******************************************************************************** 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/TBX21.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr9:80445755-80445775 1.0000 20 chr14:25162399-25162419 1.0000 20 chr10:125532149-12553216 1.0000 20 chr12:75339897-75339917 1.0000 20 chr9:99544687-99544707 1.0000 20 chr1:176147008-176147028 1.0000 20 chr17:75839847-75839867 1.0000 20 chr3:23800124-23800144 1.0000 20 chr12:94638102-94638122 1.0000 20 chr4:39765897-39765917 1.0000 20 chr19:17175966-17175986 1.0000 20 chr5:169084324-169084344 1.0000 20 chr8:70676630-70676650 1.0000 20 chr5:71530253-71530273 1.0000 20 chr3:69058455-69058475 1.0000 20 chr1:29537337-29537357 1.0000 20 chr12:90154736-90154756 1.0000 20 chr17:9950241-9950261 1.0000 20 chr5:88306524-88306544 1.0000 20 chr2:13898652-13898672 1.0000 20 chr4:103311797-103311817 1.0000 20 chrX:87679213-87679233 1.0000 20 chr14:97859796-97859816 1.0000 20 chr11:88534823-88534843 1.0000 20 chr16:28485216-28485236 1.0000 20 chr2:145276871-145276891 1.0000 20 chr5:106811035-106811055 1.0000 20 chr4:47013042-47013062 1.0000 20 chr1:156035203-156035223 1.0000 20 chr3:28368112-28368132 1.0000 20 chr15:60876997-60877017 1.0000 20 chr7:87762250-87762270 1.0000 20 chr11:22763856-22763876 1.0000 20 chr8:128888502-128888522 1.0000 20 chr18:67726374-67726394 1.0000 20 chr8:131340713-131340733 1.0000 20 chr6:102293689-102293709 1.0000 20 chrX:7363219-7363239 1.0000 20 chr8:118398777-118398797 1.0000 20 chr1:82574706-82574726 1.0000 20 chr12:103169962-10316998 1.0000 20 chr3:175134592-175134612 1.0000 20 chr2:76673181-76673201 1.0000 20 chr3:31503865-31503885 1.0000 20 chr3:28276165-28276185 1.0000 20 chr13:113840792-11384081 1.0000 20 chr3:15358034-15358054 1.0000 20 chr1:160608006-160608026 1.0000 20 chr3:165538839-165538859 1.0000 20 chr18:11078704-11078724 1.0000 20 chr1:33264794-33264814 1.0000 20 chr3:59221464-59221484 1.0000 20 chr13:42385897-42385917 1.0000 20 chr1:150159352-150159372 1.0000 20 chr17:34217897-34217917 1.0000 20 chrX:78213344-78213364 1.0000 20 chr7:38272848-38272868 1.0000 20 chr14:54168095-54168115 1.0000 20 chr9:102574119-102574139 1.0000 20 chr5:142376206-142376226 1.0000 20 chr7:37955343-37955363 1.0000 20 chr6:52096748-52096768 1.0000 20 chr10:7526574-7526594 1.0000 20 chr10:70853209-70853229 1.0000 20 chr6:4139728-4139748 1.0000 20 chr7:100144346-100144366 1.0000 20 chr1:205685601-205685621 1.0000 20 chr7:70110957-70110977 1.0000 20 chr16:28152433-28152453 1.0000 20 chr14:59279196-59279216 1.0000 20 chr1:114402278-114402298 1.0000 20 chr13:70140435-70140455 1.0000 20 chr5:143073518-143073538 1.0000 20 chr10:101526239-10152625 1.0000 20 chr1:236324775-236324795 1.0000 20 chr19:14420970-14420990 1.0000 20 chr9:5274969-5274989 1.0000 20 chr9:126412400-126412420 1.0000 20 chr5:127242734-127242754 1.0000 20 chr8:42997617-42997637 1.0000 20 chr20:34482044-34482064 1.0000 20 chr11:75864520-75864540 1.0000 20 chr18:49242840-49242860 1.0000 20 chr13:113423316-11342333 1.0000 20 chr5:142585606-142585626 1.0000 20 chr3:90085082-90085102 1.0000 20 chr3:47267290-47267310 1.0000 20 chr17:55776375-55776395 1.0000 20 chr8:48510818-48510838 1.0000 20 chr2:191380615-191380635 1.0000 20 chr6:116988254-116988274 1.0000 20 chr1:198136688-198136708 1.0000 20 chr18:20887024-20887044 1.0000 20 chr2:128501412-128501432 1.0000 20 chr5:124272405-124272425 1.0000 20 chr8:25056584-25056604 1.0000 20 chr22:22121534-22121554 1.0000 20 chr16:28158044-28158064 1.0000 20 chr20:10328320-10328340 1.0000 20 chr11:86197927-86197947 1.0000 20 chr2:240226072-240226092 1.0000 20 chr3:28293702-28293722 1.0000 20 chr1:93029208-93029228 1.0000 20 chr4:111218223-111218243 1.0000 20 chr10:91127422-91127442 1.0000 20 chr1:242976979-242976999 1.0000 20 chr16:89086927-89086947 1.0000 20 chr12:111943460-11194348 1.0000 20 chr13:99156770-99156790 1.0000 20 chr2:224806564-224806584 1.0000 20 chr18:67563808-67563828 1.0000 20 chr10:125532824-12553284 1.0000 20 chr4:102448517-102448537 1.0000 20 chr1:88616170-88616190 1.0000 20 chr4:84133828-84133848 1.0000 20 chr11:35088872-35088892 1.0000 20 chr2:136810462-136810482 1.0000 20 chrX:44150912-44150932 1.0000 20 chr21:34302170-34302190 1.0000 20 chr12:121597421-12159744 1.0000 20 chr11:93451566-93451586 1.0000 20 chr14:76969176-76969196 1.0000 20 chr14:76969376-76969396 1.0000 20 chr8:52546229-52546249 1.0000 20 chr12:70443946-70443966 1.0000 20 chr11:65199058-65199078 1.0000 20 chr10:6534316-6534336 1.0000 20 chr19:7186611-7186631 1.0000 20 chr6:116380959-116380979 1.0000 20 chr6:64247565-64247585 1.0000 20 chr9:109726805-109726825 1.0000 20 chr7:46178988-46179008 1.0000 20 chr1:236327252-236327272 1.0000 20 chr7:124759749-124759769 1.0000 20 chr10:72053117-72053137 1.0000 20 chr6:30293701-30293721 1.0000 20 chr1:175276513-175276533 1.0000 20 chr7:8165927-8165947 1.0000 20 chr16:13150709-13150729 1.0000 20 chr9:109743099-109743119 1.0000 20 chr2:24566255-24566275 1.0000 20 chr6:36083033-36083053 1.0000 20 chr11:87926608-87926628 1.0000 20 chr12:22562720-22562740 1.0000 20 chr19:55062750-55062770 1.0000 20 chr19:7757496-7757516 1.0000 20 chr12:31875205-31875225 1.0000 20 chr2:46666931-46666951 1.0000 20 chr15:75423450-75423470 1.0000 20 chr22:45714866-45714886 1.0000 20 chr18:67565143-67565163 1.0000 20 chr6:106096317-106096337 1.0000 20 chr3:14730941-14730961 1.0000 20 chr2:191914811-191914831 1.0000 20 chr1:178345326-178345346 1.0000 20 chr7:117228515-117228535 1.0000 20 chr12:46574073-46574093 1.0000 20 chr14:62564771-62564791 1.0000 20 chr2:71310199-71310219 1.0000 20 chr1:67740537-67740557 1.0000 20 chr10:127409719-12740973 1.0000 20 chr1:168379836-168379856 