******************************************************************************** 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/ZBTB33.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr16:90088993-90089013 1.0000 20 chr22:50051201-50051221 1.0000 20 chr10:135186924-13518694 1.0000 20 chr16:87985091-87985111 1.0000 20 chr9:123605273-123605293 1.0000 20 chr16:30412032-30412052 1.0000 20 chr1:207224383-207224403 1.0000 20 chr8:67940843-67940863 1.0000 20 chr5:139493608-139493628 1.0000 20 chr1:231473963-231473983 1.0000 20 chr1:174173939-174173959 1.0000 20 chr15:75287785-75287805 1.0000 20 chr1:232941084-232941104 1.0000 20 chr10:51565166-51565186 1.0000 20 chr17:77337245-77337265 1.0000 20 chr6:2663512-2663532 1.0000 20 chr12:49351317-49351337 1.0000 20 chr11:13484844-13484864 1.0000 20 chr10:75118566-75118586 1.0000 20 chr20:37707456-37707476 1.0000 20 chr11:70161111-70161131 1.0000 20 chr3:194815942-194815962 1.0000 20 chr3:160117019-160117039 1.0000 20 chr1:207226332-207226352 1.0000 20 chr20:25604736-25604756 1.0000 20 chr19:37341694-37341714 1.0000 20 chr15:34880697-34880717 1.0000 20 chr1:160370222-160370242 1.0000 20 chr17:5522786-5522806 1.0000 20 chr12:27091368-27091388 1.0000 20 chr17:79527837-79527857 1.0000 20 chr11:1285851-1285871 1.0000 20 chr21:47673759-47673779 1.0000 20 chrX:46433657-46433677 1.0000 20 chrX:63615399-63615419 1.0000 20 chr3:107580865-107580885 1.0000 20 chr4:144434620-144434640 1.0000 20 chr11:22851530-22851550 1.0000 20 chr19:56905035-56905055 1.0000 20 chr2:201754484-201754504 1.0000 20 chr8:124263387-124263407 1.0000 20 chr22:45809516-45809536 1.0000 20 chr17:40118668-40118688 1.0000 20 chr6:151711727-151711747 1.0000 20 chr19:5828291-5828311 1.0000 20 chr8:42249110-42249130 1.0000 20 chr6:28863431-28863451 1.0000 20 chr6:47445480-47445500 1.0000 20 chr4:57843886-57843906 1.0000 20 chr11:66035222-66035242 1.0000 20 chr4:68411216-68411236 1.0000 20 chr17:53046064-53046084 1.0000 20 chr2:176032891-176032911 1.0000 20 chr5:125691851-125691871 1.0000 20 chr15:65476868-65476888 1.0000 20 chr17:7760893-7760913 1.0000 20 chr19:33182659-33182679 1.0000 20 chr3:53231277-53231297 1.0000 20 chr22:38597772-38597792 1.0000 20 chr9:100818777-100818797 1.0000 20 chr10:6342661-6342681 1.0000 20 chr5:39074480-39074500 1.0000 20 chr16:84150457-84150477 1.0000 20 chrX:70474085-70474105 1.0000 20 chr14:91605023-91605043 1.0000 20 chr17:4167280-4167300 1.0000 20 chr15:48470540-48470560 1.0000 20 chr9:32550928-32550948 1.0000 20 chr2:232759854-232759874 1.0000 20 chr19:18530860-18530880 1.0000 20 chr5:176449644-176449664 1.0000 20 chr6:108279387-108279407 1.0000 20 chr3:52272679-52272699 1.0000 20 chr19:9434958-9434978 1.0000 20 chr19:37406972-37406992 1.0000 20 chr5:43069003-43069023 1.0000 20 chr1:53019104-53019124 1.0000 20 chr20:3767421-3767441 1.0000 20 chr5:138940720-138940740 1.0000 20 chr6:3849612-3849632 1.0000 20 chr5:169010728-169010748 1.0000 20 chr22:47194656-47194676 1.0000 20 chr8:104311110-104311130 1.0000 20 chr12:50016767-50016787 1.0000 20 chr6:434824-434844 1.0000 20 chr4:15683243-15683263 1.0000 20 chr7:134671225-134671245 1.0000 20 chr5:132387642-132387662 1.0000 20 chr14:75698022-75698042 1.0000 20 chrX:118740408-118740428 1.0000 20 chr13:114518540-11451856 1.0000 20 chr2:85843349-85843369 1.0000 20 chr10:118608973-11860899 1.0000 20 chr20:62601286-62601306 1.0000 20 chr11:62379616-62379636 1.0000 20 chr12:120554123-12055414 1.0000 20 chr4:26322620-26322640 1.0000 20 chr2:219773783-219773803 1.0000 20 chrX:153607365-153607385 1.0000 20 chr17:5113579-5113599 1.0000 20 chr15:56657602-56657622 1.0000 20 chr17:37607569-37607589 1.0000 20 chr4:140374883-140374903 1.0000 20 chr22:37616850-37616870 1.0000 20 chr1:151763967-151763987 1.0000 20 chr19:4124165-4124185 1.0000 20 chr17:27717305-27717325 1.0000 20 chr6:44355269-44355289 1.0000 20 chr12:12849186-12849206 1.0000 20 chr6:13574633-13574653 1.0000 20 chr3:49131536-49131556 1.0000 20 chr22:35627080-35627100 1.0000 20 chr6:43395542-43395562 1.0000 20 chr12:57941002-57941022 1.0000 20 chr19:36980486-36980506 1.0000 20 chr11:95976653-95976673 1.0000 20 chr20:23624884-23624904 1.0000 20 chr7:5518376-5518396 1.0000 20 chr17:34900651-34900671 1.0000 20 chr20:52675615-52675635 1.0000 20 chr14:74318599-74318619 1.0000 20 chr17:55162361-55162381 1.0000 20 chr10:102802862-10280288 1.0000 20 chr1:10555533-10555553 1.0000 20 chr3:125803187-125803207 1.0000 20 chr12:132569511-13256953 1.0000 20 chr17:8079758-8079778 1.0000 20 chr12:118407227-11840724 1.0000 20 chr12:113900384-11390040 1.0000 20 chr14:100705141-10070516 1.0000 20 chr9:72873904-72873924 1.0000 20 chr19:44488716-44488736 1.0000 20 chr6:150390191-150390211 1.0000 20 chr2:225450246-225450266 1.0000 20 chr3:169482915-169482935 1.0000 20 chr2:170683913-170683933 1.0000 20 chr17:7343430-7343450 1.0000 20 chr2:136743190-136743210 1.0000 20 chr3:186501958-186501978 1.0000 20 chr2:109064540-109064560 1.0000 20 chr4:71767914-71767934 1.0000 20 chr10:112064722-11206474 1.0000 20 chr1:24306882-24306902 1.0000 20 chr4:103749173-103749193 1.0000 20 chr16:81505668-81505688 1.0000 20 chr17:2415223-2415243 1.0000 20 chr1:6296071-6296091 1.0000 20 chr8:54755574-54755594 1.0000 20 chr3:127770992-127771012 1.0000 20 chr10:7830053-7830073 1.0000 20 chr18:74535799-74535819 1.0000 20 chr10:102820539-10282055 1.0000 20 chr15:85197533-85197553 1.0000 20 chr10:75634287-75634307 1.0000 20 chr2:162101198-162101218 1.0000 20 chr1:70820412-70820432 1.0000 20 chr4:120133569-120133589 1.0000 20 chr3:194304670-194304690 1.0000 20 chr15:73925768-73925788 