******************************************************************************** MEME - Motif discovery tool ******************************************************************************** MEME version 4.12.0 (Release date: Tue Jun 27 16:22:50 2017 -0700) For further information on how to interpret these results or to get a copy of the MEME software please access http://meme-suite.org . This file may be used as input to the MAST algorithm for searching sequence databases for matches to groups of motifs. MAST is available for interactive use and downloading at http://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 ******************************************************************************** DATAFILE= /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_Lamp5_reproduciblePeaks_enhancerShort.MemeChipResults/seqs-sampled ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr1:97628445-97628545 1.0000 100 chr17:8468667-8468767 1.0000 100 chr6:112621334-112621434 1.0000 100 chr14:76310251-76310351 1.0000 100 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chr12:109750862-10975096 1.0000 100 chr5:41250446-41250546 1.0000 100 chr5:44693605-44693705 1.0000 100 chr13:105815855-10581595 1.0000 100 chr9:29750239-29750339 1.0000 100 chr10:39587966-39588066 1.0000 100 chr4:104551335-104551435 1.0000 100 chr17:67205851-67205951 1.0000 100 chr4:70220465-70220565 1.0000 100 chr17:57799441-57799541 1.0000 100 chr12:52394272-52394372 1.0000 100 chr4:75973182-75973282 1.0000 100 chr1:170406990-170407090 1.0000 100 chr17:68157626-68157726 1.0000 100 chr5:66771022-66771122 1.0000 100 chr1:151721323-151721423 1.0000 100 chr1:169103556-169103656 1.0000 100 chr13:52100168-52100268 1.0000 100 chr16:6313608-6313708 1.0000 100 chr15:69346026-69346126 1.0000 100 chr1:149274885-149274985 1.0000 100 chr18:63887807-63887907 1.0000 100 chr11:31760036-31760136 1.0000 100 chr4:46904226-46904326 1.0000 100 chr16:39021427-39021527 1.0000 100 chr7:73618304-73618404 1.0000 100 chr5:31955078-31955178 1.0000 100 chr18:25677972-25678072 1.0000 100 chr12:99838678-99838778 1.0000 100 chr5:16183849-16183949 1.0000 100 chr18:24054870-24054970 1.0000 100 chr18:54188649-54188749 1.0000 100 chr5:111024704-111024804 1.0000 100 chr4:69195522-69195622 1.0000 100 chr12:8470820-8470920 1.0000 100 chr1:166181438-166181538 1.0000 100 chr18:31339836-31339936 1.0000 100 chr15:62476405-62476505 1.0000 100 chr4:23862428-23862528 1.0000 100 chr7:124220309-124220409 1.0000 100 chr4:104023878-104023978 1.0000 100 chr9:34526707-34526807 1.0000 100 chr11:113910197-11391029 1.0000 100 chrX:105670596-105670696 1.0000 100 chr12:16347136-16347236 1.0000 100 chr19:21581312-21581412 1.0000 100 chr8:88820010-88820110 1.0000 100 chr4:98322152-98322252 1.0000 100 chr1:42781404-42781504 1.0000 100 chr16:83606684-83606784 1.0000 100 chr9:70232210-70232310 1.0000 100 chr13:11219128-11219228 1.0000 100 chr13:45709457-45709557 1.0000 100 chr18:49423948-49424048 1.0000 100 chr17:80921080-80921180 1.0000 100 chr4:40113091-40113191 1.0000 100 chr15:50053433-50053533 1.0000 100 chr1:121716445-121716545 1.0000 100 chr18:84018666-84018766 1.0000 100 chr15:23867768-23867868 1.0000 100 chr13:15130296-15130396 1.0000 100 chr13:48545704-48545804 1.0000 100 chr10:112900386-11290048 1.0000 100 chr15:27726151-27726251 1.0000 100 chr1:152220807-152220907 1.0000 100 chr13:49036571-49036671 1.0000 100 chr5:130491336-130491436 1.0000 100 chr2:72855452-72855552 1.0000 100 chr12:39655999-39656099 1.0000 100 chr5:146867215-146867315 1.0000 100 chr11:81598355-81598455 1.0000 100 chr5:38388437-38388537 1.0000 100 chr5:22156259-22156359 1.0000 100 chr18:56377810-56377910 1.0000 100 chr16:92134275-92134375 1.0000 100 chr6:98840613-98840713 1.0000 100 chr15:34630617-34630717 1.0000 100 chr6:102600736-102600836 1.0000 100 chr16:13517441-13517541 1.0000 100 chr11:110377225-11037732 1.0000 100 chr11:32998861-32998961 1.0000 100 chr11:81064734-81064834 1.0000 100 chr3:38051595-38051695 1.0000 100 ******************************************************************************** ******************************************************************************** COMMAND LINE SUMMARY ******************************************************************************** This information can also be useful in the event you wish to report a problem with the MEME software. command: meme /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_Lamp5_reproduciblePeaks_enhancerShort.MemeChipResults/seqs-sampled -oc /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_Lamp5_reproduciblePeaks_enhancerShort.MemeChipResults/meme_out -mod zoops -nmotifs 10 -minw 6 -maxw 30 -bfile /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_Lamp5_reproduciblePeaks_enhancerShort.MemeChipResults/background -dna -psp /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_Lamp5_reproduciblePeaks_enhancerShort.MemeChipResults/psp -revcomp -nostatus model: mod= zoops nmotifs= 10 evt= inf object function= E-value of product of p-values width: minw= 6 maxw= 30 width: wg= 11 ws= 1 endgaps= yes nsites: minsites= 2 maxsites= 600 wnsites= 0.8 theta: spmap= uni spfuzz= 0.5 global: substring= yes branching= no wbranch= no em: prior= dirichlet b= 0.01 maxiter= 50 distance= 1e-05 data: n= 60000 N= 600 shuffle= -1 strands: + - sample: seed= 0 ctfrac= -1 maxwords= -1 Letter frequencies in dataset: A 0.267 C 0.233 G 0.233 T 0.267 Background letter frequencies (from /projects/pfenninggroup/machineLearningForComputationalBiology/regElEvoGrant/MouseDNase/M1ScAtacSeqNEMO/BICCN_mouse_NEMO_snATAC-Seq_Lamp5_reproduciblePeaks_enhancerShort.MemeChipResults/background): A 0.277 C 0.223 G 0.223 T 0.277 ******************************************************************************** ******************************************************************************** MOTIF GCCASYAGRKGGCRS MEME-1 width = 15 sites = 44 llr = 539 E-value = 4.3e-033 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCCASYAGRKGGCRS MEME-1 Description -------------------------------------------------------------------------------- Simplified A 1::7::7:4::::5: pos.