2:196521543-196521563 6 4.76e-04 GGCCT CAGCAACC GACGTTC chr2:122258919-122258939 5 4.76e-04 CACC CAGCAACC CCACTCAT chr12:66628020-66628040 7 6.04e-04 GCTGCC TAGTGACA GATGAC chr19:55840463-55840483 6 6.99e-04 tgccc tagtgact aatgacg chr12:123604544-12360456 7 7.47e-04 CCTACT TGACAACC AGTGAG chr2:33709902-33709922 8 8.15e-04 gtctgcc tggaaaca aagta chr19:10356210-10356230 6 8.59e-04 gggat gggtaaca gatgatg chr5:70829650-70829670 12 8.59e-04 tgtatttcct tggtgact a -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TRGCAACW MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr7:122259000-122259020 1.7e-05 10_[+2]_2 chr5:90676878-90676898 1.7e-05 2_[+2]_10 chr13:77582636-77582656 1.7e-05 7_[+2]_5 chr12:57609647-57609667 1.7e-05 10_[+2]_2 chr10:90147068-90147088 1.7e-05 4_[+2]_8 chr5:127271300-127271320 1.7e-05 12_[+2] chr2:32205951-32205971 1.7e-05 4_[+2]_8 chr5:96176222-96176242 1.7e-05 [+2]_12 chr11:86454945-86454965 3.3e-05 12_[+2] chr3:144812543-144812563 3.3e-05 5_[+2]_7 chr3:120482645-120482665 3.3e-05 5_[+2]_7 chr3:13115023-13115043 5e-05 5_[+2]_7 chr11:33369207-33369227 5e-05 6_[+2]_6 chr3:16353666-16353686 5e-05 12_[+2] chr5:168161797-168161817 5e-05 11_[+2]_1 chr19:50554401-50554421 6.5e-05 3_[+2]_9 chr8:29743426-29743446 6.5e-05 5_[+2]_7 chr11:69453873-69453893 8.1e-05 1_[+2]_11 chr3:119043951-119043971 9.6e-05 10_[+2]_2 chr6:25995932-25995952 9.6e-05 12_[+2] chr3:43805655-43805675 0.00011 5_[+2]_7 chr7:70172857-70172877 0.00013 1_[+2]_11 chr9:130332393-130332413 0.00014 1_[+2]_11 chr19:50935006-50935026 0.00016 2_[+2]_10 chr18:20912572-20912592 0.00023 11_[+2]_1 chr1:249133183-249133203 0.00023 10_[+2]_2 chr6:26402420-26402440 0.00023 12_[+2] chr19:46504300-46504320 0.00031 7_[+2]_5 chr17:6735071-6735091 0.00031 2_[+2]_10 chr1:207998167-207998187 0.00031 10_[+2]_2 chr6:75156891-75156911 0.00036 2_[+2]_10 chr1:16563052-16563072 0.00043 2_[+2]_10 chr9:33164600-33164620 0.00043 1_[+2]_11 chr1:173391733-173391753 0.00043 12_[+2] chr2:196521543-196521563 0.00048 5_[+2]_7 chr2:122258919-122258939 0.00048 4_[+2]_8 chr12:66628020-66628040 0.0006 6_[+2]_6 chr19:55840463-55840483 0.0007 5_[+2]_7 chr12:123604544-12360456 0.00075 6_[+2]_6 chr2:33709902-33709922 0.00082 7_[+2]_5 chr19:10356210-10356230 0.00086 5_[+2]_7 chr5:70829650-70829670 0.00086 11_[+2]_1 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TRGCAACW MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TRGCAACW width=8 seqs=42 chr7:122259000-122259020 ( 11) TAGCAACA 1 chr5:90676878-90676898 ( 3) TAGCAACA 1 chr13:77582636-77582656 ( 8) TAGCAACA 1 chr12:57609647-57609667 ( 11) TAGCAACA 1 chr10:90147068-90147088 ( 5) TAGCAACA 1 chr5:127271300-127271320 ( 13) TAGCAACA 1 chr2:32205951-32205971 ( 5) TAGCAACA 1 chr5:96176222-96176242 ( 1) TAGCAACA 1 chr11:86454945-86454965 ( 13) TAGCAACT 1 chr3:144812543-144812563 ( 6) TAGCAACT 1 chr3:120482645-120482665 ( 6) TAGCAACT 1 chr3:13115023-13115043 ( 6) TGGCAACA 1 chr11:33369207-33369227 ( 7) TGGCAACA 1 chr3:16353666-16353686 ( 13) TGGCAACA 1 chr5:168161797-168161817 ( 12) TGGCAACA 1 chr19:50554401-50554421 ( 4) TGGCAACT 1 chr8:29743426-29743446 ( 6) TGGCAACT 1 chr11:69453873-69453893 ( 2) TAGTAACA 1 chr3:119043951-119043971 ( 11) TAGTAACT 1 chr6:25995932-25995952 ( 13) TAGTAACT 1 chr3:43805655-43805675 ( 6) TGGTAACA 1 chr7:70172857-70172877 ( 2) TAGCAACC 1 chr9:130332393-130332413 ( 2) TGGTAACT 1 chr19:50935006-50935026 ( 3) TGGCAACC 1 chr18:20912572-20912592 ( 12) TAACAACA 1 chr1:249133183-249133203 ( 11) CAGCAACT 1 chr6:26402420-26402440 ( 13) CAGCAACT 1 chr19:46504300-46504320 ( 8) TGGTAACC 1 chr17:6735071-6735091 ( 3) TGACAACA 1 chr1:207998167-207998187 ( 11) TGACAACA 1 chr6:75156891-75156911 ( 3) TGACAACT 1 chr1:16563052-16563072 ( 3) GAGCAACA 1 chr9:33164600-33164620 ( 2) CAGTAACT 1 chr1:173391733-173391753 ( 13) CAGTAACT 1 chr2:196521543-196521563 ( 6) CAGCAACC 1 chr2:122258919-122258939 ( 5) CAGCAACC 1 chr12:66628020-66628040 ( 7) TAGTGACA 1 chr19:55840463-55840483 ( 6) TAGTGACT 1 chr12:123604544-12360456 ( 7) TGACAACC 1 chr2:33709902-33709922 ( 8) TGGAAACA 1 chr19:10356210-10356230 ( 6) GGGTAACA 1 chr5:70829650-70829670 ( 12) TGGTGACT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TRGCAACW MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 7.25079 E= 3.5e-023 -1204 -84 -234 173 120 -1204 75 -1204 -112 -1204 187 -1204 -344 143 -1204 23 184 -1204 -175 -1204 195 -1204 -1204 -1204 -1204 196 -1204 -1204 95 -84 -1204 55 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TRGCAACW MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 42 E= 3.5e-023 0.000000 0.142857 0.047619 0.809524 0.595238 0.000000 0.404762 0.000000 0.119048 0.000000 0.880952 0.000000 0.023810 0.690476 0.000000 0.285714 0.928571 0.000000 0.071429 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.500000 0.142857 0.000000 0.357143 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TRGCAACW MEME-2 regular expression -------------------------------------------------------------------------------- T[AG]G[CT]AAC[AT] -------------------------------------------------------------------------------- Time 2.63 secs. ******************************************************************************** ******************************************************************************** MOTIF GATGACAY MEME-3 width = 8 sites = 20 llr = 156 E-value = 5.5e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif GATGACAY MEME-3 Description -------------------------------------------------------------------------------- Simplified A 29::a:72 pos.-specific C 11:::a:5 probability G 81:a::1: matrix T ::a:1:34 bits 2.1 ** * 1.8 ** * 1.6 **** 1.4 **** Relative 1.2 ***** Entropy 1.0 ****** (11.3 bits) 0.8 ******* 0.6 ******* 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GATGACAC consensus A TT sequence A -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GATGACAY MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:105724767-105724787 3 1.61e-05 CA GATGACAC AGATGGAATT chrX:144631192-144631212 4 1.61e-05 ACA GATGACAC ACACGCACC chr10:14625392-14625412 5 3.13e-05 GACA GATGACAT GAAGCGCA chr19:49078118-49078138 2 3.13e-05 C GATGACAT CATCACTAAT chr7:70172857-70172877 10 3.13e-05 CTAGCAACC GATGACAT AAG chr3:119211155-119211175 8 3.13e-05 GCAGATG GATGACAT CACCT chr21:34576404-34576424 11 4.64e-05 TCTGCTAGAT GATGACTC GG chr22:24825423-24825443 8 4.64e-05 AGCAACA GATGACTC AAGGA chr2:203243872-203243892 1 7.70e-05 . GATGACAA AATTTGTGAA chr2:32205951-32205971 13 1.09e-04 TCTAGCAACA GATGACTA chr1:16563052-16563072 11 1.41e-04 GGGAGCAACA GGTGACAC TC chr6:33043635-33043655 7 1.57e-04 GTGAGC AATGACTC ATACAA chr6:33080115-33080135 1 1.57e-04 . AATGACTC ATACAAAGCT chr12:103508653-10350867 3 1.57e-04 GA AATGACTC AGTGTTTACC chr5:96176222-96176242 9 2.04e-04 TAGCAACA AATGACAA ATGT