1.0000 20 chr15:66649014-66649034 1.0000 20 chr22:50689733-50689753 1.0000 20 chr16:3507663-3507683 1.0000 20 chr1:116961230-116961250 1.0000 20 chr2:181802355-181802375 1.0000 20 chr7:106239359-106239379 1.0000 20 chr21:30638205-30638225 1.0000 20 chr14:50065917-50065937 1.0000 20 chr6:2765329-2765349 1.0000 20 chrX:153059820-153059840 1.0000 20 chr17:4843572-4843592 1.0000 20 chr1:167905783-167905803 1.0000 20 chr21:38445448-38445468 1.0000 20 chr13:21750743-21750763 1.0000 20 chr2:110270920-110270940 1.0000 20 chr3:49314418-49314438 1.0000 20 chr13:31736559-31736579 1.0000 20 chr13:115047257-11504727 1.0000 20 chr3:114865545-114865565 1.0000 20 chr2:148601797-148601817 1.0000 20 chr11:85376193-85376213 1.0000 20 chr13:79177741-79177761 1.0000 20 chr6:146285594-146285614 1.0000 20 chr12:80328975-80328995 1.0000 20 chr9:98637883-98637903 1.0000 20 chr10:15139067-15139087 1.0000 20 chr16:231491-231511 1.0000 20 chr1:11159893-11159913 1.0000 20 chr6:71122930-71122950 1.0000 20 chr3:17784324-17784344 1.0000 20 chr16:87526653-87526673 1.0000 20 chr4:40751902-40751922 1.0000 20 chr3:150421744-150421764 1.0000 20 chr20:30539778-30539798 1.0000 20 chr2:37384182-37384202 1.0000 20 chr10:124768356-12476837 1.0000 20 chr2:74406006-74406026 1.0000 20 chr8:28258924-28258944 1.0000 20 chr4:26321238-26321258 1.0000 20 chr6:97731152-97731172 1.0000 20 chr8:38089084-38089104 1.0000 20 chrX:48660136-48660156 1.0000 20 chr8:52811814-52811834 1.0000 20 chr1:1447122-1447142 1.0000 20 chr2:25194974-25194994 1.0000 20 chr19:51111361-51111381 1.0000 20 chr11:75294386-75294406 1.0000 20 chr10:75385815-75385835 1.0000 20 chr12:29534165-29534185 1.0000 20 chr1:26147314-26147334 1.0000 20 chr11:76388353-76388373 1.0000 20 chr12:9804172-9804192 1.0000 20 chr12:104532003-10453202 1.0000 20 chr11:107880033-10788005 1.0000 20 chr19:40971622-40971642 1.0000 20 chr19:34663271-34663291 1.0000 20 chr6:33168629-33168649 1.0000 20 chr3:185826357-185826377 1.0000 20 chr17:78428566-78428586 1.0000 20 chr5:171404755-171404775 1.0000 20 chr5:86708682-86708702 1.0000 20 chr12:7261192-7261212 1.0000 20 chr6:33397474-33397494 1.0000 20 chr19:3434928-3434948 1.0000 20 chr15:22833406-22833426 1.0000 20 chr16:83841586-83841606 1.0000 20 chr19:13057106-13057126 1.0000 20 chr2:160568953-160568973 1.0000 20 chr15:69452870-69452890 1.0000 20 chr8:144911537-144911557 1.0000 20 chr20:32320013-32320033 1.0000 20 chr4:17812514-17812534 1.0000 20 chr9:88555922-88555942 1.0000 20 chr19:50819319-50819339 1.0000 20 chr6:143144276-143144296 1.0000 20 chr17:28088541-28088561 1.0000 20 chrX:13752741-13752761 1.0000 20 chr16:25269314-25269334 1.0000 20 chr15:65185782-65185802 1.0000 20 chr1:78444874-78444894 1.0000 20 chr17:33866249-33866269 1.0000 20 chr19:38146943-38146963 1.0000 20 chr2:207630292-207630312 1.0000 20 chr16:4524673-4524693 1.0000 20 chr1:205718275-205718295 1.0000 20 chr1:53308470-53308490 1.0000 20 chrX:53711334-53711354 1.0000 20 chr7:113726360-113726380 1.0000 20 chr1:78148368-78148388 1.0000 20 chrX:150151773-150151793 1.0000 20 chr20:30467930-30467950 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_ZBTB33/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/GM12878/fasta/RankLinear0.6_10/ZBTB33.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 0.197 C 0.305 G 0.314 T 0.185 Background letter frequencies (from file dataset with add-one prior applied): A 0.197 C 0.305 G 0.314 T 0.185 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF TCTCGCGA MEME-1 width = 8 sites = 67 llr = 505 E-value = 2.2e-063 ******************************************************************************** -------------------------------------------------------------------------------- Motif TCTCGCGA MEME-1 Description -------------------------------------------------------------------------------- Simplified A :1:::1:8 pos.-specific C :91a:7:: probability G ::2:a1a1 matrix T a:6::1:: bits 2.4 2.2 * 1.9 * 1.7 * ** * Relative 1.5 * ** * Entropy 1.2 ** ** ** (10.9 bits) 1.0 ** ** ** 0.7 ***** ** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TCTCGCGA consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCGCGA MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr15:65185782-65185802 12 1.89e-05 CCAActcggc tctcgcga g chr19:50819319-50819339 1 1.89e-05 . TCTCGCGA GGTCTCAGGC chr17:78428566-78428586 7 1.89e-05 CCTAAC TCTCGCGA GACGCC chr10:15139067-15139087 4 1.89e-05 TGG TCTCGCGA TACATACCT chrX:153059820-153059840 7 1.89e-05 TACCGC TCTCGCGA GAGTTC chr17:27717305-27717325 5 1.89e-05 AAAA TCTCGCGA GATCGGAG chr4:140374883-140374903 3 1.89e-05 CC TCTCGCGA GAGAGTGCCC chr17:37607569-37607589 9 1.89e-05 CATCGAAA TCTCGCGA ATAT chr5:138940720-138940740 9 1.89e-05 GCTCTAGA TCTCGCGA GATC chr2:232759854-232759874 3 1.89e-05 at tctcgcga gatctgctca chr10:6342661-6342681 10 1.89e-05 CAAAGCCAG TCTCGCGA GGC chr17:53046064-53046084 11 1.89e-05 GCGTGCTCCG TCTCGCGA GA chr4:57843886-57843906 1 1.89e-05 . TCTCGCGA TTTAAGCTCT chr8:42249110-42249130 9 1.89e-05 TCGCGCAT TCTCGCGA GAAT chr19:5828291-5828311 5 1.89e-05 GGAC TCTCGCGA TAACTGTA chr2:201754484-201754504 1 1.89e-05 . tctcgcga tattgtggcc chrX:46433657-46433677 1 1.89e-05 . TCTCGCGA GAAGCAGCAC chr1:232941084-232941104 2 1.89e-05 A TCTCGCGA GATAGCAGGC chr8:67940843-67940863 7 1.89e-05 GAGAAA TCTCGCGA CATCGC chr16:30412032-30412052 6 1.89e-05 CGGGT TCTCGCGA GATCGTA chr2:207630292-207630312 12 4.25e-05 ATCCGTAAGA TCTCGTGA G chr2:181802355-181802375 2 4.25e-05 t tctcgtga tagtgagtga chr3:169482915-169482935 11 4.25e-05 CTCTCGCGGC TCTCGTGA GA chr22:35627080-35627100 11 4.25e-05 