-specific C 2991652:1:1:a14 probability G 6:124:1a5699:55 matrix T 1::::4:::4:1::1 bits 2.2 * 1.9 * * 1.7 * * *** 1.5 ** * *** Relative 1.3 ** * *** Entropy 1.1 ** * * **** (17.7 bits) 0.9 ** * ** **** 0.6 ************** 0.4 *************** 0.2 *************** 0.0 --------------- Multilevel GCCACCAGGGGGCAG consensus C GT AT GC sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCCASYAGRKGGCRS MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- --------------- chr7:73618304-73618404 - 9 8.39e-10 GCCGCGTCCG GCCACCAGGGGGCAG CCGCGCGT chr3:8594653-8594753 + 35 8.39e-10 ATCCCTCTGA GCCACCAGGGGGCAG TGTTTAATCA chr7:96913936-96914036 - 58 3.29e-09 GCGAGAGGTG GCCACCAGGTGGCGC TATGAGTGTG chr5:27615758-27615858 - 52 4.65e-09 GACTAAGGCA GCCACCAGGTGGCAG CATTTTTACC chr17:8468667-8468767 + 22 4.65e-09 TTCGGAAGAA GCCACCAGAGGGCGC CTCAGGATGC chr16:94713639-94713739 - 75 8.45e-09 CCGCAGCATG CCCACCAGGGGGCGC TGTGGCCGCC chr10:111100019-11110011 - 31 1.33e-08 CCCCATCCTG GCCAGCAGGTGGCAC TAGAGCAGCT chr16:55469035-55469135 - 48 2.94e-08 TTGGGTGAAG GCCAGCAGATGGCAG TGTGTGGTAA chr1:72123596-72123696 - 47 2.94e-08 TCGGAGGACG GCCAGCAGATGGCAG CAGAGACTCA chr11:100295242-10029534 - 54 4.45e-08 TGCTCCGTCT GCCGGCAGGGGGCAC TACTGCCTTT chr15:102742529-10274262 - 30 6.89e-08 GATCCAAACG GCCACCGGAGGGCGG CAGAGAACAG chr12:58947206-58947306 - 15 9.04e-08 GCACCTTTAC TCCACCAGGGGGCAG TAGCTACCAC chr7:112865695-112865795 - 37 1.03e-07 GGACCCCAGC GCCAGCAGGGGGCGT GCACCCACCC chr2:133380952-133381052 + 52 1.03e-07 GCCATTTCCT CCCAGCAGATGGCAG TATTCAATTT chr3:107357089-107357189 + 40 1.34e-07 CTGCCTAGCG ACCAGCAGAGGGCAG AAAAGACCCG chr13:91636766-91636866 - 51 1.54e-07 GGAACGTCCT ACCACTAGGTGGCAG TGCTCAGCCT chr15:50261414-50261514 - 75 1.95e-07 TTCAGTCATT CCCAGTAGATGGCGC CAGAGAGAAG chr17:21534383-21534483 - 25 2.42e-07 AACTTCTTTC ACCACTAGATGGCGG ACATGTCATT chr13:43864494-43864594 + 72 2.74e-07 GCCGCCGCCG GCCACAAGGTGGCAG TGCCGTGCTG chr16:50528699-50528799 + 28 3.77e-07 GGAAGTGGCC GCCCGCGGGGGGCGG CTCCTGGTGC chr14:25565686-25565786 - 28 4.66e-07 GCCGTTGGCG GCCAGCAGAGGTCGC CCCACTGCCA chr15:67434279-67434379 - 14 4.66e-07 TTTCACAAGG TCCAGTAGGTGGCGC AAGAGAGCAG chr2:137942712-137942812 - 32 7.00e-07 CCAGAATTTA GCCAGCAGAGGGCGA CAGTTGATAA chr4:98322152-98322252 + 73 9.47e-07 GCGGAGCCAA GCCAGCGGGGCGCAG CGCAACGCCT chr11:28610677-28610777 + 67 9.47e-07 GTTCTGCTTC TCCAGTAGATGGCAG CCTATTACAA chr16:35056239-35056339 + 83 1.04e-06 TCCCACAGTT GTCACTAGAGGGCAC CGT chr6:55717204-55717304 + 15 1.04e-06 TTCTGTTCTG GCCACTAGggggcct cgttggtttg chr14:55271124-55271224 + 10 1.14e-06 TCAAAACCT CACAGCAGGGGGCAC TATAGACCAC chr18:56377810-56377910 + 47 1.51e-06 GATTCCTTCA GCCACTAGATGGTGC CAGGACCTCA chr4:15328419-15328519 + 82 1.65e-06 ACCAATAATG ACCACTGGATGGCAG GATG chr3:51741797-51741897 - 23 2.13e-06 AGCCGGAGCT GCCCGCAGTGGGCGC TAGCCTTTCT chr8:79734275-79734375 + 19 2.53e-06 TGCTTGAATG CCCACTAGATGTCAC TGTTGGCTTT chr11:43263785-43263885 - 48 2.75e-06 CTCCTTCTAT CCGGCTAGGTGGCAG CAGAAGGCTT chr10:121506430-12150653 + 66 3.23e-06 ATCCTTTCTG GCCCCTCGGTGGCCG GATGACTAGG chr5:151368440-151368540 - 5 3.50e-06 CTAGCGTGTT CCCGCGCGGGGGCGG AGCT chr12:45171909-45172009 - 32 4.12e-06 GCTCCCTTGT ACCACACGGTGGCGC TGTTGGAGAT chr4:77558768-77558868 - 46 4.45e-06 TGAACGTGTG ACCACTAGAGGGTAC TGTGGGACCT chr5:44284350-44284450 + 35 6.51e-06 ACCAAGTGCC GCGTCTAGGTGGCGC CAGAACCCTT chr5:116822002-116822102 - 79 8.06e-06 GGAAGGG GACGGTGGGGGGCGG AGTGGGGGGG chr11:114165637-11416573 - 19 1.58e-05 TGCAGCCTGC GCCGCCAGCGGTCCC AGATAAAGAA chr5:110978950-110979050 + 9 1.68e-05 GCCCCGCT CCGGCCCGGGCGCGC CTCTGGCCGC chr9:61031899-61031999 + 72 1.79e-05 cagacccccc cccccccgcgcgcgc tcctcctccc chr10:122008791-12200889 - 58 3.43e-05 CACGGCTTGT GTGCGTCGGGGGCGG CAGCCGACAC chr12:99838678-99838778 + 1 5.98e-04 . cgcgcgcgcgcgcAT ACAAATGTAT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCCASYAGRKGGCRS MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr7:73618304-73618404 8.4e-10 8_[-1]_77 chr3:8594653-8594753 8.4e-10 34_[+1]_51 chr7:96913936-96914036 3.3e-09 57_[-1]_28 chr5:27615758-27615858 4.6e-09 51_[-1]_34 chr17:8468667-8468767 4.6e-09 21_[+1]_64 chr16:94713639-94713739 8.4e-09 74_[-1]_11 chr10:111100019-11110011 1.3e-08 30_[-1]_55 chr16:55469035-55469135 2.9e-08 47_[-1]_38 chr1:72123596-72123696 2.9e-08 46_[-1]_39 chr11:100295242-10029534 4.4e-08 53_[-1]_32 chr15:102742529-10274262 6.9e-08 29_[-1]_56 chr12:58947206-58947306 9e-08 14_[-1]_71 chr7:112865695-112865795 1e-07 36_[-1]_49 chr2:133380952-133381052 1e-07 51_[+1]_34 chr3:107357089-107357189 1.3e-07 39_[+1]_46 chr13:91636766-91636866 1.5e-07 50_[-1]_35 chr15:50261414-50261514 1.9e-07 74_[-1]_11 chr17:21534383-21534483 2.4e-07 24_[-1]_61 chr13:43864494-43864594 2.7e-07 71_[+1]_14 chr16:50528699-50528799 3.8e-07 27_[+1]_58 chr14:25565686-25565786 4.7e-07 27_[-1]_58 chr15:67434279-67434379 4.7e-07 13_[-1]_72 chr2:137942712-137942812 7e-07 31_[-1]_54 chr4:98322152-98322252 9.5e-07 72_[+1]_13 chr11:28610677-28610777 9.5e-07 66_[+1]_19 chr16:35056239-35056339 1e-06 82_[+1]_3 chr6:55717204-55717304 1e-06 14_[+1]_71 chr14:55271124-55271224 1.1e-06 9_[+1]_76 chr18:56377810-56377910 1.5e-06 46_[+1]_39 chr4:15328419-15328519 1.6e-06 81_[+1]_4 chr3:51741797-51741897 2.1e-06 22_[-1]_63 chr8:79734275-79734375 2.5e-06 18_[+1]_67 chr11:43263785-43263885 2.8e-06 47_[-1]_38 chr10:121506430-12150653 3.2e-06 65_[+1]_20 chr5:151368440-151368540 3.5e-06 4_[-1]_81 chr12:45171909-45172009 4.1e-06 31_[-1]_54 chr4:77558768-77558868 4.5e-06 45_[-1]_40 chr5:44284350-44284450 6.5e-06 34_[+1]_51 chr5:116822002-116822102 8.1e-06 78_[-1]_7 chr11:114165637-11416573 1.6e-05 18_[-1]_67 chr5:110978950-110979050 1.7e-05 8_[+1]_77 chr9:61031899-61031999 1.8e-05 71_[+1]_14 chr10:122008791-12200889 3.4e-05 57_[-1]_28 chr12:99838678-99838778 0.0006 [+1]_85 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCCASYAGRKGGCRS MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCCASYAGRKGGCRS width=15 seqs=44 chr7:73618304-73618404 ( 9) GCCACCAGGGGGCAG 1 chr3:8594653-8594753 ( 35) GCCACCAGGGGGCAG 1 chr7:96913936-96914036 ( 58) GCCACCAGGTGGCGC 1 chr5:27615758-27615858 ( 52) GCCACCAGGTGGCAG 1 chr17:8468667-8468767 ( 22) GCCACCAGAGGGCGC 1 chr16:94713639-94713739 ( 75) CCCACCAGGGGGCGC 1 chr10:111100019-11110011 ( 31) GCCAGCAGGTGGCAC 1 chr16:55469035-55469135 ( 48) GCCAGCAGATGGCAG 1 chr1:72123596-72123696 ( 47) GCCAGCAGATGGCAG 1 chr11:100295242-10029534 ( 54) GCCGGCAGGGGGCAC 1 chr15:102742529-10274262 ( 30) GCCACCGGAGGGCGG 1 chr12:58947206-58947306 ( 15) TCCACCAGGGGGCAG 1 chr7:112865695-112865795 ( 37) GCCAGCAGGGGGCGT 1 chr2:133380952-133381052 ( 52) CCCAGCAGATGGCAG 1 chr3:107357089-107357189 ( 40) ACCAGCAGAGGGCAG 1 chr13:91636766-91636866 ( 51) ACCACTAGGTGGCAG 1 chr15:50261414-50261514 ( 75) CCCAGTAGATGGCGC 1 chr17:21534383-21534483 ( 25) ACCACTAGATGGCGG 1 chr13:43864494-43864594 ( 72) GCCACAAGGTGGCAG 1 chr16:50528699-50528799 ( 28) GCCCGCGGGGGGCGG 1 chr14:25565686-25565786 ( 28) GCCAGCAGAGGTCGC 1 chr15:67434279-67434379 ( 14) TCCAGTAGGTGGCGC 1 chr2:137942712-137942812 ( 32) GCCAGCAGAGGGCGA 1 chr4:98322152-98322252 ( 73) GCCAGCGGGGCGCAG 1 chr11:28610677-28610777 ( 67) TCCAGTAGATGGCAG 1 chr16:35056239-35056339 ( 83) GTCACTAGAGGGCAC 1 chr6:55717204-55717304 ( 15) GCCACTAGGGGGCCT 1 chr14:55271124-55271224 ( 10) CACAGCAGGGGGCAC 1 chr18:56377810-56377910 ( 47) GCCACTAGATGGTGC 1 chr4:15328419-15328519 ( 82) ACCACTGGATGGCAG 1 chr3:51741797-51741897 ( 23) GCCCGCAGTGGGCGC 1 chr8:79734275-79734375 ( 19) CCCACTAGATGTCAC 1 chr11:43263785-43263885 ( 48) CCGGCTAGGTGGCAG 1 chr10:121506430-12150653 ( 66) GCCCCTCGGTGGCCG 1 chr5:151368440-151368540 ( 5) CCCGCGCGGGGGCGG 1 chr12:45171909-45172009 ( 32) ACCACACGGTGGCGC 1 chr4:77558768-77558868 ( 46) ACCACTAGAGGGTAC 1 chr5:44284350-44284450 ( 35) GCGTCTAGGTGGCGC 1 chr5:116822002-116822102 ( 79) GACGGTGGGGGGCGG 1 chr11:114165637-11416573 ( 19) GCCGCCAGCGGTCCC 1 chr5:110978950-110979050 ( 9) CCGGCCCGGGCGCGC 1 chr9:61031899-61031999 ( 72) CCCCCCCGCGCGCGC 1 chr10:122008791-12200889 ( 58) GTGCGTCGGGGGCGG 1 chr12:99838678-99838778 ( 1) CGCGCGCGCGCGCAT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCCASYAGRKGGCRS MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 51600 bayes= 11.7287 E= 4.3e-033 -102 3 135 -202 -261 199 -329 -261 -1210 203 -129 -1210 135 -97 -49 -360 -1210 141 87 -1210 -261 129 -229 39 139 -49 -97 -1210 -1210 -1210 216 -1210 39 -171 129 -360 -1210 -1210 135 64 -1210 -129 203 -1210 -1210 -1210 206 -202 -1210 210 -1210 -261 79 -171 103 -1210 -360 95 110 -202 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCCASYAGRKGGCRS MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 44 E= 4.3e-033 0.136364 0.227273 0.568182 0.068182 0.045455 0.886364 0.022727 0.045455 0.000000 0.909091 0.090909 0.000000 0.704545 0.113636 0.159091 0.022727 0.000000 0.590909 0.409091 0.000000 0.045455 0.545455 0.045455 0.363636 0.727273 0.159091 0.113636 0.000000 0.000000 0.000000 1.000000 0.000000 0.363636 0.068182 0.545455 0.022727 0.000000 0.000000 0.568182 0.431818 0.000000 0.090909 0.909091 0.000000 0.000000 0.000000 0.931818 0.068182 0.000000 0.954545 0.000000 0.045455 0.477273 0.068182 0.454545 0.000000 0.022727 0.431818 0.477273 0.068182 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCCASYAGRKGGCRS MEME-1 regular expression -------------------------------------------------------------------------------- [GC]CCA[CG][CT]AG[GA][GT]GGC[AG][GC] -------------------------------------------------------------------------------- Time 536.09 secs. ******************************************************************************** ******************************************************************************** MOTIF GWGTGTRTGTGTRTGTGTGTGTGKGNGYG MEME-2 width = 29 sites = 16 llr = 317 E-value = 1.1e-017 ******************************************************************************** -------------------------------------------------------------------------------- Motif GWGTGTRTGTGTRTGTGTGTGTGKGNGYG MEME-2 Description -------------------------------------------------------------------------------- Simplified A :62:1132:3::331112::::::121:1 pos.-specific C 1:::1211::321:211231:1112214: probability G 9:838:5:9:7:61718:817393548:8 matrix T :4:8:81717:8:6:716:837:623:61 bits 2.2 1.9 1.7 * 1.5 * * * * Relative 1.3 * * * * ** * * * * Entropy 1.1 * *** * ** * *** * *** (28.6 bits) 0.9 ****** **** * * ****** *** 0.6 ****** ***************** *** 0.4 ****** ***************** *** 0.2 ************************* *** 0.0 ----------------------------- Multilevel GAGTGTGTGTGTGTGTGTGTGTGTGGGTG consensus T G A AC AA C TG G T C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GWGTGTRTGTGTRTGTGTGTGTGKGNGYG MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- ----------------------------- chr1:132837187-132837287 + 71 3.69e-17 TTCATCTCCt gtgtgtgtgtgtgtgtgtgtgtgtgtgtg t chr18:63950133-63950233 + 38 3.69e-17 GCACACATGA gtgtgtgtgtgtgtgtgtgtgtgtgtgtg tgtgtgtgtg chr2:158721847-158721947 + 10 3.90e-16 TTAGTATTt gtgtgtgtgtgtatgtgtgtgtgtgtgtg tgtgtgtgtg chr5:66771022-66771122 + 65 6.27e-14 tatgtgttgt gagtgtatgtgtgagtgtgtgtgtatgtg tgtatga chr4:35823444-35823544 + 70 6.48e-11 CTAGTGCATA GTatgcgtgtgtatatgtgtgtgtgcacg tg chr9:61013174-61013274 + 65 7.17e-11 TAGCCCGGGC CAGGGTGTGAGTGACTGCCTGGGTGGGCG GGTCCAT chr19:33075432-33075532 - 24 8.78e-11 GGACATGTGC GAGTATGTGTGTATGTATCTGTGTCCGTG TCTGTATGTA chr6:98840613-98840713 - 67 1.91e-10 GCACA GAGTGTATGTCTCTGTCTCTTTGTGGATG TACTTGCTCA chr14:86749839-86749939 + 52 3.09e-09 CACATAGACT GAGTGCAAGTGCGTCAGTGTGGCGTGGTG TAGTTCTCAC chr13:111394327-11139442 - 21 8.42e-09 GGGAGGCAGT GAGTGAGCGAGCGGGCGAGCGGGTGAGCG AGAAGGCAAG chr1:53909123-53909223 + 54 1.10e-08 TATGGAAACC GTATGTCTGTCTATGTTTGTTTCTCGGTA CAGATTTTGC chr3:52685769-52685869 - 10 1.63e-08 ATCACCACTC CAGGGTGTGACTCAGGGAGTGTGGAAGCT CTGGGCTCA chr3:58122726-58122826 - 12 1.97e-08 TCCTTCTGAA GAGGGTTAGTCTGGATGTCTTTGGTACTG CTTGGAAATG chr16:92134275-92134375 + 32 2.84e-08 CTTGTCTGCT GAGGCTCCGTCTGAGGGAGGTGGGCGGTG GGTGAAGCAG chr1:121798462-121798562 + 70 3.81e-08 TAGAGTTTGA GTGTCTTTGAGCATgcgcgcgcgcgcgcg cg chr5:63757158-63757258 + 64 4.28e-08 tcttgctagc gtatgcaatagtgtctgcgtttggtggct gattatgg -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GWGTGTRTGTGTRTGTGTGTGTGKGNGYG MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:132837187-132837287 3.7e-17 70_[+2]_1 chr18:63950133-63950233 3.7e-17 37_[+2]_34 chr2:158721847-158721947 3.9e-16 9_[+2]_62 chr5:66771022-66771122 6.3e-14 64_[+2]_7 chr4:35823444-35823544 6.5e-11 69_[+2]_2 chr9:61013174-61013274 7.2e-11 64_[+2]_7 chr19:33075432-33075532 8.8e-11 23_[-2]_48 chr6:98840613-98840713 1.9e-10 66_[-2]_5 chr14:86749839-86749939 3.1e-09 51_[+2]_20 chr13:111394327-11139442 8.4e-09 20_[-2]_51 chr1:53909123-53909223 1.1e-08 53_[+2]_18 chr3:52685769-52685869 1.6e-08 9_[-2]_62 chr3:58122726-58122826 2e-08 11_[-2]_60 chr16:92134275-92134375 2.8e-08 31_[+2]_40 chr1:121798462-121798562 3.8e-08 69_[+2]_2 chr5:63757158-63757258 4.3e-08 63_[+2]_8 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GWGTGTRTGTGTRTGTGTGTGTGKGNGYG MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GWGTGTRTGTGTRTGTGTGTGTGKGNGYG width=29 seqs=16 chr1:132837187-132837287 ( 71) GTGTGTGTGTGTGTGTGTGTGTGTGTGTG 1 chr18:63950133-63950233 ( 38) GTGTGTGTGTGTGTGTGTGTGTGTGTGTG 1 chr2:158721847-158721947 ( 10) GTGTGTGTGTGTATGTGTGTGTGTGTGTG 1 chr5:66771022-66771122 ( 65) GAGTGTATGTGTGAGTGTGTGTGTATGTG 1 chr4:35823444-35823544 ( 70) GTATGCGTGTGTATATGTGTGTGTGCACG 1 chr9:61013174-61013274 ( 65) CAGGGTGTGAGTGACTGCCTGGGTGGGCG 1 chr19:33075432-33075532 ( 24) GAGTATGTGTGTATGTATCTGTGTCCGTG 1 chr6:98840613-98840713 ( 67) GAGTGTATGTCTCTGTCTCTTTGTGGATG 1 chr14:86749839-86749939 ( 