1.0000 20 chrX:13715700-13715720 1.0000 20 chr12:68553631-68553651 1.0000 20 chr5:67937286-67937306 1.0000 20 chr14:31597104-31597124 1.0000 20 chr8:134714648-134714668 1.0000 20 chr18:47658138-47658158 1.0000 20 chr5:150226763-150226783 1.0000 20 chr18:43518587-43518607 1.0000 20 chr3:60442103-60442123 1.0000 20 chr19:7837766-7837786 1.0000 20 chr16:21656909-21656929 1.0000 20 chr15:59775004-59775024 1.0000 20 chr15:83868186-83868206 1.0000 20 chr1:85764057-85764077 1.0000 20 chr9:124116090-124116110 1.0000 20 chr14:53615535-53615555 1.0000 20 chr1:68284520-68284540 1.0000 20 chr3:88191384-88191404 1.0000 20 chr13:81052357-81052377 1.0000 20 chr15:50302049-50302069 1.0000 20 chr9:82246101-82246121 1.0000 20 chr2:191560638-191560658 1.0000 20 chr6:144675283-144675303 1.0000 20 chr16:89092687-89092707 1.0000 20 chr4:81924884-81924904 1.0000 20 chr12:104821483-10482150 1.0000 20 chr4:169645557-169645577 1.0000 20 chr3:101510844-101510864 1.0000 20 chr17:34430940-34430960 1.0000 20 chr8:42623506-42623526 1.0000 20 chr7:37855730-37855750 1.0000 20 chr11:119311669-11931168 1.0000 20 chr6:85120933-85120953 1.0000 20 chr5:16067737-16067757 1.0000 20 chr11:34270191-34270211 1.0000 20 chr14:25423400-25423420 1.0000 20 chr17:49341947-49341967 1.0000 20 chr2:118807543-118807563 1.0000 20 chr1:67660253-67660273 1.0000 20 chr3:36918104-36918124 1.0000 20 chr1:92179327-92179347 1.0000 20 chr7:114556705-114556725 1.0000 20 chr8:109919715-109919735 1.0000 20 chrX:31247264-31247284 1.0000 20 chr12:68557399-68557419 1.0000 20 chr9:1087684-1087704 1.0000 20 chr6:152023188-152023208 1.0000 20 chr6:15023800-15023820 1.0000 20 chr3:28260384-28260404 1.0000 20 chr4:47512683-47512703 1.0000 20 chr16:78783829-78783849 1.0000 20 chr17:28500858-28500878 1.0000 20 chr2:151429797-151429817 1.0000 20 chr7:158616917-158616937 1.0000 20 chr7:69289468-69289488 1.0000 20 chr3:161029043-161029063 1.0000 20 chr4:1197540-1197560 1.0000 20 chr6:132819878-132819898 1.0000 20 chr6:5507456-5507476 1.0000 20 chr8:137195029-137195049 1.0000 20 chr1:204692388-204692408 1.0000 20 chr7:156711917-156711937 1.0000 20 chr2:155393721-155393741 1.0000 20 chr21:34757287-34757307 1.0000 20 chr4:139888651-139888671 1.0000 20 chr6:137553187-137553207 1.0000 20 chr13:53302941-53302961 1.0000 20 chr4:25877073-25877093 1.0000 20 chr4:114743863-114743883 1.0000 20 chr10:98620783-98620803 1.0000 20 chr15:85408560-85408580 1.0000 20 chr5:60498297-60498317 1.0000 20 chr1:26705068-26705088 1.0000 20 chr11:102807762-10280778 1.0000 20 chr7:72011702-72011722 1.0000 20 chr2:38412322-38412342 1.0000 20 chr4:162446429-162446449 1.0000 20 chr15:92401229-92401249 1.0000 20 chr19:39042216-39042236 1.0000 20 chr6:103527916-103527936 1.0000 20 chr3:43249476-43249496 1.0000 20 chr18:8601870-8601890 1.0000 20 chr12:47706732-47706752 1.0000 20 chr2:167583800-167583820 1.0000 20 chr19:53195189-53195209 1.0000 20 chr9:99003779-99003799 1.0000 20 chr17:65653104-65653124 1.0000 20 chr7:101948909-101948929 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_TBX21/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/GM12878/fasta/RankLinear0.6_10/TBX21.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 0.291 C 0.213 G 0.207 T 0.289 Background letter frequencies (from file dataset with add-one prior applied): A 0.291 C 0.213 G 0.207 T 0.289 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF TMWCACYT MEME-1 width = 8 sites = 67 llr = 408 E-value = 2.5e-021 ******************************************************************************** -------------------------------------------------------------------------------- Motif TMWCACYT MEME-1 Description -------------------------------------------------------------------------------- Simplified A 136:a:1: pos.-specific C 261a:951 probability G :11::1:1 matrix T 7:3:::48 bits 2.3 * 2.0 * 1.8 * 1.6 *** Relative 1.4 *** Entropy 1.1 *** (8.8 bits) 0.9 *** * 0.7 ** ***** 0.5 ** ***** 0.2 ******** 0.0 -------- Multilevel TCACACCT consensus AT T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TMWCACYT MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr12:22562720-22562740 10 1.46e-05 CGTTGCATT TCACACCT AAA chr2:136810462-136810482 12 1.46e-05 CTCGCTAATC TCACACCT T chr3:90085082-90085102 9 1.46e-05 TCCCTATT TCACACCT TTTG chr11:75864520-75864540 3 1.46e-05 GT TCACACCT TCACTTCCTC chr1:236324775-236324795 10 1.46e-05 acacacact tcacacct cct chr1:82574706-82574726 4 1.46e-05 gtt tcacacct gtataagag chrX:7363219-7363239 7 1.46e-05 gcaacc tcacacct taacca chr6:132819878-132819898 9 3.43e-05 CTGAAATT TCACACTT CTGC chr12:68557399-68557419 8 3.43e-05 AGAGGTT TCACACTT TGTTG chr1:114402278-114402298 1 3.43e-05 . TCACACTT ACTGCAGCTG chr3:28276165-28276185 7 3.43e-05 GATATT TCACACTT TTTTTT chr8:137195029-137195049 10 4.88e-05 CCCTACATC TCTCACCT CAA chr19:7186611-7186631 1 4.88e-05 . tctcacct taaccaaact chr4:47512683-47512703 9 6.87e-05 GCAGAAGT TAACACCT CCTG chr14:76969176-76969196 5 6.87e-05 CATT TAACACCT TCATGCAT chr1:236327252-236327272 5 7.94e-05 cctc ccacacct ccccatgc chr1:29537337-29537357 6 1.26e-04 gagag taacactt atgtcat chr10:125532824-12553284 5 1.46e-04 TGGT TATCACCT CCCTGGTT chr17:28500858-28500878 9 1.81e-04 actgtgtt TCACACCC TCCC chr1:156035203-156035223 3 1.81e-04 AC CCACACTT TGATTCACAC chr1:26705068-26705088 4 2.20e-04 GGT TGACACCT CCCTCCCTC chr10:72053117-72053137 10 2.20e-04 ACTCTTTTT TGACACCT CTG chr2:128501412-128501432 1 2.20e-04 . CCTCACCT TTGATGACAG chr15:83868186-83868206 12 3.03e-04 CTACTGAAAC TATCACTT A chr2:71310199-71310219 5 3.03e-04 AGTT TCACACAT ATACACCA chr18:67563808-67563828 4 3.03e-04 TGT TCACACAT AGTTCCATA chr9:82246101-82246121 7 3.46e-04 GGTTTT TCACACTC TCTGTG chrX:13715700-13715720 