aaccatcaga tctcgtga ga chr11:1285851-1285871 5 4.25e-05 caga tctcgtga gaattcac chr11:70161111-70161131 8 4.25e-05 catcaga tctcgtga gactc chr6:2765329-2765349 7 7.45e-05 CTGCCC TCGCGCGA CTCGCA chr2:170683913-170683933 3 8.67e-05 GG TATCGCGA GAGTTGGGCG chr20:30467930-30467950 12 1.18e-04 GCTGCGCAAG TCCCGCGA G chr3:49131536-49131556 9 1.18e-04 GCGTCGGA TCCCGCGA GATC chr4:15683243-15683263 1 1.18e-04 . TCCCGCGA GAGGCGGAAA chr3:160117019-160117039 8 1.18e-04 TTCCTCT TCCCGCGA TACTT chr17:28088541-28088561 9 1.37e-04 gccccAGA TCTCGGGA CGCC chr3:127770992-127771012 11 1.37e-04 ACAGCCCCAG TCTCGGGA GG chr6:71122930-71122950 11 1.67e-04 AACCTCCCGT TCTCGCGG GA chr18:74535799-74535819 4 1.67e-04 TTT TCTCGCGG GCGCCGTGG chr5:169010728-169010748 13 1.67e-04 ACGTGGGACT TCTCGCGG chr10:102802862-10280288 11 1.87e-04 TTTCGAGGAA TCACGCGA GG chr11:107880033-10788005 6 2.05e-04 CGAAT TCTCGCGT CGTCTCG chr1:10555533-10555553 1 2.05e-04 . TCTCGCGT GTGGGGACGA chr16:83841586-83841606 4 2.26e-04 TCG TCGCGAGA AGCAGCGGC chr12:80328975-80328995 2 2.26e-04 T TCGCGAGA TCCGGACTGG chr2:136743190-136743210 6 2.26e-04 AAAGA TCGCGAGA GCTGCGG chr12:118407227-11840724 1 2.26e-04 . TCGCGAGA CCGGGCCGGA chr1:151763967-151763987 13 2.26e-04 GCAGGGAGCC TCGCGAGA chr9:32550928-32550948 1 2.26e-04 . TCGCGAGA CAGCGGAGAC chr22:45809516-45809536 6 2.26e-04 AAGTG TCGCGAGA AGAGAGC chr20:30539778-30539798 12 3.10e-04 CGCTTGCGGC TCTCGCGC G chr4:120133569-120133589 3 3.10e-04 GA TCTCGCGC CTCCGAGGAA chrX:150151773-150151793 8 3.69e-04 AGGCAGC TAGCGCGA GGCTG chr10:7830053-7830073 3 3.69e-04 CG TAGCGCGA AGAAACGAGA chr8:104311110-104311130 1 3.69e-04 . TCTCGAGG CAGCTCCAGT chr20:52675615-52675635 6 4.00e-04 cagta tcacgaga acagcgt chr22:50051201-50051221 4 4.00e-04 aga tctcgtgg gaactcact chr3:194304670-194304690 1 4.64e-04 . TCGCGGGA GGCGGTGGCT chr6:43395542-43395562 12 4.64e-04 TTACCCTTGG TACCGCGA G chr2:85843349-85843369 8 4.64e-04 GTTCCAC TCGCGGGA AGCGA chr9:100818777-100818797 9 4.64e-04 CGCACGGA TACCGCGA TGGT chr6:3849612-3849632 13 5.39e-04 TGTCCACGGC TGTCGCGA chr10:75118566-75118586 3 5.39e-04 AG ACTCGCGA TAACCCTCTG chr21:38445448-38445468 12 7.53e-04 GCGGGCGTGA TCCCGCGG C chr12:27091368-27091388 4 7.53e-04 CAG TAACGCGA GGAAAGAAA chrX:48660136-48660156 12 8.76e-04 CCGCTTGTGA GCTCGCGA G chr16:3507663-3507683 12 8.76e-04 CGCTGCAGGC CCTCGCGA G chr19:18530860-18530880 10 8.76e-04 CCGAGCGGG TCTCGGGG GTC chr11:75294386-75294406 13 9.40e-04 ACCGGCCCGA TCCCGCGT chr17:40118668-40118688 13 1.20e-03 GGGCCGAGGT TCCCGCGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCGCGA MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr15:65185782-65185802 1.9e-05 11_[+1]_1 chr19:50819319-50819339 1.9e-05 [+1]_12 chr17:78428566-78428586 1.9e-05 6_[+1]_6 chr10:15139067-15139087 1.9e-05 3_[+1]_9 chrX:153059820-153059840 1.9e-05 6_[+1]_6 chr17:27717305-27717325 1.9e-05 4_[+1]_8 chr4:140374883-140374903 1.9e-05 2_[+1]_10 chr17:37607569-37607589 1.9e-05 8_[+1]_4 chr5:138940720-138940740 1.9e-05 8_[+1]_4 chr2:232759854-232759874 1.9e-05 2_[+1]_10 chr10:6342661-6342681 1.9e-05 9_[+1]_3 chr17:53046064-53046084 1.9e-05 10_[+1]_2 chr4:57843886-57843906 1.9e-05 [+1]_12 chr8:42249110-42249130 1.9e-05 8_[+1]_4 chr19:5828291-5828311 1.9e-05 4_[+1]_8 chr2:201754484-201754504 1.9e-05 [+1]_12 chrX:46433657-46433677 1.9e-05 [+1]_12 chr1:232941084-232941104 1.9e-05 1_[+1]_11 chr8:67940843-67940863 1.9e-05 6_[+1]_6 chr16:30412032-30412052 1.9e-05 5_[+1]_7 chr2:207630292-207630312 4.2e-05 11_[+1]_1 chr2:181802355-181802375 4.2e-05 1_[+1]_11 chr3:169482915-169482935 4.2e-05 10_[+1]_2 chr22:35627080-35627100 4.2e-05 10_[+1]_2 chr11:1285851-1285871 4.2e-05 4_[+1]_8 chr11:70161111-70161131 4.2e-05 7_[+1]_5 chr6:2765329-2765349 7.4e-05 6_[+1]_6 chr2:170683913-170683933 8.7e-05 2_[+1]_10 chr20:30467930-30467950 0.00012 11_[+1]_1 chr3:49131536-49131556 0.00012 8_[+1]_4 chr4:15683243-15683263 0.00012 [+1]_12 chr3:160117019-160117039 0.00012 7_[+1]_5 chr17:28088541-28088561 0.00014 8_[+1]_4 chr3:127770992-127771012 0.00014 10_[+1]_2 chr6:71122930-71122950 0.00017 10_[+1]_2 chr18:74535799-74535819 0.00017 3_[+1]_9 chr5:169010728-169010748 0.00017 12_[+1] chr10:102802862-10280288 0.00019 10_[+1]_2 chr11:107880033-10788005 0.00021 5_[+1]_7 chr1:10555533-10555553 0.00021 [+1]_12 chr16:83841586-83841606 0.00023 3_[+1]_9 chr12:80328975-80328995 0.00023 1_[+1]_11 chr2:136743190-136743210 0.00023 5_[+1]_7 chr12:118407227-11840724 0.00023 [+1]_12 chr1:151763967-151763987 0.00023 12_[+1] chr9:32550928-32550948 0.00023 [+1]_12 chr22:45809516-45809536 0.00023 5_[+1]_7 chr20:30539778-30539798 0.00031 11_[+1]_1 chr4:120133569-120133589 0.00031 2_[+1]_10 chrX:150151773-150151793 0.00037 7_[+1]_5 chr10:7830053-7830073 0.00037 2_[+1]_10 chr8:104311110-104311130 0.00037 [+1]_12 chr20:52675615-52675635 0.0004 5_[+1]_7 chr22:50051201-50051221 0.0004 3_[+1]_9 chr3:194304670-194304690 0.00046 [+1]_12 chr6:43395542-43395562 0.00046 11_[+1]_1 chr2:85843349-85843369 0.00046 7_[+1]_5 chr9:100818777-100818797 0.00046 8_[+1]_4 chr6:3849612-3849632 0.00054 12_[+1] chr10:75118566-75118586 0.00054 2_[+1]_10 chr21:38445448-38445468 0.00075 11_[+1]_1 chr12:27091368-27091388 0.00075 3_[+1]_9 chrX:48660136-48660156 0.00088 11_[+1]_1 chr16:3507663-3507683 0.00088 11_[+1]_1 chr19:18530860-18530880 0.00088 9_[+1]_3 chr11:75294386-75294406 0.00094 12_[+1] chr17:40118668-40118688 0.0012 12_[+1] -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCGCGA MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TCTCGCGA width=8 seqs=67 chr15:65185782-65185802 ( 12) TCTCGCGA 1 chr19:50819319-50819339 ( 