52) GAGTGCAAGTGCGTCAGTGTGGCGTGGTG 1 chr13:111394327-11139442 ( 21) GAGTGAGCGAGCGGGCGAGCGGGTGAGCG 1 chr1:53909123-53909223 ( 54) GTATGTCTGTCTATGTTTGTTTCTCGGTA 1 chr3:52685769-52685869 ( 10) CAGGGTGTGACTCAGGGAGTGTGGAAGCT 1 chr3:58122726-58122826 ( 12) GAGGGTTAGTCTGGATGTCTTTGGTACTG 1 chr16:92134275-92134375 ( 32) GAGGCTCCGTCTGAGGGAGGTGGGCGGTG 1 chr1:121798462-121798562 ( 70) GTGTCTTTGAGCATGCGCGCGCGCGCGCG 1 chr5:63757158-63757258 ( 64) GTATGCAATAGTGTCTGCGTTTGGTGGCT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GWGTGTRTGTGTRTGTGTGTGTGKGNGYG MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 29 n= 43200 bayes= 13.1355 E= 1.1e-017 -1064 -84 197 -1064 102 -1064 -1064 66 -56 -1064 186 -1064 -1064 -1064 16 144 -214 -84 186 -1064 -214 -25 -1064 144 -15 -84 116 -115 -56 -84 -1064 131 -1064 -1064 207 -214 17 -1064 -1064 131 -1064 49 162 -1064 -1064 -25 -1064 155 17 -84 133 -1064 -15 -1064 -84 117 -115 -25 162 -1064 -214 -84 -84 131 -214 -183 186 -214 -56 -25 -1064 117 -1064 16 175 -1064 -1064 -84 -183 155 -1064 -1064 162 17 -1064 -183 16 131 -1064 -84 197 -1064 -1064 -183 49 117 -115 -25 116 -56 -56 -25 75 -15 -115 -183 186 -1064 -1064 75 -1064 117 -214 -1064 186 -115 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GWGTGTRTGTGTRTGTGTGTGTGKGNGYG MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 29 nsites= 16 E= 1.1e-017 0.000000 0.125000 0.875000 0.000000 0.562500 0.000000 0.000000 0.437500 0.187500 0.000000 0.812500 0.000000 0.000000 0.000000 0.250000 0.750000 0.062500 0.125000 0.812500 0.000000 0.062500 0.187500 0.000000 0.750000 0.250000 0.125000 0.500000 0.125000 0.187500 0.125000 0.000000 0.687500 0.000000 0.000000 0.937500 0.062500 0.312500 0.000000 0.000000 0.687500 0.000000 0.312500 0.687500 0.000000 0.000000 0.187500 0.000000 0.812500 0.312500 0.125000 0.562500 0.000000 0.250000 0.000000 0.125000 0.625000 0.125000 0.187500 0.687500 0.000000 0.062500 0.125000 0.125000 0.687500 0.062500 0.062500 0.812500 0.062500 0.187500 0.187500 0.000000 0.625000 0.000000 0.250000 0.750000 0.000000 0.000000 0.125000 0.062500 0.812500 0.000000 0.000000 0.687500 0.312500 0.000000 0.062500 0.250000 0.687500 0.000000 0.125000 0.875000 0.000000 0.000000 0.062500 0.312500 0.625000 0.125000 0.187500 0.500000 0.187500 0.187500 0.187500 0.375000 0.250000 0.125000 0.062500 0.812500 0.000000 0.000000 0.375000 0.000000 0.625000 0.062500 0.000000 0.812500 0.125000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GWGTGTRTGTGTRTGTGTGTGTGKGNGYG MEME-2 regular expression -------------------------------------------------------------------------------- G[AT]G[TG]GT[GA]TG[TA][GC]T[GA][TA]GTGT[GC]T[GT][TG]G[TG]G[GT]G[TC]G -------------------------------------------------------------------------------- Time 1022.00 secs. ******************************************************************************** ******************************************************************************** MOTIF GCSVSCKGSGRGGARSGSVGSGVSSSC MEME-3 width = 27 sites = 3 llr = 86 E-value = 2.2e+006 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCSVSCKGSGRGGARSGSVGSGVSSSC MEME-3 Description -------------------------------------------------------------------------------- Simplified A :::3::::::3::a7:::3:::3:::: pos.-specific C :a333a::3::::::3:33:3:3333a probability G a:737:3a7a7aa:37a73a7a3777: matrix T ::::::7:::::::::::::::::::: bits 2.2 ** * * * ** * * * * 1.9 ** * * * *** * * * * 1.7 ** * * * *** * * * * 1.5 ** * * * *** * * * * Relative 1.3 *** ** *** *** *** *** **** Entropy 1.1 *** ************** *** **** (41.5 bits) 0.9 *** ************** *** **** 0.6 *** ************** *** **** 0.4 *************************** 0.2 *************************** 0.0 --------------------------- Multilevel GCGAGCTGGGGGGAAGGGAGGGAGGGC consensus CCC G C A GC CC C CCCC sequence G G G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCSVSCKGSGRGGARSGSVGSGVSSSC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- --------------------------- chr8:83875341-83875441 + 70 6.95e-16 GAGCAGGAGA GCGGGCGGGGGGGAAGGGGGGGAGGGC TGGT chr9:63856245-63856345 + 71 7.46e-14 TTATCCCCCA GCCAGCTGGGGGGAGGGGCGGGCGCCC ACA chr16:94713639-94713739 + 44 5.09e-13 CCAGGGAGCC GCGCCCTGCGAGGAACGCAGCGGCGGC CACAGCGCCC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCSVSCKGSGRGGARSGSVGSGVSSSC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr8:83875341-83875441 6.9e-16 69_[+3]_4 chr9:63856245-63856345 7.5e-14 70_[+3]_3 chr16:94713639-94713739 5.1e-13 43_[+3]_30 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCSVSCKGSGRGGARSGSVGSGVSSSC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCSVSCKGSGRGGARSGSVGSGVSSSC width=27 seqs=3 chr8:83875341-83875441 ( 70) GCGGGCGGGGGGGAAGGGGGGGAGGGC 1 chr9:63856245-63856345 ( 71) GCCAGCTGGGGGGAGGGGCGGGCGCCC 1 chr16:94713639-94713739 ( 44) GCGCCCTGCGAGGAACGCAGCGGCGGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCSVSCKGSGRGGARSGSVGSGVSSSC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 27 n= 44400 bayes= 11.6937 E= 2.2e+006 -823 -823 216 -823 -823 216 -823 -823 -823 58 158 -823 27 58 58 -823 -823 58 158 -823 -823 216 -823 -823 -823 -823 58 126 -823 -823 216 -823 -823 58 158 -823 -823 -823 216 -823 27 -823 158 -823 -823 -823 216 -823 -823 -823 216 -823 185 -823 -823 -823 126 -823 58 -823 -823 58 158 -823 -823 -823 216 -823 -823 58 158 -823 27 58 58 -823 -823 -823 216 -823 -823 58 158 -823 -823 -823 216 -823 27 58 58 -823 -823 58 158 -823 -823 58 158 -823 -823 58 158 -823 -823 216 -823 -823 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCSVSCKGSGRGGARSGSVGSGVSSSC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 27 nsites= 3 E= 2.2e+006 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.333333 0.666667 0.000000 0.333333 0.333333 0.333333 0.000000 0.000000 0.333333 0.666667 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.333333 0.666667 0.000000 0.000000 1.000000 0.000000 0.000000 0.333333 0.666667 0.000000 0.000000 0.000000 1.000000 0.000000 0.333333 0.000000 0.666667 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.666667 0.000000 0.333333 0.000000 0.000000 0.333333 0.666667 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.333333 0.666667 0.000000 0.333333 0.333333 0.333333 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.333333 0.666667 0.000000 0.000000 0.000000 1.000000 0.000000 0.333333 0.333333 0.333333 0.000000 0.000000 0.333333 0.666667 0.000000 0.000000 0.333333 0.666667 0.000000 0.000000 0.333333 0.666667 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCSVSCKGSGRGGARSGSVGSGVSSSC MEME-3 regular expression -------------------------------------------------------------------------------- GC[GC][ACG][GC]C[TG]G[GC]G[GA]GGA[AG][GC]G[GC][ACG]G[GC]G[ACG][GC][GC][GC]C -------------------------------------------------------------------------------- Time 1495.25 secs. ******************************************************************************** ******************************************************************************** MOTIF CTGGCCGCSGSGACG MEME-4 width = 15 sites = 2 llr = 41 E-value = 4.4e+006 ******************************************************************************** -------------------------------------------------------------------------------- Motif CTGGCCGCSGSGACG MEME-4 Description -------------------------------------------------------------------------------- Simplified A ::::::::::::a:: pos.