12 4.24e-04 CACTGAACTA TCACAGTT T chr7:8165927-8165947 13 4.24e-04 CAGGGCTTCT TAGCACCT chr12:70443946-70443966 11 4.24e-04 CATACGTATA Tctcaccc ca chr3:23800124-23800144 13 4.24e-04 CTGTGGTTTG TAGCACCT chr12:46574073-46574093 4 4.86e-04 aat taacaccc ttgccgcac chr6:52096748-52096768 1 4.86e-04 . TGTCACCT ATAGATAGCA chr10:125532149-12553216 9 5.49e-04 ACTGTGAT CATCACCT CCCT chr16:89086927-89086947 5 6.85e-04 aggc taacacat tggcttgc chr9:124116090-124116110 9 7.59e-04 tccgccgc aaacacct cctg chr11:93451566-93451586 5 8.17e-04 ATTA TGTCACTT CCCCTTTT chr12:103169962-10316998 11 8.17e-04 ctccctgcct tctcagtt ct chr18:67726374-67726394 3 9.08e-04 AC Catcactt ttaattctca chr11:119311669-11931168 10 9.59e-04 gaagtggtt tctcactg tgg chr8:118398777-118398797 8 9.59e-04 CAGATTT TCTCACTG ACATC chr3:28260384-28260404 1 1.05e-03 . TAACACTG TCTTAGCAGA chr6:116380959-116380979 3 1.05e-03 AC ACTCACTT AGCGGGGGAG chr16:28485216-28485236 7 1.05e-03 gtgaga taccactt cacact chr4:162446429-162446449 10 1.18e-03 TTCCTCAAG AAACACTT AAA chr11:102807762-10280778 13 1.18e-03 ggagaaaagg aaacactt chr11:34270191-34270211 6 1.27e-03 CCTCC CCTCAGCT TCCTTAA chr5:106811035-106811055 9 1.27e-03 ATCACTGA CCTCAGCT AGCA chr18:43518587-43518607 5 1.36e-03 aaac ccccactt acatttga chr18:8601870-8601890 10 1.52e-03 ctctttagt tcacagat cac chr6:103527916-103527936 9 1.62e-03 gaacattt caacacat acag chr5:124272405-124272425 11 1.62e-03 AGTCCTAATG TGGCACTT TT chr3:161029043-161029063 8 1.74e-03 atgaagg cctcactc aggag chr3:165538839-165538859 13 1.74e-03 CTCATCATTT CAGCACTT chr13:53302941-53302961 5 1.91e-03 GTCG ACACACCG CAGTGAGA chr10:7526574-7526594 4 1.91e-03 ACT TAGCAGCT CAAAGTTTT chr2:46666931-46666951 9 2.00e-03 TATTATCT TAACAGCC AGTG chr2:118807543-118807563 10 2.16e-03 CACAAATTC TCCCAGTT CTG chr8:25056584-25056604 13 2.16e-03 TTTCAGTCCT TAGCACCG chr17:75839847-75839867 10 2.16e-03 aggttgagg tgccactt cac chr1:160608006-160608026 9 2.37e-03 acacctcc tctctcct caaa chr1:204692388-204692408 1 2.56e-03 . aaacaccc aagccacaaa chr9:5274969-5274989 7 2.69e-03 tgaagt tctcagtc tagagg chr6:36083033-36083053 4 2.84e-03 GAG TGTCAGTT GCAGCAGAA chr3:28368112-28368132 9 3.02e-03 TGAAGAAA AAACACAT CAGC chr9:99544687-99544707 7 3.02e-03 aactct ccactcct gcctct chr17:34217897-34217917 6 3.38e-03 CTTCA CCACACAG GACATTG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TMWCACYT MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr12:22562720-22562740 1.5e-05 9_[+1]_3 chr2:136810462-136810482 1.5e-05 11_[+1]_1 chr3:90085082-90085102 1.5e-05 8_[+1]_4 chr11:75864520-75864540 1.5e-05 2_[+1]_10 chr1:236324775-236324795 1.5e-05 9_[+1]_3 chr1:82574706-82574726 1.5e-05 3_[+1]_9 chrX:7363219-7363239 1.5e-05 6_[+1]_6 chr6:132819878-132819898 3.4e-05 8_[+1]_4 chr12:68557399-68557419 3.4e-05 7_[+1]_5 chr1:114402278-114402298 3.4e-05 [+1]_12 chr3:28276165-28276185 3.4e-05 6_[+1]_6 chr8:137195029-137195049 4.9e-05 9_[+1]_3 chr19:7186611-7186631 4.9e-05 [+1]_12 chr4:47512683-47512703 6.9e-05 8_[+1]_4 chr14:76969176-76969196 6.9e-05 4_[+1]_8 chr1:236327252-236327272 7.9e-05 4_[+1]_8 chr1:29537337-29537357 0.00013 5_[+1]_7 chr10:125532824-12553284 0.00015 4_[+1]_8 chr17:28500858-28500878 0.00018 8_[+1]_4 chr1:156035203-156035223 0.00018 2_[+1]_10 chr1:26705068-26705088 0.00022 3_[+1]_9 chr10:72053117-72053137 0.00022 9_[+1]_3 chr2:128501412-128501432 0.00022 [+1]_12 chr15:83868186-83868206 0.0003 11_[+1]_1 chr2:71310199-71310219 0.0003 4_[+1]_8 chr18:67563808-67563828 0.0003 3_[+1]_9 chr9:82246101-82246121 0.00035 6_[+1]_6 chrX:13715700-13715720 0.00042 11_[+1]_1 chr7:8165927-8165947 0.00042 12_[+1] chr12:70443946-70443966 0.00042 10_[+1]_2 chr3:23800124-23800144 0.00042 12_[+1] chr12:46574073-46574093 0.00049 3_[+1]_9 chr6:52096748-52096768 0.00049 [+1]_12 chr10:125532149-12553216 0.00055 8_[+1]_4 chr16:89086927-89086947 0.00068 4_[+1]_8 chr9:124116090-124116110 0.00076 8_[+1]_4 chr11:93451566-93451586 0.00082 4_[+1]_8 chr12:103169962-10316998 0.00082 10_[+1]_2 chr18:67726374-67726394 0.00091 2_[+1]_10 chr11:119311669-11931168 0.00096 9_[+1]_3 chr8:118398777-118398797 0.00096 7_[+1]_5 chr3:28260384-28260404 0.001 [+1]_12 chr6:116380959-116380979 0.001 2_[+1]_10 chr16:28485216-28485236 0.001 6_[+1]_6 chr4:162446429-162446449 0.0012 9_[+1]_3 chr11:102807762-10280778 0.0012 12_[+1] chr11:34270191-34270211 0.0013 5_[+1]_7 chr5:106811035-106811055 0.0013 8_[+1]_4 chr18:43518587-43518607 0.0014 4_[+1]_8 chr18:8601870-8601890 0.0015 9_[+1]_3 chr6:103527916-103527936 0.0016 8_[+1]_4 chr5:124272405-124272425 0.0016 10_[+1]_2 chr3:161029043-161029063 0.0017 7_[+1]_5 chr3:165538839-165538859 0.0017 12_[+1] chr13:53302941-53302961 0.0019 4_[+1]_8 chr10:7526574-7526594 0.0019 3_[+1]_9 chr2:46666931-46666951 0.002 8_[+1]_4 chr2:118807543-118807563 0.0022 9_[+1]_3 chr8:25056584-25056604 0.0022 12_[+1] chr17:75839847-75839867 0.0022 9_[+1]_3 chr1:160608006-160608026 0.0024 8_[+1]_4 chr1:204692388-204692408 0.0026 [+1]_12 chr9:5274969-5274989 0.0027 6_[+1]_6 chr6:36083033-36083053 0.0028 3_[+1]_9 chr3:28368112-28368132 0.003 8_[+1]_4 chr9:99544687-99544707 0.003 6_[+1]_6 chr17:34217897-34217917 0.0034 5_[+1]_7 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TMWCACYT MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TMWCACYT width=8 seqs=67 chr12:22562720-22562740 ( 10) TCACACCT 1 chr2:136810462-136810482 ( 12) TCACACCT 1 chr3:90085082-90085102 ( 9) TCACACCT 1 chr11:75864520-75864540 ( 3) TCACACCT 1 chr1:236324775-236324795 ( 10) TCACACCT 1 chr1:82574706-82574726 ( 4) TCACACCT 1 chrX:7363219-7363239 ( 7) TCACACCT 1 chr6:132819878-132819898 ( 9) TCACACTT 1 chr12:68557399-68557419 ( 8) TCACACTT 1 chr1:114402278-114402298 ( 1) TCACACTT 1 chr3:28276165-28276185 ( 7) TCACACTT 1 chr8:137195029-137195049 ( 10) TCTCACCT 1 chr19:7186611-7186631 ( 1) TCTCACCT 1 chr4:47512683-47512703 ( 9) TAACACCT 1 chr14:76969176-76969196 ( 5) TAACACCT 1 chr1:236327252-236327272 ( 5) CCACACCT 1 chr1:29537337-29537357 ( 6) TAACACTT 1 chr10:125532824-12553284 ( 5) TATCACCT 1 chr17:28500858-28500878 ( 9) TCACACCC 1 chr1:156035203-156035223 ( 3) CCACACTT 1 chr1:26705068-26705088 ( 4) TGACACCT 1 chr10:72053117-72053137 ( 10) TGACACCT 1 chr2:128501412-128501432 ( 1) CCTCACCT 1 chr15:83868186-83868206 ( 12) TATCACTT 1 chr2:71310199-71310219 ( 5) TCACACAT 1 chr18:67563808-67563828 ( 4) TCACACAT 1 chr9:82246101-82246121 ( 7) TCACACTC 1 chrX:13715700-13715720 ( 12) TCACAGTT 1 chr7:8165927-8165947 ( 13) TAGCACCT 1 chr12:70443946-70443966 ( 11) TCTCACCC 1 chr3:23800124-23800144 ( 13) TAGCACCT 1 chr12:46574073-46574093 ( 4) TAACACCC 1 chr6:52096748-52096768 ( 1) TGTCACCT 1 chr10:125532149-12553216 ( 9) CATCACCT 1 chr16:89086927-89086947 ( 5) TAACACAT 1 chr9:124116090-124116110 ( 9) AAACACCT 1 chr11:93451566-93451586 ( 5) TGTCACTT 1 chr12:103169962-10316998 ( 11) TCTCAGTT 1 chr18:67726374-67726394 ( 3) CATCACTT 1 chr11:119311669-11931168 ( 10) TCTCACTG 1 chr8:118398777-118398797 ( 8) TCTCACTG 1 chr3:28260384-28260404 ( 1) TAACACTG 1 chr6:116380959-116380979 ( 3) ACTCACTT 1 chr16:28485216-28485236 ( 7) TACCACTT 1 chr4:162446429-162446449 ( 10) AAACACTT 1 chr11:102807762-10280778 ( 13) AAACACTT 1 chr11:34270191-34270211 ( 6) CCTCAGCT 1 chr5:106811035-106811055 ( 9) CCTCAGCT 1 chr18:43518587-43518607 ( 5) CCCCACTT 1 chr18:8601870-8601890 ( 10) TCACAGAT 1 chr6:103527916-103527936 ( 9) CAACACAT 1 chr5:124272405-124272425 ( 11) TGGCACTT 1 chr3:161029043-161029063 ( 8) CCTCACTC 1 chr3:165538839-165538859 ( 13) CAGCACTT 1 chr13:53302941-53302961 ( 5) ACACACCG 1 chr10:7526574-7526594 ( 4) TAGCAGCT 1 chr2:46666931-46666951 ( 9) TAACAGCC 1 chr2:118807543-118807563 ( 10) TCCCAGTT 1 chr8:25056584-25056604 ( 13) TAGCACCG 1 chr17:75839847-75839867 ( 10) TGCCACTT 1 chr1:160608006-160608026 ( 9) TCTCTCCT 1 chr1:204692388-204692408 ( 1) AAACACCC 1 chr9:5274969-5274989 ( 7) TCTCAGTC 1 chr6:36083033-36083053 ( 4) TGTCAGTT 1 chr3:28368112-28368132 ( 9) AAACACAT 1 chr9:99544687-99544707 ( 7) CCACTCCT 1 chr17:34217897-34217917 ( 6) CCACACAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TMWCACYT MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 5.6238 E= 2.5e-021 -148 -13 -1271 128 24 138 -99 -1271 92 -183 -121 5 -1271 223 -1271 -1271 174 -1271 -1271 -327 -1271 200 -47 -1271 -148 121 -1271 48 -1271 -83 -121 145 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TMWCACYT MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 67 E= 2.5e-021 0.104478 0.194030 0.000000 0.701493 0.343284 0.552239 0.104478 0.000000 0.552239 0.059701 0.089552 0.298507 0.000000 1.000000 0.000000 0.000000 0.970149 0.000000 0.000000 0.029851 0.000000 0.850746 0.149254 0.000000 0.104478 0.492537 0.000000 0.402985 0.000000 0.119403 0.089552 0.791045 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TMWCACYT MEME-1 regular expression -------------------------------------------------------------------------------- T[CA][AT]CAC[CT]T -------------------------------------------------------------------------------- Time 2.91 secs. ******************************************************************************** ******************************************************************************** MOTIF AGGTGTKA MEME-2 width = 8 sites = 27 llr = 219 E-value = 1.2e-013 ******************************************************************************** -------------------------------------------------------------------------------- Motif AGGTGTKA MEME-2 Description -------------------------------------------------------------------------------- Simplified A a1:::1:9 pos.-specific C :::::1:: probability G :7a:a:61 matrix T :1:a:84: bits 2.3 * 2.0 * * 1.8 * * * 1.6 * *** Relative 1.4 * *** * Entropy 1.1 * *** * (11.7 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel AGGTGTGA consensus T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGGTGTKA MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2:151429797-151429817 6 1.30e-05 TGTAA AGGTGTGA CTTTAGT chr8:52546229-52546249 11 1.30e-05 ccattctgac aggtgtga aa chr10:70853209-70853229 7 1.30e-05 AGTACA AGGTGTGA AGACAC chrX:78213344-78213364 12 1.30e-05 TTTAACAGGG AGGTGTGA A chr3:59221464-59221484 8 1.30e-05 AATGAGA AGGTGTGA AACCA chr5:169084324-169084344 4 1.30e-05 AAA AGGTGTGA AAACCACAA chr5:67937286-67937306 6 3.11e-05 tgaat aggtgtta gattttg chr1:242976979-242976999 9 3.11e-05 TTTTTTAA AGGTGtta ggtc chr10:101526239-10152625 9 3.11e-05 TGGTCTAG AGGTGTTA ACTA chr6:4139728-4139748 11 3.11e-05 AGTTGTCAGA AGGTGTTA AC chr2:145276871-145276891 12 3.11e-05 CACAGAAGTG AGGTGTTA C chr11:88534823-88534843 11 5.34e-05 TGGGAGGCAT AGGTGAGA GT chr4:81924884-81924904 7 8.98e-05 GGTTCA AAGTGTGA AAAGCA chr8:134714648-134714668 1 8.98e-05 . atgtgtga actcattaaa chr13:70140435-70140455 7 8.98e-05 actcaa aagtgtga ctaaag chr7:37855730-37855750 11 1.31e-04 gtagtggtta aggtgttg gg chr19:7837766-7837786 7 1.31e-04 aggggg aggtgata ctttga chr12:31875205-31875225 4 1.81e-04 aaa atgtgtta tgtttttgg chr1:67660253-67660273 2 2.08e-04 T AGGTGCTA ATATGGGGTA chr6:106096317-106096337 9 2.08e-04 GGTTTTGA AGGTGTCA AGTT chr3:28293702-28293722 2 2.08e-04 T AGGTGCTA TTGGGAAATG chr7:87762250-87762270 4 2.18e-04 AGG AGGCGTGA ATGAAGTAG chr17:65653104-65653124 3 3.21e-04 CC AAGTGAGA AAATGAGAAA chr2:38412322-38412342 4 3.21e-04 GAG ATGTGTGG GGTGAAGAG chr8:109919715-109919735 2 3.21e-04 g aggtttga ggagagaaaa chr13:113840792-11384081 12 3.21e-04 ACTTGACCAC ATGTGAGA T chr7:46178988-46179008 7 4.80e-04 