1) TCTCGCGA 1 chr17:78428566-78428586 ( 7) TCTCGCGA 1 chr10:15139067-15139087 ( 4) TCTCGCGA 1 chrX:153059820-153059840 ( 7) TCTCGCGA 1 chr17:27717305-27717325 ( 5) TCTCGCGA 1 chr4:140374883-140374903 ( 3) TCTCGCGA 1 chr17:37607569-37607589 ( 9) TCTCGCGA 1 chr5:138940720-138940740 ( 9) TCTCGCGA 1 chr2:232759854-232759874 ( 3) TCTCGCGA 1 chr10:6342661-6342681 ( 10) TCTCGCGA 1 chr17:53046064-53046084 ( 11) TCTCGCGA 1 chr4:57843886-57843906 ( 1) TCTCGCGA 1 chr8:42249110-42249130 ( 9) TCTCGCGA 1 chr19:5828291-5828311 ( 5) TCTCGCGA 1 chr2:201754484-201754504 ( 1) TCTCGCGA 1 chrX:46433657-46433677 ( 1) TCTCGCGA 1 chr1:232941084-232941104 ( 2) TCTCGCGA 1 chr8:67940843-67940863 ( 7) TCTCGCGA 1 chr16:30412032-30412052 ( 6) TCTCGCGA 1 chr2:207630292-207630312 ( 12) TCTCGTGA 1 chr2:181802355-181802375 ( 2) TCTCGTGA 1 chr3:169482915-169482935 ( 11) TCTCGTGA 1 chr22:35627080-35627100 ( 11) TCTCGTGA 1 chr11:1285851-1285871 ( 5) TCTCGTGA 1 chr11:70161111-70161131 ( 8) TCTCGTGA 1 chr6:2765329-2765349 ( 7) TCGCGCGA 1 chr2:170683913-170683933 ( 3) TATCGCGA 1 chr20:30467930-30467950 ( 12) TCCCGCGA 1 chr3:49131536-49131556 ( 9) TCCCGCGA 1 chr4:15683243-15683263 ( 1) TCCCGCGA 1 chr3:160117019-160117039 ( 8) TCCCGCGA 1 chr17:28088541-28088561 ( 9) TCTCGGGA 1 chr3:127770992-127771012 ( 11) TCTCGGGA 1 chr6:71122930-71122950 ( 11) TCTCGCGG 1 chr18:74535799-74535819 ( 4) TCTCGCGG 1 chr5:169010728-169010748 ( 13) TCTCGCGG 1 chr10:102802862-10280288 ( 11) TCACGCGA 1 chr11:107880033-10788005 ( 6) TCTCGCGT 1 chr1:10555533-10555553 ( 1) TCTCGCGT 1 chr16:83841586-83841606 ( 4) TCGCGAGA 1 chr12:80328975-80328995 ( 2) TCGCGAGA 1 chr2:136743190-136743210 ( 6) TCGCGAGA 1 chr12:118407227-11840724 ( 1) TCGCGAGA 1 chr1:151763967-151763987 ( 13) TCGCGAGA 1 chr9:32550928-32550948 ( 1) TCGCGAGA 1 chr22:45809516-45809536 ( 6) TCGCGAGA 1 chr20:30539778-30539798 ( 12) TCTCGCGC 1 chr4:120133569-120133589 ( 3) TCTCGCGC 1 chrX:150151773-150151793 ( 8) TAGCGCGA 1 chr10:7830053-7830073 ( 3) TAGCGCGA 1 chr8:104311110-104311130 ( 1) TCTCGAGG 1 chr20:52675615-52675635 ( 6) TCACGAGA 1 chr22:50051201-50051221 ( 4) TCTCGTGG 1 chr3:194304670-194304690 ( 1) TCGCGGGA 1 chr6:43395542-43395562 ( 12) TACCGCGA 1 chr2:85843349-85843369 ( 8) TCGCGGGA 1 chr9:100818777-100818797 ( 9) TACCGCGA 1 chr6:3849612-3849632 ( 13) TGTCGCGA 1 chr10:75118566-75118586 ( 3) ACTCGCGA 1 chr21:38445448-38445468 ( 12) TCCCGCGG 1 chr12:27091368-27091388 ( 4) TAACGCGA 1 chrX:48660136-48660156 ( 12) GCTCGCGA 1 chr16:3507663-3507683 ( 12) CCTCGCGA 1 chr19:18530860-18530880 ( 10) TCTCGGGG 1 chr11:75294386-75294406 ( 13) TCCCGCGT 1 chr17:40118668-40118688 ( 13) TCCCGCGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCGCGA MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 6.94305 E= 2.2e-063 -372 -435 -439 237 -113 155 -439 -1271 -213 -118 -81 180 -1271 171 -1271 -1271 -1271 -1271 167 -1271 -55 117 -207 -82 -1271 -1271 167 -1271 203 -277 -159 -204 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCGCGA MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 67 E= 2.2e-063 0.014925 0.014925 0.014925 0.955224 0.089552 0.895522 0.014925 0.000000 0.044776 0.134328 0.179104 0.641791 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.134328 0.686567 0.074627 0.104478 0.000000 0.000000 1.000000 0.000000 0.805970 0.044776 0.104478 0.044776 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTCGCGA MEME-1 regular expression -------------------------------------------------------------------------------- TCTCGCGA -------------------------------------------------------------------------------- Time 2.06 secs. ******************************************************************************** ******************************************************************************** MOTIF GAACTCWC MEME-2 width = 8 sites = 13 llr = 113 E-value = 2.5e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif GAACTCWC MEME-2 Description -------------------------------------------------------------------------------- Simplified A 2a81::4: pos.-specific C :::6:a:a probability G 8:22:::: matrix T :::1a:6: bits 2.4 * * 2.2 * * 1.9 * * 1.7 * ** * Relative 1.5 ** **** Entropy 1.2 *** **** (12.5 bits) 1.0 *** **** 0.7 *** **** 0.5 *** **** 0.2 ******** 0.0 -------- Multilevel GAACTCTC consensus GG A sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAACTCWC MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr15:22833406-22833426 12 1.18e-05 GCGGGAGCGC GAACTCTC G chr17:5522786-5522806 4 2.44e-05 tgg gaactcac tcactatcg chr15:34880697-34880717 3 2.44e-05 ga gaactcac ccactatcgc chr22:50051201-50051221 12 2.44e-05 gatctcgtgg gaactcac t chr13:21750743-21750763 10 3.66e-05 GCGAGAGCC GAAGTCTC TCG chr14:100705141-10070516 11 3.66e-05 GGCCAGCGCG GAAGTCTC GC chr7:134671225-134671245 12 3.66e-05 AAGGCTGTCC GAAGTCTC G chr10:112064722-11206474 11 4.40e-05 CGAGAAATAC AAACTCTC GC chr13:79177741-79177761 13 8.31e-05 CCGTCCCGGG GAGCTCTC chr3:186501958-186501978 12 8.31e-05 TCGGCGCTCC GAGCTCTC G chr19:51111361-51111381 6 1.26e-04 CGCGC GAGCTCAC AAGCTGC chr11:1285851-1285871 13 1.26e-04 gatctcgtga gaattcac chr2:74406006-74406026 12 1.91e-04 CGGAACCAAC AAAATCTC G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAACTCWC MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr15:22833406-22833426 1.2e-05 11_[+2]_1 chr17:5522786-5522806 2.4e-05 3_[+2]_9 chr15:34880697-34880717 2.4e-05 2_[+2]_10 chr22:50051201-50051221 2.4e-05 11_[+2]_1 chr13:21750743-21750763 3.7e-05 9_[+2]_3 chr14:100705141-10070516 3.7e-05 10_[+2]_2 chr7:134671225-134671245 3.7e-05 11_[+2]_1 chr10:112064722-11206474 4.4e-05 