-specific C a:::aa:a5:5::a: probability G ::aa::a:5a5a::a matrix T :a::::::::::::: bits 2.2 * ****** * * ** 1.9 ******** * **** 1.7 ******** * **** 1.5 ******** * **** Relative 1.3 ******** * **** Entropy 1.1 *************** (29.8 bits) 0.9 *************** 0.6 *************** 0.4 *************** 0.2 *************** 0.0 --------------- Multilevel CTGGCCGCCGCGACG consensus G G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGGCCGCSGSGACG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- --------------- chr2:23234295-23234395 - 35 1.04e-09 GGAGGCGGCG CTGGCCGCGGCGACG ACTCCCGACC chr5:110978950-110979050 + 26 1.04e-09 GGGCGCGCCT CTGGCCGCCGGGACG TCCTAGCCCC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGGCCGCSGSGACG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2:23234295-23234395 1e-09 34_[-4]_51 chr5:110978950-110979050 1e-09 25_[+4]_60 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGGCCGCSGSGACG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CTGGCCGCSGSGACG width=15 seqs=2 chr2:23234295-23234395 ( 35) CTGGCCGCGGCGACG 1 chr5:110978950-110979050 ( 26) CTGGCCGCCGGGACG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGGCCGCSGSGACG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 15 n= 51600 bayes= 13.807 E= 4.4e+006 -765 216 -765 -765 -765 -765 -765 185 -765 -765 216 -765 -765 -765 216 -765 -765 216 -765 -765 -765 216 -765 -765 -765 -765 216 -765 -765 216 -765 -765 -765 116 116 -765 -765 -765 216 -765 -765 116 116 -765 -765 -765 216 -765 185 -765 -765 -765 -765 216 -765 -765 -765 -765 216 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGGCCGCSGSGACG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 15 nsites= 2 E= 4.4e+006 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 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 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.500000 0.500000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.500000 0.500000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTGGCCGCSGSGACG MEME-4 regular expression -------------------------------------------------------------------------------- CTGGCCGC[CG]G[CG]GACG -------------------------------------------------------------------------------- Time 1964.17 secs. ******************************************************************************** ******************************************************************************** MOTIF CGGCAGCCYGG MEME-5 width = 11 sites = 2 llr = 31 E-value = 1.7e+007 ******************************************************************************** -------------------------------------------------------------------------------- Motif CGGCAGCCYGG MEME-5 Description -------------------------------------------------------------------------------- Simplified A ::::a:::::: pos.-specific C a::a::aa5:: probability G :aa::a:::aa matrix T ::::::::5:: bits 2.2 **** *** ** 1.9 ******** ** 1.7 ******** ** 1.5 ******** ** Relative 1.3 ******** ** Entropy 1.1 *********** (22.3 bits) 0.9 *********** 0.6 *********** 0.4 *********** 0.2 *********** 0.0 ----------- Multilevel CGGCAGCCCGG consensus T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGCAGCCYGG MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- ----------- chr15:27788065-27788165 + 27 8.42e-08 GCCCCGACAG CGGCAGCCCGG GGCCTGGAGT chr6:86584928-86585028 - 12 1.89e-07 AAGGGAGCCC CGGCAGCCTGG CCGGGAGGAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGCAGCCYGG MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr15:27788065-27788165 8.4e-08 26_[+5]_63 chr6:86584928-86585028 1.9e-07 11_[-5]_78 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGCAGCCYGG MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CGGCAGCCYGG width=11 seqs=2 chr15:27788065-27788165 ( 27) CGGCAGCCCGG 1 chr6:86584928-86585028 ( 12) CGGCAGCCTGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGCAGCCYGG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 11 n= 54000 bayes= 11.0195 E= 1.7e+007 -765 216 -765 -765 -765 -765 216 -765 -765 -765 216 -765 -765 216 -765 -765 185 -765 -765 -765 -765 -765 216 -765 -765 216 -765 -765 -765 216 -765 -765 -765 116 -765 85 -765 -765 216 -765 -765 -765 216 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGCAGCCYGG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 11 nsites= 2 E= 1.7e+007 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 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.500000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGCAGCCYGG MEME-5 regular expression -------------------------------------------------------------------------------- CGGCAGCC[CT]GG -------------------------------------------------------------------------------- Time 2434.22 secs. ******************************************************************************** ******************************************************************************** MOTIF CSCTGYGCCGCGTC MEME-6 width = 14 sites = 2 llr = 38 E-value = 1.2e+007 ******************************************************************************** -------------------------------------------------------------------------------- Motif CSCTGYGCCGCGTC MEME-6 Description -------------------------------------------------------------------------------- Simplified A :::::::::::::: pos.