chr19:45418411-45418431 1 2.47e-04 . GATGACGT ATTGAGGCCC chr9:33164600-33164620 10 3.09e-04 CCAGTAACT GGTGACAA GCC chr9:127563054-127563074 7 3.40e-04 ATGAGT GATGTCAC AGGCCC chr5:149789503-149789523 7 3.71e-04 GTAACT CATGACAT CACAGA chr3:16838558-16838578 2 3.71e-04 g gctgacat taaccaatca -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GATGACAY MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:105724767-105724787 1.6e-05 2_[+3]_10 chrX:144631192-144631212 1.6e-05 3_[+3]_9 chr10:14625392-14625412 3.1e-05 4_[+3]_8 chr19:49078118-49078138 3.1e-05 1_[+3]_11 chr7:70172857-70172877 3.1e-05 9_[+3]_3 chr3:119211155-119211175 3.1e-05 7_[+3]_5 chr21:34576404-34576424 4.6e-05 10_[+3]_2 chr22:24825423-24825443 4.6e-05 7_[+3]_5 chr2:203243872-203243892 7.7e-05 [+3]_12 chr2:32205951-32205971 0.00011 12_[+3] chr1:16563052-16563072 0.00014 10_[+3]_2 chr6:33043635-33043655 0.00016 6_[+3]_6 chr6:33080115-33080135 0.00016 [+3]_12 chr12:103508653-10350867 0.00016 2_[+3]_10 chr5:96176222-96176242 0.0002 8_[+3]_4 chr19:45418411-45418431 0.00025 [+3]_12 chr9:33164600-33164620 0.00031 9_[+3]_3 chr9:127563054-127563074 0.00034 6_[+3]_6 chr5:149789503-149789523 0.00037 6_[+3]_6 chr3:16838558-16838578 0.00037 1_[+3]_11 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GATGACAY MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GATGACAY width=8 seqs=20 chrX:105724767-105724787 ( 3) GATGACAC 1 chrX:144631192-144631212 ( 4) GATGACAC 1 chr10:14625392-14625412 ( 5) GATGACAT 1 chr19:49078118-49078138 ( 2) GATGACAT 1 chr7:70172857-70172877 ( 10) GATGACAT 1 chr3:119211155-119211175 ( 8) GATGACAT 1 chr21:34576404-34576424 ( 11) GATGACTC 1 chr22:24825423-24825443 ( 8) GATGACTC 1 chr2:203243872-203243892 ( 1) GATGACAA 1 chr2:32205951-32205971 ( 13) GATGACTA 1 chr1:16563052-16563072 ( 11) GGTGACAC 1 chr6:33043635-33043655 ( 7) AATGACTC 1 chr6:33080115-33080135 ( 1) AATGACTC 1 chr12:103508653-10350867 ( 3) AATGACTC 1 chr5:96176222-96176242 ( 9) AATGACAA 1 chr19:45418411-45418431 ( 1) GATGACGT 1 chr9:33164600-33164620 ( 10) GGTGACAA 1 chr9:127563054-127563074 ( 7) GATGTCAC 1 chr5:149789503-149789523 ( 7) CATGACAT 1 chr3:16838558-16838578 ( 2) GCTGACAT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GATGACAY MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 5.85491 E= 5.5e-002 -37 -236 164 -1097 171 -236 -127 -1097 -1097 -1097 -1097 204 -1097 -1097 205 -1097 187 -1097 -1097 -228 -1097 196 -1097 -1097 133 -1097 -227 30 -37 81 -1097 52 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GATGACAY MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 20 E= 5.5e-002 0.200000 0.050000 0.750000 0.000000 0.850000 0.050000 0.100000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.950000 0.000000 0.000000 0.050000 0.000000 1.000000 0.000000 0.000000 0.650000 0.000000 0.050000 0.300000 0.200000 0.450000 0.000000 0.350000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GATGACAY MEME-3 regular expression -------------------------------------------------------------------------------- [GA]ATGAC[AT][CTA] -------------------------------------------------------------------------------- Time 5.62 secs. ******************************************************************************** ******************************************************************************** MOTIF TGTTGCYA MEME-4 width = 8 sites = 14 llr = 120 E-value = 2.1e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGTTGCYA MEME-4 Description -------------------------------------------------------------------------------- Simplified A 1::::::7 pos.