10_[+2]_2 chr13:79177741-79177761 8.3e-05 12_[+2] chr3:186501958-186501978 8.3e-05 11_[+2]_1 chr19:51111361-51111381 0.00013 5_[+2]_7 chr11:1285851-1285871 0.00013 12_[+2] chr2:74406006-74406026 0.00019 11_[+2]_1 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAACTCWC MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GAACTCWC width=8 seqs=13 chr15:22833406-22833426 ( 12) GAACTCTC 1 chr17:5522786-5522806 ( 4) GAACTCAC 1 chr15:34880697-34880717 ( 3) GAACTCAC 1 chr22:50051201-50051221 ( 12) GAACTCAC 1 chr13:21750743-21750763 ( 10) GAAGTCTC 1 chr14:100705141-10070516 ( 11) GAAGTCTC 1 chr7:134671225-134671245 ( 12) GAAGTCTC 1 chr10:112064722-11206474 ( 11) AAACTCTC 1 chr13:79177741-79177761 ( 13) GAGCTCTC 1 chr3:186501958-186501978 ( 12) GAGCTCTC 1 chr19:51111361-51111381 ( 6) GAGCTCAC 1 chr11:1285851-1285871 ( 13) GAATTCAC 1 chr2:74406006-74406026 ( 12) AAAATCTC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAACTCWC MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 9.12759 E= 2.5e-001 -35 -1035 143 -1035 235 -1035 -1035 -1035 197 -1035 -44 -1035 -135 101 -44 -126 -1035 -1035 -1035 243 -1035 171 -1035 -1035 97 -1035 -1035 173 -1035 171 -1035 -1035 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAACTCWC MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 13 E= 2.5e-001 0.153846 0.000000 0.846154 0.000000 1.000000 0.000000 0.000000 0.000000 0.769231 0.000000 0.230769 0.000000 0.076923 0.615385 0.230769 0.076923 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.384615 0.000000 0.000000 0.615385 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAACTCWC MEME-2 regular expression -------------------------------------------------------------------------------- GA[AG][CG]TC[TA]C -------------------------------------------------------------------------------- Time 5.18 secs. ******************************************************************************** ******************************************************************************** MOTIF CGCGAGAS MEME-3 width = 8 sites = 23 llr = 165 E-value = 7.5e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif CGCGAGAS MEME-3 Description -------------------------------------------------------------------------------- Simplified A :1::9:81 pos.-specific C 9:a:::23 probability G 19:a19:4 matrix T :::::1:2 bits 2.4 2.2 1.9 1.7 *** Relative 1.5 *** * Entropy 1.2 ******* (10.4 bits) 1.0 ******* 0.7 ******* 0.5 ******* 0.2 ******* 0.0 -------- Multilevel CGCGAGAG consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGCGAGAS MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3:114865545-114865565 4 3.51e-05 GAC CGCGAGAG CCACGGCAA chr7:113726360-113726380 1 6.92e-05 . CGCGAGAC AGCGCGAGCC chr12:132569511-13256953 1 6.92e-05 . CGCGAGAC CGCTGTCTAC chr6:151711727-151711747 12 6.92e-05 CCGGAGACAG CGCGAGAC C chr9:98637883-98637903 1 8.99e-05 . CGCGAGAT CCCAATGACA chr10:118608973-11860899 4 8.99e-05 CCA CGCGAGAT CTGGGGGTC chr5:176449644-176449664 1 8.99e-05 . CGCGAGAT TTGTTGGCTG chr3:17784324-17784344 3 1.12e-04 GG CGCGAGAA GCGAGTAGGT chr12:49351317-49351337 1 1.33e-04 . CGCGATAG CTGCGCGGTA chr1:78148368-78148388 2 1.53e-04 T CGCGATAC AAACCCACTC chr19:44488716-44488736 2 1.65e-04 t cgcgatat aacgtggggt chr17:5113579-5113599 5 1.87e-04 TGGG CACGAGAG CACTCAGC chr2:162101198-162101218 3 2.77e-04 AA CGCGAGCG TTTAAGAGAG chr4:26322620-26322640 13 2.77e-04 TTGGAGTTTT GGCGAGAG chr10:51565166-51565186 4 2.77e-04 TAT GGCGAGAG GTGTGGGAG chr19:38146943-38146963 3 4.13e-04 AT CGCGAGCC TGGACCAAGG chr3:185826357-185826377 3 4.13e-04 CT CGCGAGCC TCCAAGTCCC chr3:150421744-150421764 4 4.13e-04 GAG CGCGAGCC TCTGTTGTG chr20:32320013-32320033 2 5.22e-04 g cgcgggag ccgaggcccg chr19:13057106-13057126 1 5.22e-04 . CGCGGGAG TCACAAGCTC chr15:22833406-22833426 1 5.22e-04 . CGCGGGAG CGCGAACTCT chr16:87985091-87985111 7 5.36e-04 AAACAC CACGAGAA TTCCGC chr2:219773783-219773803 2 6.47e-04 C GGCGAGAA GACGCGCTAT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGCGAGAS MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3:114865545-114865565 3.5e-05 3_[+3]_9 chr7:113726360-113726380 6.9e-05 [+3]_12 chr12:132569511-13256953 6.9e-05 [+3]_12 chr6:151711727-151711747 6.9e-05 11_[+3]_1 chr9:98637883-98637903 9e-05 [+3]_12 chr10:118608973-11860899 9e-05 3_[+3]_9 chr5:176449644-176449664 9e-05 [+3]_12 chr3:17784324-17784344 0.00011 2_[+3]_10 chr12:49351317-49351337 0.00013 [+3]_12 chr1:78148368-78148388 0.00015 1_[+3]_11 chr19:44488716-44488736 0.00016 1_[+3]_11 chr17:5113579-5113599 0.00019 4_[+3]_8 chr2:162101198-162101218 0.00028 2_[+3]_10 chr4:26322620-26322640 0.00028 12_[+3] chr10:51565166-51565186 0.00028 3_[+3]_9 chr19:38146943-38146963 0.00041 2_[+3]_10 chr3:185826357-185826377 0.00041 2_[+3]_10 chr3:150421744-150421764 0.00041 3_[+3]_9 chr20:32320013-32320033 0.00052 1_[+3]_11 chr19:13057106-13057126 0.00052 [+3]_12 chr15:22833406-22833426 0.00052 [+3]_12 chr16:87985091-87985111 0.00054 6_[+3]_6 chr2:219773783-219773803 0.00065 1_[+3]_11 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGCGAGAS MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CGCGAGAS width=8 seqs=23 chr3:114865545-114865565 ( 4) CGCGAGAG 1 chr7:113726360-113726380 ( 1) CGCGAGAC 1 chr12:132569511-13256953 ( 1) CGCGAGAC 1 chr6:151711727-151711747 ( 12) CGCGAGAC 1 chr9:98637883-98637903 ( 1) CGCGAGAT 1 chr10:118608973-11860899 ( 4) CGCGAGAT 1 chr5:176449644-176449664 ( 1) CGCGAGAT 1 chr3:17784324-17784344 ( 3) CGCGAGAA 1 chr12:49351317-49351337 ( 1) CGCGATAG 1 chr1:78148368-78148388 ( 2) CGCGATAC 1 chr19:44488716-44488736 ( 2) CGCGATAT 1 chr17:5113579-5113599 ( 