-specific C a5a::5:aa:a::a probability G :5::a:a::a:a:: matrix T :::a:5::::::a: bits 2.2 * * * ****** * 1.9 * *** ******** 1.7 * *** ******** 1.5 * *** ******** Relative 1.3 * *** ******** Entropy 1.1 ************** (27.5 bits) 0.9 ************** 0.6 ************** 0.4 ************** 0.2 ************** 0.0 -------------- Multilevel CCCTGCGCCGCGTC consensus G T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CSCTGYGCCGCGTC MEME-6 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- -------------- chr7:73618304-73618404 - 26 2.32e-09 AGGCGTGGCC CGCTGCGCCGCGTC CGGCCACCAG chr2:21287817-21287917 + 58 5.20e-09 TTGTCTCCGG CCCTGTGCCGCGTC TCTGCATCTT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CSCTGYGCCGCGTC MEME-6 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr7:73618304-73618404 2.3e-09 25_[-6]_61 chr2:21287817-21287917 5.2e-09 57_[+6]_29 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CSCTGYGCCGCGTC MEME-6 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CSCTGYGCCGCGTC width=14 seqs=2 chr7:73618304-73618404 ( 26) CGCTGCGCCGCGTC 1 chr2:21287817-21287917 ( 58) CCCTGTGCCGCGTC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CSCTGYGCCGCGTC MEME-6 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 14 n= 52200 bayes= 14.6717 E= 1.2e+007 -765 216 -765 -765 -765 116 116 -765 -765 216 -765 -765 -765 -765 -765 185 -765 -765 216 -765 -765 116 -765 85 -765 -765 216 -765 -765 216 -765 -765 -765 216 -765 -765 -765 -765 216 -765 -765 216 -765 -765 -765 -765 216 -765 -765 -765 -765 185 -765 216 -765 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CSCTGYGCCGCGTC MEME-6 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 14 nsites= 2 E= 1.2e+007 0.000000 1.000000 0.000000 0.000000 0.000000 0.500000 0.500000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.500000 0.000000 0.500000 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 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CSCTGYGCCGCGTC MEME-6 regular expression -------------------------------------------------------------------------------- C[CG]CTG[CT]GCCGCGTC -------------------------------------------------------------------------------- Time 2904.55 secs. ******************************************************************************** ******************************************************************************** MOTIF GCAATACCACTCCTGGGCATATACCCAGA MEME-7 width = 29 sites = 2 llr = 81 E-value = 2.9e+005 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCAATACCACTCCTGGGCATATACCCAGA MEME-7 Description -------------------------------------------------------------------------------- Simplified A ::aa:a::a:::::::::a:a:a:::a:a pos.-specific C :a::::aa:a:aa::::a:::::aaa::: probability G a:::::::::::::aaa::::::::::a: matrix T ::::a:::::a::a:::::a:a::::::: bits 2.2 ** ** * ** **** *** * 1.9 ***************************** 1.7 ***************************** 1.5 ***************************** Relative 1.3 ***************************** Entropy 1.1 ***************************** (58.4 bits) 0.9 ***************************** 0.6 ***************************** 0.4 ***************************** 0.2 ***************************** 0.0 ----------------------------- Multilevel GCAATACCACTCCTGGGCATATACCCAGA consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAATACCACTCCTGGGCATATACCCAGA MEME-7 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- ----------------------------- chr9:107174776-107174876 + 55 2.63e-18 aaaagatgta gcaataccactcctgggcatatacccaga aaatattcca chr14:114318111-11431821 - 7 2.63e-18 AGAAGATCCA GCAATACCACTCCTGGGCATATACCCAGA AGATGT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAATACCACTCCTGGGCATATACCCAGA MEME-7 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr9:107174776-107174876 2.6e-18 54_[+7]_17 chr14:114318111-11431821 2.6e-18 6_[-7]_65 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAATACCACTCCTGGGCATATACCCAGA MEME-7 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCAATACCACTCCTGGGCATATACCCAGA width=29 seqs=2 chr9:107174776-107174876 ( 55) GCAATACCACTCCTGGGCATATACCCAGA 1 chr14:114318111-11431821 ( 7) GCAATACCACTCCTGGGCATATACCCAGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAATACCACTCCTGGGCATATACCCAGA MEME-7 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 29 n= 43200 bayes= 13.5506 E= 2.9e+005 -765 -765 216 -765 -765 216 -765 -765 185 -765 -765 -765 185 -765 -765 -765 -765 -765 -765 185 185 -765 -765 -765 -765 216 -765 -765 -765 216 -765 -765 185 -765 -765 -765 -765 216 -765 -765 -765 -765 -765 185 -765 216 -765 -765 -765 216 -765 -765 -765 -765 -765 185 -765 -765 216 -765 -765 -765 216 -765 -765 -765 216 -765 -765 216 -765 -765 185 -765 -765 -765 -765 -765 -765 185 185 -765 -765 -765 -765 -765 -765 185 185 -765 -765 -765 -765 216 -765 -765 -765 216 -765 -765 -765 216 -765 -765 185 -765 -765 -765 -765 -765 216 -765 185 -765 -765 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAATACCACTCCTGGGCATATACCCAGA MEME-7 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 29 nsites= 2 E= 2.9e+005 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCAATACCACTCCTGGGCATATACCCAGA MEME-7 regular expression -------------------------------------------------------------------------------- GCAATACCACTCCTGGGCATATACCCAGA -------------------------------------------------------------------------------- Time 3376.00 secs. ******************************************************************************** ******************************************************************************** MOTIF CCCCGGCTCSC MEME-8 width = 11 sites = 2 llr = 31 E-value = 1.0e+007 ******************************************************************************** -------------------------------------------------------------------------------- Motif CCCCGGCTCSC MEME-8 Description -------------------------------------------------------------------------------- Simplified A ::::::::::: pos.-specific C aaaa::a:a5a probability G ::::aa:::5: matrix T :::::::a::: bits 2.2 ******* * * 1.9 ********* * 1.7 ********* * 1.5 ********* * Relative 1.3 ********* * Entropy 1.1 *********** (22.5 bits) 0.9 *********** 0.6 *********** 0.4 *********** 0.2 *********** 0.0 ----------- Multilevel CCCCGGCTCCC consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCCGGCTCSC MEME-8 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- ----------- chr2:72855452-72855552 + 80 1.68e-07 AATATGACAG CCCCGGCTCCC TTCCAAGATC chr13:52100168-52100268 - 28 1.68e-07 TGTATGCATT CCCCGGCTCGC GCTTCTGCTA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCCGGCTCSC MEME-8 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2:72855452-72855552 1.7e-07 79_[+8]_10 chr13:52100168-52100268 1.7e-07 27_[-8]_62 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCCGGCTCSC MEME-8 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CCCCGGCTCSC width=11 seqs=2 chr2:72855452-72855552 ( 80) CCCCGGCTCCC 1 chr13:52100168-52100268 ( 28) CCCCGGCTCGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCCGGCTCSC MEME-8 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 11 n= 54000 bayes= 10.03 E= 1.0e+007 -765 216 -765 -765 -765 216 -765 -765 -765 216 -765 -765 -765 