atgaat aagtgttg aatttt -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGGTGTKA MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2:151429797-151429817 1.3e-05 5_[+2]_7 chr8:52546229-52546249 1.3e-05 10_[+2]_2 chr10:70853209-70853229 1.3e-05 6_[+2]_6 chrX:78213344-78213364 1.3e-05 11_[+2]_1 chr3:59221464-59221484 1.3e-05 7_[+2]_5 chr5:169084324-169084344 1.3e-05 3_[+2]_9 chr5:67937286-67937306 3.1e-05 5_[+2]_7 chr1:242976979-242976999 3.1e-05 8_[+2]_4 chr10:101526239-10152625 3.1e-05 8_[+2]_4 chr6:4139728-4139748 3.1e-05 10_[+2]_2 chr2:145276871-145276891 3.1e-05 11_[+2]_1 chr11:88534823-88534843 5.3e-05 10_[+2]_2 chr4:81924884-81924904 9e-05 6_[+2]_6 chr8:134714648-134714668 9e-05 [+2]_12 chr13:70140435-70140455 9e-05 6_[+2]_6 chr7:37855730-37855750 0.00013 10_[+2]_2 chr19:7837766-7837786 0.00013 6_[+2]_6 chr12:31875205-31875225 0.00018 3_[+2]_9 chr1:67660253-67660273 0.00021 1_[+2]_11 chr6:106096317-106096337 0.00021 8_[+2]_4 chr3:28293702-28293722 0.00021 1_[+2]_11 chr7:87762250-87762270 0.00022 3_[+2]_9 chr17:65653104-65653124 0.00032 2_[+2]_10 chr2:38412322-38412342 0.00032 3_[+2]_9 chr8:109919715-109919735 0.00032 1_[+2]_11 chr13:113840792-11384081 0.00032 11_[+2]_1 chr7:46178988-46179008 0.00048 6_[+2]_6 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGGTGTKA MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF AGGTGTKA width=8 seqs=27 chr2:151429797-151429817 ( 6) AGGTGTGA 1 chr8:52546229-52546249 ( 11) AGGTGTGA 1 chr10:70853209-70853229 ( 7) AGGTGTGA 1 chrX:78213344-78213364 ( 12) AGGTGTGA 1 chr3:59221464-59221484 ( 8) AGGTGTGA 1 chr5:169084324-169084344 ( 4) AGGTGTGA 1 chr5:67937286-67937306 ( 6) AGGTGTTA 1 chr1:242976979-242976999 ( 9) AGGTGTTA 1 chr10:101526239-10152625 ( 9) AGGTGTTA 1 chr6:4139728-4139748 ( 11) AGGTGTTA 1 chr2:145276871-145276891 ( 12) AGGTGTTA 1 chr11:88534823-88534843 ( 11) AGGTGAGA 1 chr4:81924884-81924904 ( 7) AAGTGTGA 1 chr8:134714648-134714668 ( 1) ATGTGTGA 1 chr13:70140435-70140455 ( 7) AAGTGTGA 1 chr7:37855730-37855750 ( 11) AGGTGTTG 1 chr19:7837766-7837786 ( 7) AGGTGATA 1 chr12:31875205-31875225 ( 4) ATGTGTTA 1 chr1:67660253-67660273 ( 2) AGGTGCTA 1 chr6:106096317-106096337 ( 9) AGGTGTCA 1 chr3:28293702-28293722 ( 2) AGGTGCTA 1 chr7:87762250-87762270 ( 4) AGGCGTGA 1 chr17:65653104-65653124 ( 3) AAGTGAGA 1 chr2:38412322-38412342 ( 4) ATGTGTGG 1 chr8:109919715-109919735 ( 2) AGGTTTGA 1 chr13:113840792-11384081 ( 12) ATGTGAGA 1 chr7:46178988-46179008 ( 7) AAGTGTTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGGTGTKA MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 8.10026 E= 1.2e-013 178 -1140 -1140 -1140 -98 -1140 176 -96 -1140 -1140 227 -1140 -1140 -252 -1140 174 -1140 -1140 222 -296 -98 -152 -1140 143 -1140 -252 142 50 161 -1140 -90 -1140 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGGTGTKA MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 27 E= 1.2e-013 1.000000 0.000000 0.000000 0.000000 0.148148 0.000000 0.703704 0.148148 0.000000 0.000000 1.000000 0.000000 0.000000 0.037037 0.000000 0.962963 0.000000 0.000000 0.962963 0.037037 0.148148 0.074074 0.000000 0.777778 0.000000 0.037037 0.555556 0.407407 0.888889 0.000000 0.111111 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGGTGTKA MEME-2 regular expression -------------------------------------------------------------------------------- AGGTGT[GT]A -------------------------------------------------------------------------------- Time 3.88 secs. ******************************************************************************** ******************************************************************************** MOTIF HTGTGGTT MEME-3 width = 8 sites = 20 llr = 155 E-value = 9.6e-003 ******************************************************************************** -------------------------------------------------------------------------------- Motif HTGTGGTT MEME-3 Description -------------------------------------------------------------------------------- Simplified A 33:::::1 pos.-specific C 4::::::1 probability G 119:aa:2 matrix T 372a::a7 bits 2.3 ** 2.0 ** 1.8 **** 1.6 ***** Relative 1.4 ***** Entropy 1.1 ***** (11.1 bits) 0.9 ***** 0.7 ******* 0.5 ******* 0.2 ******** 0.0 -------- Multilevel CTGTGGTT consensus AA G sequence T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif HTGTGGTT MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr6:137553187-137553207 6 1.32e-05 CAGCT CTGTGGTT AGAAGTG chr3:101510844-101510864 3 1.32e-05 ca ctgtggtt ttgatttgca chr12:90154736-90154756 7 1.32e-05 TTTGCA CTGTGGTT TCATGT chr3:23800124-23800144 3 1.32e-05 CT CTGTGGTT TGTAGCACCT chr15:50302049-50302069 8 4.91e-05 caaagca ttgtggtt accag chr13:81052357-81052377 6 4.91e-05 GGTGT TTGTGGTT ATCATGT chr9:126412400-126412420 1 4.91e-05 . ATGTGGTT GACAATATTC chr11:119311669-11931168 2 1.34e-04 g aagtggtt tctcactgtg chr7:37855730-37855750 2 1.34e-04 g tagtggtt aaggtgttgg chr7:100144346-100144366 12 1.34e-04 GGGAAGGGCC TAGTGGTT A chr15:60876997-60877017 2 1.34e-04 C ATGTGGTG AAAAAAAATC chr4:1197540-1197560 12 1.56e-04 gtgtggtctc gtgtggtt t chr1:85764057-85764077 12 2.09e-04 GAAGTGACTG CAGTGGTG G chr5:142376206-142376226 13 2.09e-04 AAACCCTTCT TGGTGGTT chr14:54168095-54168115 11 2.09e-04 TCACTTATGA CTTTGGTT CA chr8:131340713-131340733 10 3.15e-04 ATCTGCCCC CTGTGGTA GGC chr14:25162399-25162419 11 3.42e-04 TGCTTGGGGT TTGTGGTC AG chr2:240226072-240226092 10 4.14e-04 AATGATACC AGGTGGTG GCA chr4:169645557-169645577 4 5.55e-04 TTT AATTGGTT TCTATTACA chr4:84133828-84133848 9 5.55e-04 TATACACG ATTTGGTG CCAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif HTGTGGTT MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr6:137553187-137553207 1.3e-05 5_[+3]_7 