5) CACGAGAG 1 chr2:162101198-162101218 ( 3) CGCGAGCG 1 chr4:26322620-26322640 ( 13) GGCGAGAG 1 chr10:51565166-51565186 ( 4) GGCGAGAG 1 chr19:38146943-38146963 ( 3) CGCGAGCC 1 chr3:185826357-185826377 ( 3) CGCGAGCC 1 chr3:150421744-150421764 ( 4) CGCGAGCC 1 chr20:32320013-32320033 ( 2) CGCGGGAG 1 chr19:13057106-13057126 ( 1) CGCGGGAG 1 chr15:22833406-22833426 ( 1) CGCGGGAG 1 chr16:87985091-87985111 ( 7) CACGAGAA 1 chr2:219773783-219773803 ( 2) GGCGAGAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGCGAGAS MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 7.53746 E= 7.5e+000 -1117 151 -127 -1117 -118 -1117 154 -1117 -1117 171 -1117 -1117 -1117 -1117 167 -1117 214 -1117 -127 -1117 -1117 -1117 147 -50 207 -81 -1117 -1117 -59 0 32 -9 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGCGAGAS MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 23 E= 7.5e+000 0.000000 0.869565 0.130435 0.000000 0.086957 0.000000 0.913043 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.869565 0.000000 0.130435 0.000000 0.000000 0.000000 0.869565 0.130435 0.826087 0.173913 0.000000 0.000000 0.130435 0.304348 0.391304 0.173913 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGCGAGAS MEME-3 regular expression -------------------------------------------------------------------------------- CGCGAGA[GC] -------------------------------------------------------------------------------- Time 8.29 secs. ******************************************************************************** ******************************************************************************** MOTIF NTTTWYAA MEME-4 width = 8 sites = 6 llr = 59 E-value = 1.9e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif NTTTWYAA MEME-4 Description -------------------------------------------------------------------------------- Simplified A 32::5:aa pos.-specific C 2::::3:: probability G 2::::::: matrix T 38aa57:: bits 2.4 ** ** 2.2 ** ** 1.9 ** ** 1.7 *** ** Relative 1.5 **** ** Entropy 1.2 ******* (14.2 bits) 1.0 ******* 0.7 ******* 0.5 ******* 0.2 ******** 0.0 -------- Multilevel ATTTATAA consensus T TC sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif NTTTWYAA MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr5:43069003-43069023 9 6.63e-06 tctgatag ttttataa ttgc chr5:125691851-125691871 1 6.63e-06 . atttataa aaccatcaga chr5:171404755-171404775 1 1.19e-05 . ctttttaa gaaagatcag chr21:30638205-30638225 13 2.83e-05 gatctgatgg ttttacaa chr14:91605023-91605043 2 3.54e-05 c aattttaa gccatcaaat chr12:9804172-9804192 3 5.31e-05 ca gttttcaa ccgccagatc -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif NTTTWYAA MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr5:43069003-43069023 6.6e-06 8_[+4]_4 chr5:125691851-125691871 6.6e-06 [+4]_12 chr5:171404755-171404775 1.2e-05 [+4]_12 chr21:30638205-30638225 2.8e-05 12_[+4] chr14:91605023-91605043 3.5e-05 1_[+4]_11 chr12:9804172-9804192 5.3e-05 2_[+4]_10 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif NTTTWYAA MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF NTTTWYAA width=8 seqs=6 chr5:43069003-43069023 ( 9) TTTTATAA 1 chr5:125691851-125691871 ( 1) ATTTATAA 1 chr5:171404755-171404775 ( 1) CTTTTTAA 1 chr21:30638205-30638225 ( 13) TTTTACAA 1 chr14:91605023-91605043 ( 2) AATTTTAA 1 chr12:9804172-9804192 ( 3) GTTTTCAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif NTTTWYAA MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 10.1796 E= 1.9e+002 76 -87 -91 85 -24 -923 -923 217 -923 -923 -923 243 -923 -923 -923 243 134 -923 -923 143 -923 13 -923 185 234 -923 -923 -923 234 -923 -923 -923 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif NTTTWYAA MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 6 E= 1.9e+002 0.333333 0.166667 0.166667 0.333333 0.166667 0.000000 0.000000 0.833333 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.500000 0.000000 0.000000 0.500000 0.000000 0.333333 0.000000 0.666667 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif NTTTWYAA MEME-4 regular expression -------------------------------------------------------------------------------- [AT]TTT[AT][TC]AA -------------------------------------------------------------------------------- Time 11.05 secs. ******************************************************************************** ******************************************************************************** MOTIF ACGGGWTT MEME-5 width = 8 sites = 4 llr = 43 E-value = 2.4e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif ACGGGWTT MEME-5 Description -------------------------------------------------------------------------------- Simplified A a::::5:: pos.-specific C :a:::::: probability G ::aaa::: matrix T :::::5aa bits 2.4 * ** 2.2 * ** 1.9 * ** 1.7 ***** ** Relative 1.5 ******** Entropy 1.2 ******** (15.3 bits) 1.0 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel ACGGGATT consensus T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACGGGWTT MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr6:33397474-33397494 1 1.18e-05 . acgggttt gtgtaggtgg chr5:39074480-39074500 4 1.18e-05 TTG ACGGGTTT CAGTCACAA chr1:205718275-205718295 2 2.43e-05 C ACGGGATT TGGGCCGTGC chr2:37384182-37384202 9 2.43e-05 CGTCTGCT ACGGGATT GGGG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACGGGWTT MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr6:33397474-33397494 1.2e-05 [+5]_12 chr5:39074480-39074500 1.2e-05 3_[+5]_9 chr1:205718275-205718295 2.4e-05 1_[+5]_11 chr2:37384182-37384202 2.4e-05 8_[+5]_4 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACGGGWTT MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF ACGGGWTT width=8 seqs=4 chr6:33397474-33397494 ( 1) ACGGGTTT 1 chr5:39074480-39074500 ( 4) ACGGGTTT 1 chr1:205718275-205718295 ( 2) ACGGGATT 1 chr2:37384182-37384202 ( 9) ACGGGATT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACGGGWTT MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 9.66445 E= 2.4e+003 234 -865 -865 -865 -865 171 -865 -865 -865 -865 167 -865 -865 -865 167 -865 -865 -865 167 -865 134 -865 -865 143 -865 -865 -865 243 -865 -865 -865 243 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACGGGWTT MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 4 E= 2.4e+003 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 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 ACGGGWTT MEME-5 regular expression -------------------------------------------------------------------------------- ACGGG[AT]TT -------------------------------------------------------------------------------- Time 11.89 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr16:90088993-90089013 9.81e-01 20 chr22:50051201-50051221 5.08e-04 11_[+2(2.44e-05)]_1 chr10:135186924-13518694 8.53e-01 20 chr16:87985091-87985111 4.08e-03 20 chr9:123605273-123605293 5.56e-01 20 chr16:30412032-30412052 2.78e-05 5_[+1(1.89e-05)]_7 chr1:207224383-207224403 8.11e-01 20 chr8:67940843-67940863 5.52e-05 6_[+1(1.89e-05)]_6 chr5:139493608-139493628 8.62e-01 20 chr1:231473963-231473983 1.23e-02 20 chr1:174173939-174173959 8.66e-01 20 chr15:75287785-75287805 7.66e-01 20 chr1:232941084-232941104 1.22e-04 1_[+1(1.89e-05)]_11 chr10:51565166-51565186 6.64e-03 20 chr17:77337245-77337265 6.90e-01 20 chr6:2663512-2663532 6.61e-01 20 chr12:49351317-49351337 1.17e-01 20 chr11:13484844-13484864 4.03e-01 20 chr10:75118566-75118586 1.08e-03 20 chr20:37707456-37707476 7.10e-01 20 chr11:70161111-70161131 1.45e-03 7_[+1(4.25e-05)]_5 chr3:194815942-194815962 6.26e-01 20 chr3:160117019-160117039 1.50e-03 20 chr1:207226332-207226352 7.50e-01 20 chr20:25604736-25604756 3.76e-01 20 chr19:37341694-37341714 2.66e-01 20 chr15:34880697-34880717 3.24e-02 2_[+2(2.44e-05)]_10 chr1:160370222-160370242 8.82e-01 20 chr17:5522786-5522806 2.38e-02 3_[+2(2.44e-05)]_9 chr12:27091368-27091388 6.93e-02 20 chr17:79527837-79527857 7.61e-01 20 chr11:1285851-1285871 5.04e-05 4_[+1(4.25e-05)]_8 chr21:47673759-47673779 9.71e-01 20 chrX:46433657-46433677 4.68e-04 [+1(1.89e-05)]_12 chrX:63615399-63615419 6.45e-01 20 chr3:107580865-107580885 5.45e-01 20 chr4:144434620-144434640 7.34e-01 20 chr11:22851530-22851550 4.27e-01 20 chr19:56905035-56905055 3.50e-01 20 chr2:201754484-201754504 1.68e-04 [+1(1.89e-05)]_12 chr8:124263387-124263407 8.38e-01 20 chr22:45809516-45809536 3.52e-03 20 chr17:40118668-40118688 8.87e-02 20 chr6:151711727-151711747 2.10e-02 11_[+3(6.92e-05)]_1 chr19:5828291-5828311 1.10e-05 4_[+1(1.89e-05)]_8 chr8:42249110-42249130 1.42e-05 8_[+1(1.89e-05)]_4 chr6:28863431-28863451 9.30e-02 20 chr6:47445480-47445500 8.10e-01 20 chr4:57843886-57843906 2.33e-05 [+1(1.89e-05)]_12 chr11:66035222-66035242 4.46e-01 20 chr4:68411216-68411236 7.54e-01 20 chr17:53046064-53046084 1.93e-02 10_[+1(1.89e-05)]_2 chr2:176032891-176032911 2.93e-01 20 chr5:125691851-125691871 6.39e-03 [+4(6.63e-06)]_12 chr15:65476868-65476888 7.22e-01 20 chr17:7760893-7760913 8.70e-01 20 chr19:33182659-33182679 2.82e-01 20 chr3:53231277-53231297 9.00e-01 20 chr22:38597772-38597792 7.19e-02 20 chr9:100818777-100818797 4.76e-02 20 chr10:6342661-6342681 2.07e-03 9_[+1(1.89e-05)]_3 chr5:39074480-39074500 5.12e-04 3_[+5(1.18e-05)]_9 chr16:84150457-84150477 5.77e-01 20 chrX:70474085-70474105 9.38e-01 20 chr14:91605023-91605043 3.71e-02 1_[+4(3.54e-05)]_11 chr17:4167280-4167300 7.90e-01 20 chr15:48470540-48470560 5.39e-01 20 chr9:32550928-32550948 2.70e-03 1_[+3(6.92e-05)]_11 chr2:232759854-232759874 2.05e-05 2_[+1(1.89e-05)]_10 chr19:18530860-18530880 5.74e-02 20 chr5:176449644-176449664 4.69e-03 [+3(8.99e-05)]_12 chr6:108279387-108279407 1.14e-01 20 chr3:52272679-52272699 4.17e-01 20 chr19:9434958-9434978 9.45e-01 20 chr19:37406972-37406992 8.93e-01 20 chr5:43069003-43069023 7.71e-03 8_[+4(6.63e-06)]_4 chr1:53019104-53019124 6.22e-01 20 chr20:3767421-3767441 7.20e-01 20 chr5:138940720-138940740 1.60e-05 8_[+1(1.89e-05)]_4 chr6:3849612-3849632 1.96e-02 20 chr5:169010728-169010748 2.95e-03 20 chr22:47194656-47194676 7.16e-01 20 chr8:104311110-104311130 1.64e-01 20 chr12:50016767-50016787 3.23e-01 20 chr6:434824-434844 2.42e-01 20 chr4:15683243-15683263 7.19e-04 3_[+3(3.51e-05)]_9 chr7:134671225-134671245 1.92e-02 11_[+2(3.66e-05)]_1 chr5:132387642-132387662 5.23e-01 20 chr14:75698022-75698042 2.85e-01 20 chrX:118740408-118740428 6.33e-01 20 chr13:114518540-11451856 1.03e-01 20 chr2:85843349-85843369 1.05e-02 20 chr10:118608973-11860899 1.67e-03 3_[+3(8.99e-05)]_9 chr20:62601286-62601306 8.11e-01 20 chr11:62379616-62379636 9.55e-01 20 chr12:120554123-12055414 2.92e-01 20 chr4:26322620-26322640 3.85e-03 20 chr2:219773783-219773803 2.30e-02 20 chrX:153607365-153607385 5.71e-01 20 chr17:5113579-5113599 3.01e-03 20 chr15:56657602-56657622 9.39e-01 20 chr17:37607569-37607589 1.36e-04 8_[+1(1.89e-05)]_4 chr4:140374883-140374903 1.46e-04 2_[+1(1.89e-05)]_10 chr22:37616850-37616870 1.00e+00 20 chr1:151763967-151763987 7.26e-02 20 chr19:4124165-4124185 1.23e-02 20 chr17:27717305-27717325 2.25e-06 4_[+1(1.89e-05)]_8 chr6:44355269-44355289 4.14e-01 20 chr12:12849186-12849206 9.65e-01 20 chr6:13574633-13574653 8.95e-01 20 chr3:49131536-49131556 8.71e-04 11_[+3(8.99e-05)]_1 chr22:35627080-35627100 5.54e-03 10_[+1(4.25e-05)]_2 chr6:43395542-43395562 