216 -765 -765 -765 -765 216 -765 -765 -765 216 -765 -765 216 -765 -765 -765 -765 -765 185 -765 216 -765 -765 -765 116 116 -765 -765 216 -765 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCCGGCTCSC MEME-8 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 11 nsites= 2 E= 1.0e+007 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.500000 0.500000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CCCCGGCTCSC MEME-8 regular expression -------------------------------------------------------------------------------- CCCCGGCTC[CG]C -------------------------------------------------------------------------------- Time 3845.99 secs. ******************************************************************************** ******************************************************************************** MOTIF GSCTCGCGCCG MEME-9 width = 11 sites = 2 llr = 31 E-value = 1.0e+007 ******************************************************************************** -------------------------------------------------------------------------------- Motif GSCTCGCGCCG MEME-9 Description -------------------------------------------------------------------------------- Simplified A ::::::::::: pos.-specific C :5a:a:a:aa: probability G a5:::a:a::a matrix T :::a::::::: bits 2.2 * * ******* 1.9 * ********* 1.7 * ********* 1.5 * ********* Relative 1.3 * ********* Entropy 1.1 *********** (22.5 bits) 0.9 *********** 0.6 *********** 0.4 *********** 0.2 *********** 0.0 ----------- Multilevel GCCTCGCGCCG consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSCTCGCGCCG MEME-9 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- ----------- chr13:48545704-48545804 - 61 1.68e-07 CCCGCCCTCT GGCTCGCGCCG GTTGGTCGGG chr7:73618304-73618404 - 73 1.68e-07 GTGTGGACGT GCCTCGCGCCG CGCAGCAAAT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSCTCGCGCCG MEME-9 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr13:48545704-48545804 1.7e-07 60_[-9]_29 chr7:73618304-73618404 1.7e-07 72_[-9]_17 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSCTCGCGCCG MEME-9 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GSCTCGCGCCG width=11 seqs=2 chr13:48545704-48545804 ( 61) GGCTCGCGCCG 1 chr7:73618304-73618404 ( 73) GCCTCGCGCCG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSCTCGCGCCG MEME-9 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 11 n= 54000 bayes= 10.03 E= 1.0e+007 -765 -765 216 -765 -765 116 116 -765 -765 216 -765 -765 -765 -765 -765 185 -765 216 -765 -765 -765 -765 216 -765 -765 216 -765 -765 -765 -765 216 -765 -765 216 -765 -765 -765 216 -765 -765 -765 -765 216 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSCTCGCGCCG MEME-9 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 11 nsites= 2 E= 1.0e+007 0.000000 0.000000 1.000000 0.000000 0.000000 0.500000 0.500000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSCTCGCGCCG MEME-9 regular expression -------------------------------------------------------------------------------- G[CG]CTCGCGCCG -------------------------------------------------------------------------------- Time 4311.38 secs. ******************************************************************************** ******************************************************************************** MOTIF GSGGGBGSAGG MEME-10 width = 11 sites = 23 llr = 252 E-value = 2.0e+005 ******************************************************************************** -------------------------------------------------------------------------------- Motif GSGGGBGSAGG MEME-10 Description -------------------------------------------------------------------------------- Simplified A ::2::1::8:: pos.-specific C :41::4:4::: probability G a57aa2a52a9 matrix T :::::3:1::1 bits 2.2 * * * 1.9 * ** * * 1.7 * ** * * 1.5 * ** * ** Relative 1.3 * ** * *** Entropy 1.1 * ** * *** (15.8 bits) 0.9 ***** ***** 0.6 ***** ***** 0.4 ***** ***** 0.2 *********** 0.0 ----------- Multilevel GGGGGCGGAGG consensus CA T C sequence G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSGGGBGSAGG MEME-10 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- ----------- chr5:146878018-146878118 + 22 8.42e-08 TATTAATATA GGGGGCGGAGG TGGGTGGCAA chr4:69195522-69195622 - 39 4.42e-07 TAGCTCTAAT GGGGGTGGAGG TTGTCCTTGG chr1:152656508-152656608 - 53 7.35e-07 CGTGCAAGCA GGGGGTGCAGG AAAGAAGACA chr3:35342033-35342133 - 48 1.01e-06 GAGAGAGAGA GGGGGGGCAGG AGAGAGACAG chr5:116822002-116822102 - 62 1.01e-06 GCGGAGTGGG GGGGGGGCAGG CACTGCAGCT chr16:92134275-92134375 + 5 2.12e-06 GCTG GCAGGCGCAGG GCGACTCTTG chr1:152220807-152220907 - 8 2.12e-06 AAGGATGCCG GCAGGCGCAGG AGACACC chr11:114703963-11470406 + 15 2.12e-06 AGAGACAACT GCAGGCGCAGG GAAGCTTTCT chr2:23234295-23234395 - 88 2.12e-06 AG GCCGGCGGAGG CGGAGGCGCC chr4:45765021-45765121 + 88 2.35e-06 GTTGCGGGGT GGGGGTGGGGG GA chr12:74283932-74284032 + 38 3.37e-06 AGTTGCTTCG GGCGGTGGAGG GGCGTCATCG chr10:17331527-17331627 + 2 3.56e-06 T GCAGGGGGAGG TGGCAGGAGA chr16:12197573-12197673 + 85 4.26e-06 CATCAGAGCA GCAGGTGCAGG CGTCC chr4:119138159-119138259 + 67 5.20e-06 TCTGCTGTGC GGGGGCGGAGT TAGTGACGTC chr9:45598040-45598140 - 61 6.11e-06 TGAGCCCAGA GCGGGGGTAGG TTCTGATGTC chr3:88204659-88204759 - 65 6.68e-06 TGATCATTTT GGGGGTGGAGT TGCCAGGCCT chr4:98322152-98322252 + 59 7.77e-06 ATCGGACCCG GCGGGCGGAGC CAAGCCAGCG chr6:31232864-31232964 + 38 7.77e-06 AAGGCAGCCC GGGGGAGGGGG GGGGGTGTTG chr7:73618304-73618404 - 52 9.20e-06 CGCAGCAAAT GGCGGAGGAGG CAAGGCGTGG chr4:106827843-106827943 - 18 1.23e-05 ACCCGGCCCA GCGGGCGTGGG CGCCGCGGCA chr11:108136236-10813633 - 34 1.45e-05 GCCAACAATT CGGGGTGCAGG TTGGAGCTGA chr1:97628445-97628545 - 34 1.66e-05 GAAGCTCATG GAGGGCGGGGG AAGCTTGATG chr16:25029453-25029553 + 68 1.81e-05 GAATATCTAT GCGGCGGCAGG ATAGGTGGGG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSGGGBGSAGG MEME-10 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr5:146878018-146878118 8.4e-08 21_[+10]_68 chr4:69195522-69195622 4.4e-07 38_[-10]_51 chr1:152656508-152656608 7.4e-07 52_[-10]_37 chr3:35342033-35342133 1e-06 47_[-10]_42 chr5:116822002-116822102 1e-06 61_[-10]_28 chr16:92134275-92134375 2.1e-06 4_[+10]_85 chr1:152220807-152220907 2.1e-06 7_[-10]_82 chr11:114703963-11470406 2.1e-06 14_[+10]_75 chr2:23234295-23234395 2.1e-06 87_[-10]_2 chr4:45765021-45765121 2.4e-06 87_[+10]_2 chr12:74283932-74284032 3.4e-06 37_[+10]_52 chr10:17331527-17331627 3.6e-06 1_[+10]_88 chr16:12197573-12197673 4.3e-06 84_[+10]_5 chr4:119138159-119138259 5.2e-06 66_[+10]_23 chr9:45598040-45598140 6.1e-06 60_[-10]_29 chr3:88204659-88204759 6.7e-06 64_[-10]_25 chr4:98322152-98322252 7.8e-06 58_[+10]_31 