-specific C :::::a61 probability G 2a:1a::1 matrix T 6:a9::4: bits 2.1 ** ** 1.8 ** ** 1.6 ***** 1.4 ***** Relative 1.2 ***** Entropy 1.0 ****** (12.4 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TGTTGCCA consensus G T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTTGCYA MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr17:38375060-38375080 10 1.41e-05 GCCTGCCTC TGTTGCCA TGA chr5:149790294-149790314 13 1.41e-05 GTGACACAGA TGTTGCCA chr4:79566032-79566052 5 1.41e-05 TCAC TGTTGCCA TGCAGGTC chr14:89960570-89960590 8 1.41e-05 ACGTAGC TGTTGCCA TGGAA chr11:10995181-10995201 10 2.76e-05 GTTGCTAGG TGTTGCTA GGG chrX:77041805-77041825 12 2.76e-05 TTTGGGGGCC TGTTGCTA A chr10:64134934-64134954 5 4.16e-05 ATTG GGTTGCCA ACAGTCAT chr19:49285866-49285886 1 8.38e-05 . TGTTGCCC AGCCACTAGT chr5:45454401-45454421 6 8.38e-05 AGAGC AGTTGCCA GGCAGAC chr1:150534718-150534738 2 1.10e-04 C TGTTGCTG GGCAGGTTTG chr18:7830634-7830654 11 1.37e-04 CATATGTCAT AGTTGCTA GG chr2:198753911-198753931 5 1.51e-04 gtca tgtggcca ttgcagaa chr19:17866907-17866927 13 1.78e-04 CTAGGCGACT GGTTGCCC chrX:106809678-106809698 2 2.33e-04 T GGTTGCTG CACTCCTCAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTTGCYA MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr17:38375060-38375080 1.4e-05 9_[+4]_3 chr5:149790294-149790314 1.4e-05 12_[+4] chr4:79566032-79566052 1.4e-05 4_[+4]_8 chr14:89960570-89960590 1.4e-05 7_[+4]_5 chr11:10995181-10995201 2.8e-05 9_[+4]_3 chrX:77041805-77041825 2.8e-05 11_[+4]_1 chr10:64134934-64134954 4.2e-05 4_[+4]_8 chr19:49285866-49285886 8.4e-05 [+4]_12 chr5:45454401-45454421 8.4e-05 5_[+4]_7 chr1:150534718-150534738 0.00011 1_[+4]_11 chr18:7830634-7830654 0.00014 10_[+4]_2 chr2:198753911-198753931 0.00015 4_[+4]_8 chr19:17866907-17866927 0.00018 12_[+4] chrX:106809678-106809698 0.00023 1_[+4]_11 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTTGCYA MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TGTTGCYA width=8 seqs=14 chr17:38375060-38375080 ( 10) TGTTGCCA 1 chr5:149790294-149790314 ( 13) TGTTGCCA 1 chr4:79566032-79566052 ( 5) TGTTGCCA 1 chr14:89960570-89960590 ( 8) TGTTGCCA 1 chr11:10995181-10995201 ( 10) TGTTGCTA 1 chrX:77041805-77041825 ( 12) TGTTGCTA 1 chr10:64134934-64134954 ( 5) GGTTGCCA 1 chr19:49285866-49285886 ( 1) TGTTGCCC 1 chr5:45454401-45454421 ( 6) AGTTGCCA 1 chr1:150534718-150534738 ( 2) TGTTGCTG 1 chr18:7830634-7830654 ( 11) AGTTGCTA 1 chr2:198753911-198753931 ( 5) TGTGGCCA 1 chr19:17866907-17866927 ( 13) GGTTGCCC 1 chrX:106809678-106809698 ( 2) GGTTGCTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTTGCYA MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 4.90176 E= 2.1e-001 -86 -1045 -17 140 -1045 -1045 205 -1045 -1045 -1045 -1045 204 -1045 -1045 -175 193 -1045 -1045 205 -1045 -1045 196 -1045 -1045 -1045 133 -1045 55 146 -84 -75 -1045 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTTGCYA MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 14 E= 2.1e-001 0.142857 0.000000 0.214286 0.642857 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.071429 0.928571 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.642857 0.000000 0.357143 0.714286 0.142857 0.142857 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGTTGCYA MEME-4 regular expression -------------------------------------------------------------------------------- [TG]GTTGC[CT]A -------------------------------------------------------------------------------- Time 8.22 secs. ******************************************************************************** ******************************************************************************** MOTIF TGCTAGGT MEME-5 width = 8 sites = 8 llr = 73 E-value = 1.7e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGCTAGGT MEME-5 Description -------------------------------------------------------------------------------- Simplified A ::::8:3: pos.-specific C ::a::::3 probability G :a::3a81 matrix T a::a:::6 bits 2.1 **** * 1.8 **** * 1.6 **** * 1.4 **** * Relative 1.2 ******* Entropy 1.0 ******* (13.2 bits) 0.8 ******** 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TGCTAGGT consensus G AC sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCTAGGT MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr12:120450270-12045029 9 1.33e-05 TCATCAGT TGCTAGGT TACG chr20:30483082-30483102 12 1.33e-05 tgtcagtagt tgctaggt a chr9:119563222-119563242 11 1.33e-05 TATCAGCAGT TGCTAGGT GG chr19:17866907-17866927 1 2.73e-05 . TGCTAGGC GACTGGTTGC chr21:34576404-34576424 3 5.40e-05 TC TGCTAGAT GATGACTCGG chr22:44576761-44576781 1 6.73e-05 . TGCTAGGG AAACTCACCA chr12:656317-656337 11 8.03e-05 GAGCgggcgt tgctgggc gt chr5:89318698-89318718 9 1.09e-04 TCATGTGT TGCTGGAT ATGT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCTAGGT MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr12:120450270-12045029 1.3e-05 8_[+5]_4 chr20:30483082-30483102 1.3e-05 11_[+5]_1 chr9:119563222-119563242 1.3e-05 10_[+5]_2 chr19:17866907-17866927 2.7e-05 [+5]_12 chr21:34576404-34576424 5.4e-05 2_[+5]_10 chr22:44576761-44576781 6.7e-05 [+5]_12 chr12:656317-656337 8e-05 10_[+5]_2 chr5:89318698-89318718 0.00011 8_[+5]_4 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCTAGGT MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TGCTAGGT width=8 seqs=8 chr12:120450270-12045029 ( 9) TGCTAGGT 1 chr20:30483082-30483102 ( 12) TGCTAGGT 1 chr9:119563222-119563242 ( 11) TGCTAGGT 1 chr19:17866907-17866927 ( 1) TGCTAGGC 1 chr21:34576404-34576424 ( 3) TGCTAGAT 1 chr22:44576761-44576781 ( 1) TGCTAGGG 1 chr12:656317-656337 ( 11) TGCTGGGC 1 chr5:89318698-89318718 ( 9) TGCTGGAT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCTAGGT MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 9.40106 E= 1.7e+003 -965 -965 -965 204 -965 -965 205 -965 -965 196 -965 -965 -965 -965 -965 204 153 -965 5 -965 -965 -965 205 -965 -5 -965 164 -965 -965 -4 -95 136 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCTAGGT MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 8 E= 1.7e+003 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.750000 0.000000 0.250000 0.000000 0.000000 0.000000 1.000000 0.000000 0.250000 0.000000 0.750000 0.000000 0.000000 0.250000 0.125000 0.625000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCTAGGT MEME-5 regular expression -------------------------------------------------------------------------------- TGCT[AG]G[GA][TC] -------------------------------------------------------------------------------- Time 10.00 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr5:168161797-168161817 3.38e-03 11_[+2(4.95e-05)]_1 chr4:96449757-96449777 6.46e-01 20 