2.16e-01 20 chr12:57941002-57941022 1.35e-01 20 chr19:36980486-36980506 3.36e-01 20 chr11:95976653-95976673 6.14e-01 20 chr20:23624884-23624904 8.56e-01 20 chr7:5518376-5518396 7.21e-01 20 chr17:34900651-34900671 2.71e-01 20 chr20:52675615-52675635 2.03e-03 20 chr14:74318599-74318619 4.18e-01 20 chr17:55162361-55162381 7.40e-02 20 chr10:102802862-10280288 4.20e-03 20 chr1:10555533-10555553 9.74e-02 20 chr3:125803187-125803207 6.71e-01 20 chr12:132569511-13256953 1.65e-02 [+3(6.92e-05)]_12 chr17:8079758-8079778 1.15e-01 20 chr12:118407227-11840724 1.78e-03 1_[+3(6.92e-05)]_11 chr12:113900384-11390040 8.50e-01 20 chr14:100705141-10070516 4.00e-03 10_[+2(3.66e-05)]_2 chr9:72873904-72873924 9.10e-01 20 chr19:44488716-44488736 1.85e-03 20 chr6:150390191-150390211 8.50e-01 20 chr2:225450246-225450266 1.25e-01 20 chr3:169482915-169482935 1.04e-02 10_[+1(4.25e-05)]_2 chr2:170683913-170683933 3.17e-04 5_[+3(3.51e-05)]_7 chr17:7343430-7343450 9.97e-01 20 chr2:136743190-136743210 2.44e-04 6_[+3(3.51e-05)]_6 chr3:186501958-186501978 6.59e-02 11_[+2(8.31e-05)]_1 chr2:109064540-109064560 4.57e-01 20 chr4:71767914-71767934 8.66e-01 20 chr10:112064722-11206474 3.91e-03 10_[+2(4.40e-05)]_2 chr1:24306882-24306902 9.98e-01 20 chr4:103749173-103749193 5.53e-01 20 chr16:81505668-81505688 2.89e-01 20 chr17:2415223-2415243 3.87e-01 20 chr1:6296071-6296091 9.94e-01 20 chr8:54755574-54755594 1.00e-01 20 chr3:127770992-127771012 1.03e-02 20 chr10:7830053-7830073 1.02e-01 20 chr18:74535799-74535819 8.58e-03 20 chr10:102820539-10282055 8.28e-02 20 chr15:85197533-85197553 4.05e-01 20 chr10:75634287-75634307 8.34e-01 20 chr2:162101198-162101218 5.47e-03 20 chr1:70820412-70820432 2.75e-01 20 chr4:120133569-120133589 4.78e-02 20 chr3:194304670-194304690 1.29e-02 20 chr15:73925768-73925788 3.37e-01 20 chr15:66649014-66649034 2.67e-01 20 chr22:50689733-50689753 8.77e-01 20 chr16:3507663-3507683 2.31e-01 20 chr1:116961230-116961250 8.35e-01 20 chr2:181802355-181802375 6.70e-03 1_[+1(4.25e-05)]_11 chr7:106239359-106239379 8.77e-01 20 chr21:30638205-30638225 8.15e-04 12_[+4(2.83e-05)] chr14:50065917-50065937 8.28e-01 20 chr6:2765329-2765349 1.05e-02 6_[+1(7.45e-05)]_6 chrX:153059820-153059840 2.52e-05 6_[+1(1.89e-05)]_6 chr17:4843572-4843592 7.46e-01 20 chr1:167905783-167905803 6.57e-01 20 chr21:38445448-38445468 2.33e-02 20 chr13:21750743-21750763 1.75e-02 9_[+2(3.66e-05)]_3 chr2:110270920-110270940 6.95e-01 20 chr3:49314418-49314438 9.02e-01 20 chr13:31736559-31736579 9.46e-01 20 chr13:115047257-11504727 7.03e-01 20 chr3:114865545-114865565 6.58e-03 3_[+3(3.51e-05)]_9 chr2:148601797-148601817 8.77e-01 20 chr11:85376193-85376213 2.41e-01 20 chr13:79177741-79177761 7.96e-03 12_[+2(8.31e-05)] chr6:146285594-146285614 1.02e-01 20 chr12:80328975-80328995 1.02e-03 2_[+3(8.99e-05)]_10 chr9:98637883-98637903 1.17e-03 [+3(8.99e-05)]_12 chr10:15139067-15139087 1.34e-04 3_[+1(1.89e-05)]_9 chr16:231491-231511 6.86e-01 20 chr1:11159893-11159913 9.05e-01 20 chr6:71122930-71122950 5.10e-02 20 chr3:17784324-17784344 1.12e-02 20 chr16:87526653-87526673 5.30e-01 20 chr4:40751902-40751922 2.77e-01 20 chr3:150421744-150421764 5.07e-02 20 chr20:30539778-30539798 5.22e-02 20 chr2:37384182-37384202 2.19e-02 8_[+5(2.43e-05)]_4 chr10:124768356-12476837 8.29e-01 20 chr2:74406006-74406026 1.42e-01 20 chr8:28258924-28258944 4.15e-01 20 chr4:26321238-26321258 5.16e-02 20 chr6:97731152-97731172 9.10e-01 20 chr8:38089084-38089104 7.62e-01 20 chrX:48660136-48660156 1.94e-02 20 chr8:52811814-52811834 3.99e-01 20 chr1:1447122-1447142 5.41e-01 20 chr2:25194974-25194994 1.19e-01 20 chr19:51111361-51111381 3.98e-04 20 chr11:75294386-75294406 1.46e-01 20 chr10:75385815-75385835 8.67e-01 20 chr12:29534165-29534185 5.56e-01 20 chr1:26147314-26147334 3.17e-01 20 chr11:76388353-76388373 3.63e-01 20 chr12:9804172-9804192 6.11e-03 2_[+4(5.31e-05)]_10 chr12:104532003-10453202 6.88e-01 20 chr11:107880033-10788005 1.94e-03 1_[+2(8.31e-05)]_11 chr19:40971622-40971642 1.61e-01 20 chr19:34663271-34663291 2.62e-01 20 chr6:33168629-33168649 2.63e-01 20 chr3:185826357-185826377 6.63e-03 20 chr17:78428566-78428586 7.77e-06 6_[+1(1.89e-05)]_6 chr5:171404755-171404775 9.40e-03 [+4(1.19e-05)]_12 chr5:86708682-86708702 9.84e-01 20 chr12:7261192-7261212 7.79e-01 20 chr6:33397474-33397494 2.09e-02 [+5(1.18e-05)]_12 chr19:3434928-3434948 5.61e-02 20 chr15:22833406-22833426 1.18e-04 11_[+2(1.18e-05)]_1 chr16:83841586-83841606 3.47e-03 20 chr19:13057106-13057126 1.24e-03 20 chr2:160568953-160568973 7.46e-01 20 chr15:69452870-69452890 9.99e-01 20 chr8:144911537-144911557 9.98e-01 20 chr20:32320013-32320033 5.96e-02 20 chr4:17812514-17812534 4.73e-01 20 chr9:88555922-88555942 3.40e-01 20 chr19:50819319-50819339 7.92e-05 [+1(1.89e-05)]_12 chr6:143144276-143144296 9.25e-01 20 chr17:28088541-28088561 4.78e-03 20 chrX:13752741-13752761 3.01e-01 20 chr16:25269314-25269334 3.62e-01 20 chr15:65185782-65185802 6.44e-03 11_[+1(1.89e-05)]_1 chr1:78444874-78444894 7.73e-01 20 chr17:33866249-33866269 9.45e-02 20 chr19:38146943-38146963 3.28e-02 20 chr2:207630292-207630312 6.89e-04 11_[+1(4.25e-05)]_1 chr16:4524673-4524693 8.77e-01 20 chr1:205718275-205718295 2.81e-03 1_[+5(2.43e-05)]_11 chr1:53308470-53308490 9.36e-01 20 chrX:53711334-53711354 2.27e-01 20 chr7:113726360-113726380 1.79e-02 [+3(6.92e-05)]_12 chr1:78148368-78148388 1.62e-03 20 chrX:150151773-150151793 5.11e-02 20 chr20:30467930-30467950 2.32e-02 20 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c17n09.farnam.hpc.yale.internal ********************************************************************************