chr3:101510844-101510864 1.3e-05 2_[+3]_10 chr12:90154736-90154756 1.3e-05 6_[+3]_6 chr3:23800124-23800144 1.3e-05 2_[+3]_10 chr15:50302049-50302069 4.9e-05 7_[+3]_5 chr13:81052357-81052377 4.9e-05 5_[+3]_7 chr9:126412400-126412420 4.9e-05 [+3]_12 chr11:119311669-11931168 0.00013 1_[+3]_11 chr7:37855730-37855750 0.00013 1_[+3]_11 chr7:100144346-100144366 0.00013 11_[+3]_1 chr15:60876997-60877017 0.00013 1_[+3]_11 chr4:1197540-1197560 0.00016 11_[+3]_1 chr1:85764057-85764077 0.00021 11_[+3]_1 chr5:142376206-142376226 0.00021 12_[+3] chr14:54168095-54168115 0.00021 10_[+3]_2 chr8:131340713-131340733 0.00032 9_[+3]_3 chr14:25162399-25162419 0.00034 10_[+3]_2 chr2:240226072-240226092 0.00041 9_[+3]_3 chr4:169645557-169645577 0.00056 3_[+3]_9 chr4:84133828-84133848 0.00056 8_[+3]_4 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif HTGTGGTT MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF HTGTGGTT width=8 seqs=20 chr6:137553187-137553207 ( 6) CTGTGGTT 1 chr3:101510844-101510864 ( 3) CTGTGGTT 1 chr12:90154736-90154756 ( 7) CTGTGGTT 1 chr3:23800124-23800144 ( 3) CTGTGGTT 1 chr15:50302049-50302069 ( 8) TTGTGGTT 1 chr13:81052357-81052377 ( 6) TTGTGGTT 1 chr9:126412400-126412420 ( 1) ATGTGGTT 1 chr11:119311669-11931168 ( 2) AAGTGGTT 1 chr7:37855730-37855750 ( 2) TAGTGGTT 1 chr7:100144346-100144366 ( 12) TAGTGGTT 1 chr15:60876997-60877017 ( 2) ATGTGGTG 1 chr4:1197540-1197560 ( 12) GTGTGGTT 1 chr1:85764057-85764077 ( 12) CAGTGGTG 1 chr5:142376206-142376226 ( 13) TGGTGGTT 1 chr14:54168095-54168115 ( 11) CTTTGGTT 1 chr8:131340713-131340733 ( 10) CTGTGGTA 1 chr14:25162399-25162419 ( 11) TTGTGGTC 1 chr2:240226072-240226092 ( 10) AGGTGGTG 1 chr4:169645557-169645577 ( 4) AATTGGTT 1 chr4:84133828-84133848 ( 9) ATTTGGTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif HTGTGGTT MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 8.81503 E= 9.6e-003 4 72 -205 6 -22 -1097 -105 117 -1097 -1097 204 -94 -1097 -1097 -1097 179 -1097 -1097 227 -1097 -1097 -1097 227 -1097 -1097 -1097 -1097 179 -254 -209 -5 128 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif HTGTGGTT MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 20 E= 9.6e-003 0.300000 0.350000 0.050000 0.300000 0.250000 0.000000 0.100000 0.650000 0.000000 0.000000 0.850000 0.150000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.050000 0.050000 0.200000 0.700000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif HTGTGGTT MEME-3 regular expression -------------------------------------------------------------------------------- [CAT][TA]GTGGT[TG] -------------------------------------------------------------------------------- Time 4.61 secs. ******************************************************************************** ******************************************************************************** MOTIF GGAGGGAG MEME-4 width = 8 sites = 4 llr = 41 E-value = 5.5e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGAGGGAG MEME-4 Description -------------------------------------------------------------------------------- Simplified A ::a::38: pos.-specific C 3::::::: probability G 8a:aa83a matrix T :::::::: bits 2.3 * ** * 2.0 * ** * 1.8 **** * 1.6 **** * Relative 1.4 ****** * Entropy 1.1 ******** (14.7 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GGAGGGAG consensus C AG sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGAGGGAG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr10:6534316-6534336 2 6.66e-06 A GGAGGGAG CAGTTCCTGC chr4:102448517-102448537 4 1.14e-05 aaa ggaggggg taggggaaa chr19:53195189-53195209 10 1.83e-05 gcttcatcc cgagggag ggg chr1:176147008-176147028 12 2.76e-05 TAAGTAAAAA GGAGGAAG G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGAGGGAG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr10:6534316-6534336 6.7e-06 1_[+4]_11 chr4:102448517-102448537 1.1e-05 3_[+4]_9 chr19:53195189-53195209 1.8e-05 9_[+4]_3 chr1:176147008-176147028 2.8e-05 11_[+4]_1 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGAGGGAG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGAGGGAG width=8 seqs=4 chr10:6534316-6534336 ( 2) GGAGGGAG 1 chr4:102448517-102448537 ( 4) GGAGGGGG 1 chr19:53195189-53195209 ( 10) CGAGGGAG 1 chr1:176147008-176147028 ( 12) GGAGGAAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGAGGGAG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 9.66445 E= 5.5e+003 -865 23 185 -865 -865 -865 227 -865 178 -865 -865 -865 -865 -865 227 -865 -865 -865 227 -865 -22 -865 185 -865 136 -865 27 -865 -865 -865 227 -865 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGAGGGAG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 4 E= 5.5e+003 0.000000 0.250000 0.750000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.250000 0.000000 0.750000 0.000000 0.750000 0.000000 0.250000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGAGGGAG MEME-4 regular expression -------------------------------------------------------------------------------- [GC]GAGG[GA][AG]G -------------------------------------------------------------------------------- Time 5.53 secs. ******************************************************************************** ******************************************************************************** MOTIF CGGGGSAG MEME-5 width = 8 sites = 2 llr = 23 E-value = 2.7e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif CGGGGSAG MEME-5 Description -------------------------------------------------------------------------------- Simplified A ::::::a: pos.