chr21:39235139-39235159 1.86e-05 5_[+4(1.41e-05)]_7 chr18:7830634-7830654 1.17e-02 20 chr6:29532843-29532863 3.82e-01 20 chr22:24825423-24825443 2.05e-02 7_[+3(4.64e-05)]_5 chr2:228250476-228250496 2.41e-01 20 chr3:120482645-120482665 3.80e-02 5_[+2(3.35e-05)]_7 chr3:114238484-114238504 4.62e-02 20 chr16:67196502-67196522 1.86e-01 20 chr2:17702216-17702236 1.44e-01 20 chr19:16889776-16889796 6.99e-01 20 chr5:96176222-96176242 2.80e-04 [+2(1.73e-05)]_12 chr14:93640487-93640507 3.94e-04 20 chr18:21769087-21769107 4.17e-02 20 chr5:8578087-8578107 6.08e-03 20 chr16:12074595-12074615 1.75e-04 20 chr20:3203690-3203710 5.91e-02 20 chr19:55840463-55840483 4.93e-04 20 chr2:33709902-33709922 1.30e-01 20 chr18:3725292-3725312 1.60e-01 20 chr6:25995932-25995952 2.51e-02 12_[+2(9.64e-05)] chrX:144631192-144631212 6.01e-03 3_[+3(1.61e-05)]_9 chr5:94957299-94957319 6.34e-04 7_[+1(1.43e-05)]_5 chr9:119563222-119563242 1.55e-06 10_[+5(1.33e-05)]_2 chr5:45454401-45454421 1.56e-03 5_[+4(8.38e-05)]_7 chr5:70829650-70829670 1.16e-04 20 chr11:69453873-69453893 8.03e-02 1_[+2(8.10e-05)]_11 chr20:20672304-20672324 7.26e-01 20 chr1:207998167-207998187 6.57e-02 20 chr11:62323770-62323790 7.05e-01 20 chr3:16353666-16353686 8.26e-03 12_[+2(4.95e-05)] chr19:722703-722723 2.61e-02 20 chr14:93520533-93520553 9.21e-02 20 chr12:5089010-5089030 2.20e-02 11_[+1(2.84e-05)]_1 chr20:30948017-30948037 3.98e-04 5_[+1(4.19e-05)]_7 chr10:72147435-72147455 1.36e-02 9_[+1(5.54e-05)]_3 chr1:173391733-173391753 2.80e-02 20 chr6:52172454-52172474 2.34e-02 9_[+1(1.43e-05)]_3 chr12:103508653-10350867 9.43e-03 20 chr19:49163233-49163253 9.27e-01 20 chr17:73294389-73294409 7.76e-01 20 chr12:92246023-92246043 4.09e-01 20 chr5:89318698-89318718 1.63e-05 20 chr4:166319884-166319904 1.81e-01 20 chr20:53612273-53612293 1.55e-05 11_[+1(2.84e-05)]_1 chr5:14214134-14214154 6.27e-01 20 chr3:121820173-121820193 7.75e-01 20 chr1:159158400-159158420 6.71e-01 20 chr2:218298975-218298995 4.75e-02 20 chr6:134373816-134373836 7.18e-01 20 chr9:130332393-130332413 8.41e-03 20 chr3:124296812-124296832 1.31e-02 20 chr6:32986791-32986811 5.70e-01 20 chr9:137341616-137341636 2.92e-02 20 chr2:32205951-32205971 3.23e-04 4_[+2(1.73e-05)]_8 chr8:80813263-80813283 8.30e-02 20 chr9:33164600-33164620 4.56e-04 20 chrX:39060788-39060808 1.88e-02 20 chr14:59823191-59823211 7.34e-04 6_[+1(8.56e-05)]_6 chr15:41171181-41171201 3.52e-03 3_[+1(8.56e-05)]_9 chr5:127271300-127271320 1.46e-04 12_[+2(1.73e-05)] chr5:133927143-133927163 1.55e-03 2_[+1(1.43e-05)]_10 chr6:26402420-26402440 1.36e-02 20 chr2:122258919-122258939 2.16e-01 20 chr6:33080115-33080135 1.74e-02 20 chrX:106809678-106809698 1.88e-02 20 chr21:34576404-34576424 8.24e-06 2_[+5(5.40e-05)]_[+3(4.64e-05)]_2 chr1:108614443-108614463 3.28e-02 10_[+1(2.84e-05)]_2 chr12:67835752-67835772 6.92e-01 20 chr11:69455881-69455901 6.04e-01 20 chr18:57501701-57501721 2.98e-01 20 chr15:78128906-78128926 3.45e-02 20 chr10:11680268-11680288 1.32e-01 20 chr12:4381246-4381266 2.04e-01 20 chr2:231778753-231778773 6.90e-04 6_[+1(2.84e-05)]_6 chr11:33369207-33369227 4.56e-03 6_[+2(4.95e-05)]_6 chrX:105724767-105724787 7.18e-03 2_[+3(1.61e-05)]_10 chr6:26365309-26365329 9.52e-01 20 chr22:44576761-44576781 1.66e-03 [+5(6.73e-05)]_12 chr19:47178255-47178275 8.40e-01 20 chr3:144812543-144812563 1.02e-02 5_[+2(3.35e-05)]_7 chr9:92105017-92105037 1.49e-01 20 chr19:10565162-10565182 5.28e-01 20 chr11:10336421-10336441 5.15e-01 20 chr3:119211155-119211175 7.04e-04 7_[+3(3.13e-05)]_5 chr10:31074344-31074364 2.80e-01 20 chr1:16563052-16563072 1.53e-03 20 chr22:19930254-19930274 6.61e-02 20 chr2:461108-461128 7.75e-03 20 chr17:21251669-21251689 2.80e-02 20 chr20:30483082-30483102 2.31e-06 11_[+5(1.33e-05)]_1 chr10:77164210-77164230 2.65e-02 20 chr2:183507230-183507250 1.83e-01 20 chr1:51887828-51887848 1.64e-01 20 chr6:32595864-32595884 2.11e-03 8_[+1(1.43e-05)]_4 chr7:70172857-70172877 8.04e-04 9_[+3(3.13e-05)]_3 chr20:45980470-45980490 2.52e-02 20 chr3:119043951-119043971 1.05e-02 10_[+2(9.64e-05)]_2 chrX:40331455-40331475 6.40e-01 20 chr19:47082737-47082757 5.15e-05 12_[+4(1.41e-05)] chr3:16838558-16838578 1.97e-02 20 chr6:26440670-26440690 3.04e-02 20 chr12:29206636-29206656 2.44e-01 20 chr5:118603901-118603921 1.57e-01 20 chr11:47235935-47235955 9.81e-01 20 chr7:100401326-100401346 7.31e-01 20 chr9:35727124-35727144 2.23e-02 20 chr6:29520535-29520555 1.52e-02 20 chr9:35617204-35617224 6.15e-01 20 chr14:105714763-10571478 8.73e-01 20 chr6:32784880-32784900 7.24e-01 20 chr10:90147068-90147088 1.70e-02 4_[+2(1.73e-05)]_8 chr12:113418754-11341877 1.63e-02 20 chr17:6735071-6735091 7.76e-04 20 chr12:14982026-14982046 3.47e-01 20 chr2:13334157-13334177 3.70e-01 20 chr7:112506640-112506660 5.02e-02 20 chr12:54090193-54090213 7.20e-01 20 chr6:32572441-32572461 4.99e-01 20 chr14:50061606-50061626 6.97e-01 20 chr19:51111420-51111440 1.80e-01 20 chr12:57609647-57609667 1.49e-02 10_[+2(1.73e-05)]_2 chr5:116228892-116228912 4.50e-02 20 chr16:58887942-58887962 1.08e-01 20 chr22:43547330-43547350 3.38e-01 20 chr9:92864711-92864731 7.89e-01 20 chr19:3857790-3857810 5.55e-05 1_[+1(8.56e-05)]_11 chr20:5461679-5461699 3.11e-01 20 chr19:50703462-50703482 1.42e-02 20 chr5:88025356-88025376 2.99e-01 20 chr4:185770432-185770452 1.54e-01 20 chr3:43805655-43805675 5.80e-03 20 chrX:77041805-77041825 2.68e-02 11_[+4(2.76e-05)]_1 chr6:26421601-26421621 4.10e-01 20 chr16:17557339-17557359 2.88e-01 20 chr19:49078118-49078138 3.95e-04 1_[+3(3.13e-05)]_11 chr14:89960570-89960590 4.07e-03 7_[+4(1.41e-05)]_5 chr9:127563054-127563074 3.47e-03 20 chr20:306026-306046 1.89e-02 20 chr13:77582636-77582656 1.77e-02 7_[+2(1.73e-05)]_5 chr19:21688318-21688338 4.90e-01 20 chr14:89290935-89290955 6.85e-01 20 chr2:48559631-48559651 8.81e-01 20 chr6:30227239-30227259 8.01e-02 20 chr17:70607497-70607517 2.05e-01 20 chr10:14625392-14625412 7.63e-03 4_[+3(3.13e-05)]_8 chr19:49285866-49285886 3.89e-03 [+4(8.38e-05)]_12 chr4:79566032-79566052 1.26e-03 4_[+4(1.41e-05)]_8 chr7:129588842-129588862 4.06e-01 20 chr1:100543315-100543335 4.89e-03 20 chr19:45430497-45430517 4.06e-01 20 chr8:29743426-29743446 8.30e-03 5_[+2(6.46e-05)]_7 chr14:100208597-10020861 5.34e-03 20 chr11:94987611-94987631 1.91e-02 20 chr19:50554401-50554421 3.72e-03 3_[+2(6.46e-05)]_9 chr5:90676878-90676898 4.83e-03 2_[+2(1.73e-05)]_10 chr9:135988287-135988307 1.12e-01 20 chr19:45418411-45418431 6.65e-03 20 chr1:30788531-30788551 7.11e-03 20 chr1:150534718-150534738 9.97e-04 4_[+5(8.03e-05)]_8 chr12:66628020-66628040 6.19e-03 20 chr6:136641065-136641085 8.71e-01 20 chr11:72433614-72433634 7.21e-01 20 chr7:75947444-75947464 6.41e-01 20 chr5:133576543-133576563 5.40e-01 20 chr5:158480433-158480453 3.20e-01 20 chrX:150038120-150038140 1.85e-01 20 chr19:47854955-47854975 9.25e-01 20 