-specific C a::::5:: probability G :aaaa5:a matrix T :::::::: bits 2.3 ***** * 2.0 ***** * 1.8 ***** ** 1.6 ***** ** Relative 1.4 ******** Entropy 1.1 ******** (16.6 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CGGGGCAG consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGGGSAG MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr6:116380959-116380979 13 9.89e-06 ACTCACTTAG CGGGGGAG chr7:38272848-38272868 2 9.89e-06 T CGGGGCAG CCCAGCTTGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGGGSAG MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr6:116380959-116380979 9.9e-06 12_[+5] chr7:38272848-38272868 9.9e-06 1_[+5]_11 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGGGSAG MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CGGGGSAG width=8 seqs=2 chr6:116380959-116380979 ( 13) CGGGGGAG 1 chr7:38272848-38272868 ( 2) CGGGGCAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGGGSAG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 3250 bayes= 10.6653 E= 2.7e+003 -765 223 -765 -765 -765 -765 226 -765 -765 -765 226 -765 -765 -765 226 -765 -765 -765 226 -765 -765 123 127 -765 177 -765 -765 -765 -765 -765 226 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGGGSAG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 2.7e+003 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 0.000000 0.000000 1.000000 0.000000 0.000000 0.500000 0.500000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGGGSAG MEME-5 regular expression -------------------------------------------------------------------------------- CGGGG[CG]AG -------------------------------------------------------------------------------- Time 6.27 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr9:80445755-80445775 8.39e-01 20 chr14:25162399-25162419 7.04e-02 20 chr10:125532149-12553216 8.03e-02 20 chr12:75339897-75339917 9.57e-01 20 chr9:99544687-99544707 7.45e-01 20 chr1:176147008-176147028 1.15e-02 11_[+4(2.76e-05)]_1 chr17:75839847-75839867 7.14e-04 20 chr3:23800124-23800144 6.52e-04 2_[+3(1.32e-05)]_10 chr12:94638102-94638122 5.60e-01 20 chr4:39765897-39765917 8.70e-01 20 chr19:17175966-17175986 2.92e-01 20 chr5:169084324-169084344 7.85e-03 3_[+2(1.30e-05)]_9 chr8:70676630-70676650 7.32e-01 20 chr5:71530253-71530273 9.92e-01 20 chr3:69058455-69058475 2.30e-01 20 chr1:29537337-29537357 9.26e-02 20 chr12:90154736-90154756 6.42e-03 6_[+3(1.32e-05)]_6 chr17:9950241-9950261 2.07e-01 20 chr5:88306524-88306544 9.24e-01 20 chr2:13898652-13898672 8.00e-01 20 chr4:103311797-103311817 1.40e-01 20 chrX:87679213-87679233 2.18e-01 20 chr14:97859796-97859816 5.51e-01 20 chr11:88534823-88534843 1.35e-03 10_[+2(5.34e-05)]_2 chr16:28485216-28485236 3.37e-01 20 chr2:145276871-145276891 5.55e-04 11_[+2(3.11e-05)]_1 chr5:106811035-106811055 4.96e-01 20 chr4:47013042-47013062 5.86e-01 20 chr1:156035203-156035223 4.72e-02 20 chr3:28368112-28368132 5.53e-01 20 chr15:60876997-60877017 2.37e-02 20 chr7:87762250-87762270 1.01e-02 20 chr11:22763856-22763876 9.86e-01 20 chr8:128888502-128888522 7.99e-01 20 chr18:67726374-67726394 3.52e-01 20 chr8:131340713-131340733 6.10e-03 20 chr6:102293689-102293709 7.55e-01 20 chrX:7363219-7363239 6.97e-02 6_[+1(1.46e-05)]_6 chr8:118398777-118398797 4.04e-01 20 chr1:82574706-82574726 5.94e-02 3_[+1(1.46e-05)]_9 chr12:103169962-10316998 4.55e-01 20 chr3:175134592-175134612 9.95e-01 20 chr2:76673181-76673201 3.21e-01 20 chr3:31503865-31503885 6.91e-01 20 chr3:28276165-28276185 3.37e-02 6_[+1(3.43e-05)]_6 chr13:113840792-11384081 4.57e-02 20 chr3:15358034-15358054 8.56e-01 20 chr1:160608006-160608026 7.17e-01 20 chr3:165538839-165538859 5.83e-01 20 chr18:11078704-11078724 6.11e-01 20 chr1:33264794-33264814 4.36e-01 20 chr3:59221464-59221484 4.93e-03 7_[+2(1.30e-05)]_5 chr13:42385897-42385917 6.09e-01 20 chr1:150159352-150159372 3.89e-01 20 chr17:34217897-34217917 4.32e-01 20 chrX:78213344-78213364 8.18e-05 11_[+2(1.30e-05)]_1 chr7:38272848-38272868 2.85e-03 1_[+5(9.89e-06)]_11 chr14:54168095-54168115 1.24e-01 20 chr9:102574119-102574139 8.58e-01 20 chr5:142376206-142376226 5.01e-02 20 chr7:37955343-37955363 7.62e-01 20 chr6:52096748-52096768 3.13e-01 20 chr10:7526574-7526594 3.70e-01 20 chr10:70853209-70853229 8.63e-03 6_[+2(1.30e-05)]_6 chr6:4139728-4139748 5.48e-03 10_[+2(3.11e-05)]_2 chr7:100144346-100144366 1.14e-02 20 chr1:205685601-205685621 6.16e-01 20 chr7:70110957-70110977 8.88e-01 20 chr16:28152433-28152453 8.55e-01 20 chr14:59279196-59279216 2.30e-01 20 chr1:114402278-114402298 4.19e-02 [+1(3.43e-05)]_12 chr13:70140435-70140455 5.68e-02 6_[+2(8.98e-05)]_6 chr5:143073518-143073538 9.98e-01 20 chr10:101526239-10152625 4.43e-03 8_[+2(3.11e-05)]_4 chr1:236324775-236324795 6.58e-02 9_[+1(1.46e-05)]_3 chr19:14420970-14420990 9.97e-01 20 chr9:5274969-5274989 2.64e-01 20 chr9:126412400-126412420 2.92e-02 [+3(4.91e-05)]_12 chr5:127242734-127242754 9.18e-01 20 chr8:42997617-42997637 8.08e-01 20 chr20:34482044-34482064 1.29e-01 20 chr11:75864520-75864540 6.56e-02 2_[+1(1.46e-05)]_10 chr18:49242840-49242860 3.83e-01 20 chr13:113423316-11342333 5.42e-02 20 chr5:142585606-142585626 8.56e-01 20 chr3:90085082-90085102 5.91e-02 8_[+1(1.46e-05)]_4 chr3:47267290-47267310 7.72e-01 20 chr17:55776375-55776395 3.26e-01 20 chr8:48510818-48510838 7.05e-01 20 chr2:191380615-191380635 9.97e-01 20 chr6:116988254-116988274 9.83e-01 20 chr1:198136688-198136708 2.82e-01 20 chr18:20887024-20887044 7.11e-01 20 chr2:128501412-128501432 4.30e-02 20 chr5:124272405-124272425 2.45e-02 20 chr8:25056584-25056604 3.01e-01 20 chr22:22121534-22121554 2.20e-01 20 chr16:28158044-28158064 9.10e-01 20 chr20:10328320-10328340 1.77e-02 20 chr11:86197927-86197947 4.22e-01 20 chr2:240226072-240226092 1.40e-03 20 chr3:28293702-28293722 3.03e-02 20 chr1:93029208-93029228 7.75e-01 20 chr4:111218223-111218243 9.73e-01 20 chr10:91127422-91127442 3.73e-01 20 chr1:242976979-242976999 6.69e-03 8_[+2(3.11e-05)]_4 chr16:89086927-89086947 