chr6:33025215-33025235 2.02e-01 20 chr19:18215360-18215380 1.57e-04 10_[+4(9.71e-05)]_2 chr22:29518226-29518246 9.08e-01 20 chr2:198753911-198753931 1.71e-02 20 chr19:17866907-17866927 4.88e-05 [+5(2.73e-05)]_12 chr6:75156891-75156911 2.12e-03 20 chr6:32908884-32908904 3.93e-04 20 chr4:129838230-129838250 6.81e-01 20 chr7:154998373-154998393 2.33e-01 20 chr16:79804616-79804636 4.09e-01 20 chr7:22911893-22911913 5.49e-02 20 chr6:43478108-43478128 6.30e-01 20 chr1:249133183-249133203 1.15e-02 20 chr6:26458081-26458101 7.81e-01 20 chr6:32658182-32658202 1.17e-01 20 chrX:13274858-13274878 1.31e-04 11_[+4(2.76e-05)]_1 chr12:656317-656337 8.15e-03 10_[+5(8.03e-05)]_2 chr19:10356210-10356230 3.13e-02 20 chr2:196521543-196521563 2.65e-02 20 chr7:122259000-122259020 1.10e-02 10_[+2(1.73e-05)]_2 chr19:35728063-35728083 7.10e-04 20 chr6:32634555-32634575 4.46e-01 20 chr19:50935006-50935026 1.20e-02 20 chr12:123604544-12360456 1.65e-02 20 chr5:149790294-149790314 2.71e-04 12_[+4(1.41e-05)] chr19:39842368-39842388 9.04e-01 20 chr20:38082611-38082631 3.06e-02 20 chr9:126962610-126962630 7.07e-03 20 chr3:111393468-111393488 3.62e-01 20 chr2:173504704-173504724 3.63e-04 20 chr2:203243872-203243892 1.37e-02 [+3(7.70e-05)]_12 chr10:112328048-11232806 2.59e-03 9_[+1(8.56e-05)]_3 chr16:30131779-30131799 3.70e-01 20 chr18:20912572-20912592 3.90e-02 20 chr1:249132488-249132508 5.56e-01 20 chr19:46504300-46504320 4.90e-02 20 chr5:35370707-35370727 9.28e-01 20 chr10:64134934-64134954 2.56e-03 4_[+4(4.16e-05)]_8 chr6:32441462-32441482 2.48e-04 7_[+1(8.56e-05)]_5 chr8:110551777-110551797 5.04e-02 20 chr12:120450270-12045029 1.67e-06 [+1(8.56e-05)]_[+5(1.33e-05)]_4 chr1:160323244-160323264 1.14e-03 5_[+1(4.19e-05)]_7 chr3:120136329-120136349 9.88e-01 20 chr6:32636274-32636294 2.67e-01 20 chr5:74199364-74199384 1.15e-02 20 chr6:29691089-29691109 5.20e-02 20 chr6:33043635-33043655 1.51e-03 20 chr6:42952238-42952258 8.09e-02 20 chr19:44079895-44079915 8.55e-01 20 chr4:87521406-87521426 2.18e-01 20 chr20:3389433-3389453 2.20e-01 20 chr1:203290275-203290295 2.89e-01 20 chr6:26383278-26383298 3.02e-01 20 chr22:45714222-45714242 9.35e-01 20 chr4:40059625-40059645 4.45e-01 20 chr7:39661770-39661790 1.86e-01 20 chr16:29984903-29984923 5.69e-01 20 chr11:10995181-10995201 5.79e-05 2_[+5(1.33e-05)]_2_[+5(6.73e-05)] chr1:181003028-181003048 9.19e-01 20 chr7:106239318-106239338 9.24e-03 1_[+1(1.43e-05)]_11 chr19:56028457-56028477 2.36e-03 20 chr13:97874481-97874501 5.46e-01 20 chr19:36927672-36927692 7.90e-01 20 chrX:129065483-129065503 9.07e-01 20 chr19:2042315-2042335 7.03e-01 20 chrX:135333812-135333832 9.69e-01 20 chr17:52828508-52828528 5.24e-03 20 chr11:86454945-86454965 2.60e-02 12_[+2(3.35e-05)] chr17:38375060-38375080 2.42e-03 9_[+4(1.41e-05)]_3 chr10:1779781-1779801 2.40e-01 20 chr5:149789503-149789523 4.53e-02 20 chr3:13115023-13115043 7.39e-03 5_[+2(4.95e-05)]_7 chr19:50372865-50372885 1.13e-01 20 chr6:37517533-37517553 6.10e-01 20 chr12:4140529-4140549 3.27e-01 20 chr10:102241436-10224145 5.91e-01 20 chr8:23305124-23305144 2.60e-01 20 chr21:26829211-26829231 1.05e-01 20 chr12:49582953-49582973 2.66e-01 20 chr1:28573796-28573816 8.35e-01 20 chr1:46049207-46049227 9.64e-03 8_[+1(5.54e-05)]_4 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c17n10.farnam.hpc.yale.internal ********************************************************************************