1.21e-01 20 chr12:111943460-11194348 5.75e-01 20 chr13:99156770-99156790 9.42e-01 20 chr2:224806564-224806584 9.58e-01 20 chr18:67563808-67563828 1.88e-01 20 chr10:125532824-12553284 9.56e-02 20 chr4:102448517-102448537 2.49e-04 3_[+4(1.14e-05)]_9 chr1:88616170-88616190 9.55e-01 20 chr4:84133828-84133848 8.39e-02 20 chr11:35088872-35088892 8.55e-01 20 chr2:136810462-136810482 5.85e-02 11_[+1(1.46e-05)]_1 chrX:44150912-44150932 6.52e-01 20 chr21:34302170-34302190 6.21e-01 20 chr12:121597421-12159744 4.96e-01 20 chr11:93451566-93451586 3.88e-01 20 chr14:76969176-76969196 1.46e-01 4_[+1(6.87e-05)]_8 chr14:76969376-76969396 8.78e-01 20 chr8:52546229-52546249 1.55e-03 10_[+2(1.30e-05)]_2 chr12:70443946-70443966 3.02e-01 20 chr11:65199058-65199078 9.43e-01 20 chr10:6534316-6534336 6.53e-04 1_[+4(6.66e-06)]_11 chr19:7186611-7186631 1.40e-01 [+1(4.88e-05)]_12 chr6:116380959-116380979 2.09e-05 12_[+5(9.89e-06)] chr6:64247565-64247585 7.83e-01 20 chr9:109726805-109726825 1.47e-01 20 chr7:46178988-46179008 5.32e-02 20 chr1:236327252-236327272 1.84e-01 4_[+1(7.94e-05)]_8 chr7:124759749-124759769 9.69e-01 20 chr10:72053117-72053137 1.92e-01 20 chr6:30293701-30293721 8.86e-01 20 chr1:175276513-175276533 7.39e-01 20 chr7:8165927-8165947 5.88e-02 20 chr16:13150709-13150729 6.61e-02 20 chr9:109743099-109743119 5.53e-01 20 chr2:24566255-24566275 8.69e-01 20 chr6:36083033-36083053 1.08e-01 20 chr11:87926608-87926628 5.28e-01 20 chr12:22562720-22562740 1.71e-02 9_[+1(1.46e-05)]_3 chr19:55062750-55062770 3.37e-01 20 chr19:7757496-7757516 8.44e-01 20 chr12:31875205-31875225 6.97e-02 20 chr2:46666931-46666951 5.19e-01 20 chr15:75423450-75423470 8.33e-01 20 chr22:45714866-45714886 7.81e-01 20 chr18:67565143-67565163 9.86e-01 20 chr6:106096317-106096337 5.32e-02 20 chr3:14730941-14730961 7.17e-01 20 chr2:191914811-191914831 9.92e-01 20 chr1:178345326-178345346 9.34e-01 20 chr7:117228515-117228535 1.85e-01 20 chr12:46574073-46574093 3.05e-01 20 chr14:62564771-62564791 8.61e-02 20 chr2:71310199-71310219 3.35e-01 20 chr1:67740537-67740557 4.47e-01 20 chr10:127409719-12740973 5.70e-01 20 chr1:168379836-168379856 9.93e-01 20 chrX:13715700-13715720 3.04e-01 20 chr12:68553631-68553651 9.73e-01 20 chr5:67937286-67937306 4.79e-03 5_[+2(3.11e-05)]_7 chr14:31597104-31597124 6.98e-01 20 chr8:134714648-134714668 7.21e-02 [+2(8.98e-05)]_12 chr18:47658138-47658158 5.61e-01 20 chr5:150226763-150226783 3.00e-01 20 chr18:43518587-43518607 4.93e-01 20 chr3:60442103-60442123 3.16e-01 20 chr19:7837766-7837786 1.94e-05 20 chr16:21656909-21656929 4.95e-01 20 chr15:59775004-59775024 9.79e-02 20 chr15:83868186-83868206 2.78e-01 20 chr1:85764057-85764077 1.12e-02 20 chr9:124116090-124116110 2.70e-01 20 chr14:53615535-53615555 7.04e-01 20 chr1:68284520-68284540 4.64e-01 20 chr3:88191384-88191404 6.57e-01 20 chr13:81052357-81052377 6.13e-02 5_[+3(4.91e-05)]_7 chr15:50302049-50302069 3.26e-02 7_[+3(4.91e-05)]_5 chr9:82246101-82246121 3.19e-01 20 chr2:191560638-191560658 7.51e-01 20 chr6:144675283-144675303 9.94e-01 20 chr16:89092687-89092707 7.83e-01 20 chr4:81924884-81924904 6.32e-02 6_[+2(8.98e-05)]_6 chr12:104821483-10482150 6.04e-01 20 chr4:169645557-169645577 3.89e-01 20 chr3:101510844-101510864 1.51e-02 2_[+3(1.32e-05)]_10 chr17:34430940-34430960 9.95e-01 20 chr8:42623506-42623526 6.29e-01 20 chr7:37855730-37855750 6.59e-04 20 chr11:119311669-11931168 4.30e-03 20 chr6:85120933-85120953 9.82e-01 20 chr5:16067737-16067757 5.66e-01 20 chr11:34270191-34270211 4.90e-01 20 chr14:25423400-25423420 9.34e-01 20 chr17:49341947-49341967 6.75e-01 20 chr2:118807543-118807563 2.91e-01 20 chr1:67660253-67660273 6.63e-04 20 chr3:36918104-36918124 8.83e-01 20 chr1:92179327-92179347 9.67e-01 20 chr7:114556705-114556725 3.87e-01 20 chr8:109919715-109919735 1.26e-02 20 chrX:31247264-31247284 2.33e-01 20 chr12:68557399-68557419 9.21e-04 7_[+1(3.43e-05)]_5 chr9:1087684-1087704 3.23e-01 20 chr6:152023188-152023208 6.11e-01 20 chr6:15023800-15023820 9.99e-01 20 chr3:28260384-28260404 1.03e-01 20 chr4:47512683-47512703 3.12e-02 8_[+1(6.87e-05)]_4 chr16:78783829-78783849 5.55e-01 20 chr17:28500858-28500878 1.20e-02 20 chr2:151429797-151429817 4.41e-03 5_[+2(1.30e-05)]_7 chr7:158616917-158616937 9.54e-01 20 chr7:69289468-69289488 2.72e-02 20 chr3:161029043-161029063 1.02e-01 20 chr4:1197540-1197560 6.11e-02 20 chr6:132819878-132819898 5.04e-02 8_[+1(3.43e-05)]_4 chr6:5507456-5507476 4.38e-01 20 chr8:137195029-137195049 1.13e-01 9_[+1(4.88e-05)]_3 chr1:204692388-204692408 4.59e-01 20 chr7:156711917-156711937 1.00e+00 20 chr2:155393721-155393741 9.29e-02 20 chr21:34757287-34757307 5.27e-01 20 chr4:139888651-139888671 1.00e+00 20 chr6:137553187-137553207 1.69e-03 5_[+3(1.32e-05)]_7 chr13:53302941-53302961 1.26e-02 20 chr4:25877073-25877093 5.23e-01 20 chr4:114743863-114743883 3.34e-01 20 chr10:98620783-98620803 2.94e-01 20 chr15:85408560-85408580 9.63e-01 20 chr5:60498297-60498317 3.53e-03 20 chr1:26705068-26705088 2.05e-01 20 chr11:102807762-10280778 1.09e-01 20 chr7:72011702-72011722 8.75e-01 20 chr2:38412322-38412342 3.88e-03 20 chr4:162446429-162446449 4.22e-01 20 chr15:92401229-92401249 2.56e-01 20 chr19:39042216-39042236 1.03e-01 20 chr6:103527916-103527936 5.98e-01 20 chr3:43249476-43249496 5.49e-01 20 chr18:8601870-8601890 1.35e-01 20 chr12:47706732-47706752 8.14e-02 20 chr2:167583800-167583820 4.50e-01 20 chr19:53195189-53195209 8.94e-04 9_[+4(1.83e-05)]_3 chr9:99003779-99003799 7.69e-01 20 chr17:65653104-65653124 3.11e-02 20 chr7:101948909-101948929 2.65e-01 20 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c22n04.farnam.hpc.yale.internal ********************************************************************************