chr6:31232864-31232964 7.8e-06 37_[+10]_52 chr7:73618304-73618404 9.2e-06 51_[-10]_38 chr4:106827843-106827943 1.2e-05 17_[-10]_72 chr11:108136236-10813633 1.4e-05 33_[-10]_56 chr1:97628445-97628545 1.7e-05 33_[-10]_56 chr16:25029453-25029553 1.8e-05 67_[+10]_22 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSGGGBGSAGG MEME-10 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GSGGGBGSAGG width=11 seqs=23 chr5:146878018-146878118 ( 22) GGGGGCGGAGG 1 chr4:69195522-69195622 ( 39) GGGGGTGGAGG 1 chr1:152656508-152656608 ( 53) GGGGGTGCAGG 1 chr3:35342033-35342133 ( 48) GGGGGGGCAGG 1 chr5:116822002-116822102 ( 62) GGGGGGGCAGG 1 chr16:92134275-92134375 ( 5) GCAGGCGCAGG 1 chr1:152220807-152220907 ( 8) GCAGGCGCAGG 1 chr11:114703963-11470406 ( 15) GCAGGCGCAGG 1 chr2:23234295-23234395 ( 88) GCCGGCGGAGG 1 chr4:45765021-45765121 ( 88) GGGGGTGGGGG 1 chr12:74283932-74284032 ( 38) GGCGGTGGAGG 1 chr10:17331527-17331627 ( 2) GCAGGGGGAGG 1 chr16:12197573-12197673 ( 85) GCAGGTGCAGG 1 chr4:119138159-119138259 ( 67) GGGGGCGGAGT 1 chr9:45598040-45598140 ( 61) GCGGGGGTAGG 1 chr3:88204659-88204759 ( 65) GGGGGTGGAGT 1 chr4:98322152-98322252 ( 59) GCGGGCGGAGC 1 chr6:31232864-31232964 ( 38) GGGGGAGGGGG 1 chr7:73618304-73618404 ( 52) GGCGGAGGAGG 1 chr4:106827843-106827943 ( 18) GCGGGCGTGGG 1 chr11:108136236-10813633 ( 34) CGGGGTGCAGG 1 chr1:97628445-97628545 ( 34) GAGGGCGGGGG 1 chr16:25029453-25029553 ( 68) GCGGCGGCAGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSGGGBGSAGG MEME-10 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 11 n= 54000 bayes= 13.0882 E= 2.0e+005 -1117 -236 210 -1117 -267 96 123 -1117 -35 -77 155 -1117 -1117 -1117 216 -1117 -1117 -236 210 -1117 -167 81 -4 14 -1117 -1117 216 -1117 -1117 81 123 -167 158 -1117 -36 -1117 -1117 -1117 216 -1117 -1117 -236 196 -167 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSGGGBGSAGG MEME-10 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 11 nsites= 23 E= 2.0e+005 0.000000 0.043478 0.956522 0.000000 0.043478 0.434783 0.521739 0.000000 0.217391 0.130435 0.652174 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.043478 0.956522 0.000000 0.086957 0.391304 0.217391 0.304348 0.000000 0.000000 1.000000 0.000000 0.000000 0.391304 0.521739 0.086957 0.826087 0.000000 0.173913 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.043478 0.869565 0.086957 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSGGGBGSAGG MEME-10 regular expression -------------------------------------------------------------------------------- G[GC][GA]GG[CTG]G[GC]AGG -------------------------------------------------------------------------------- Time 4735.11 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:97628445-97628545 3.08e-02 33_[-10(1.66e-05)]_56 chr17:8468667-8468767 1.50e-07 21_[+1(4.65e-09)]_12_[+6(8.64e-05)]_\ 38 chr6:112621334-112621434 1.70e-02 100 chr14:76310251-76310351 1.15e-02 100 chr2:34532415-34532515 9.99e-01 100 chr1:8496318-8496418 3.69e-01 100 chr11:114165637-11416573 2.91e-05 27_[+10(2.35e-06)]_62 chrX:86552370-86552470 5.81e-01 100 chr5:27137584-27137684 8.27e-01 100 chr15:32278529-32278629 5.36e-01 100 chr14:119293248-11929334 4.80e-01 100 chr2:52915916-52916016 1.69e-01 100 chr10:108932174-10893227 9.65e-01 100 chr1:165018580-165018680 9.97e-01 100 chr9:41612048-41612148 2.18e-01 [-5(6.55e-05)]_89 chr11:28610677-28610777 3.09e-01 66_[+1(9.47e-07)]_19 chr2:77682128-77682228 2.48e-03 20_[+2(4.16e-05)]_51 chr12:58947206-58947306 2.25e-03 14_[-1(9.04e-08)]_71 chr6:39778372-39778472 9.99e-01 100 chr10:122008791-12200889 3.94e-06 57_[-1(3.43e-05)]_28 chr2:168161303-168161403 3.07e-02 100 chr12:45171909-45172009 1.28e-01 31_[-1(4.12e-06)]_54 chr1:20247536-20247636 9.83e-01 100 chr2:52987853-52987953 1.29e-01 100 chr8:119206248-119206348 1.08e-01 100 chr14:86006843-86006943 1.00e+00 100 chr8:24054849-24054949 6.71e-02 64_[-7(6.26e-06)]_7 chr2:106854538-106854638 5.77e-02 100 chr15:79380452-79380552 1.77e-03 100 chr8:36913806-36913906 4.07e-04 22_[-7(8.72e-05)]_49 chr4:13926730-13926830 8.93e-01 100 chr12:91654554-91654654 1.00e+00 100 chr9:63856245-63856345 3.27e-12 31_[-10(4.77e-05)]_28_\ [+3(7.46e-14)]_3 chr1:32633441-32633541 9.80e-01 100 chr10:68373817-68373917 1.61e-01 100 chr8:10472358-10472458 5.55e-01 100 chr10:85472976-85473076 7.33e-01 100 chr5:27615758-27615858 3.50e-03 51_[-1(4.65e-09)]_34 chr13:111384059-11138415 7.53e-01 100 chr3:52422875-52422975 9.23e-01 100 chr16:40539019-40539119 1.00e+00 100 chr18:44765842-44765942 1.35e-01 100 chr14:33521452-33521552 2.82e-03 63_[+5(6.55e-05)]_26 chr16:66626207-66626307 8.02e-01 100 chr3:85145002-85145102 9.95e-01 100 chr4:37034061-37034161 1.81e-02 100 chr5:110978950-110979050 2.20e-14 [+9(2.70e-05)]_1_[+8(2.70e-05)]_2_\ [+4(1.04e-09)]_26_[-6(2.12e-05)]_20 chr6:55717204-55717304 5.39e-02 14_[+1(1.04e-06)]_71 chr14:53826776-53826876 3.89e-01 100 chr9:121973960-121974060 1.95e-02 39_[-5(6.55e-05)]_50 chr3:137197058-137197158 9.82e-01 100 chr11:25301029-25301129 7.57e-01 100 chr7:123084719-123084819 8.18e-01 100 chr4:23832046-23832146 1.00e+00 100 chr15:58475825-58475925 5.64e-01 100 chr1:3119446-3119546 3.88e-01 100 chr17:83889827-83889927 6.87e-01 100 chr13:70336112-70336212 7.79e-01 3_[-7(4.13e-06)]_68 chr9:11432793-11432893 1.00e+00 100 chr13:45614738-45614838 5.46e-01 100 chr19:30306240-30306340 5.53e-01 100 chr3:53931485-53931585 9.75e-01 100 chr2:49572035-49572135 4.76e-01 100 chr18:55201494-55201594 3.64e-02 100 chr12:29698585-29698685 9.98e-01 100 chr10:14213498-14213598 2.56e-03 100 chr13:91636766-91636866 2.48e-03 50_[-1(1.54e-07)]_35 chr4:46835460-46835560 7.69e-01 100 chr5:53096729-53096829 4.60e-01 100 chr3:117180823-117180923 8.77e-01 100 chr2:137942712-137942812 6.82e-02 31_[-1(7.00e-07)]_54 chr15:56328213-56328313 9.96e-01 100 chr18:59342563-59342663 9.73e-01 100 chr2:3217236-3217336 9.94e-01 100 chr3:82959449-82959549 5.56e-01 100 chr9:3863109-3863209 6.87e-01 100 chr12:12607933-12608033 8.80e-01 100 chr2:106789100-106789200 1.00e+00 100 chr10:6700147-6700247 9.97e-01 100 chr2:49645312-49645412 3.28e-01 100 chr13:57654548-57654648 1.79e-01 100 chr9:45581917-45582017 3.89e-02 100 chr12:98090019-98090119 2.15e-02 100 chr6:31232864-31232964 1.40e-07 29_[+3(2.61e-07)]_44 chr14:80202271-80202371 6.03e-01 100 chr2:81184006-81184106 7.81e-01 100 chr9:29818478-29818578 1.01e-01 100 chr3:50984025-50984125 8.30e-01 100 chr8:48162111-48162211 1.00e+00 100 chr15:38386931-38387031 8.32e-02 100 chr13:8393685-8393785 9.30e-01 100 chr18:29568206-29568306 9.78e-01 100 chr8:83875341-83875441 5.00e-17 18_[+3(9.03e-06)]_8_[-6(4.12e-05)]_\ 2_[+3(6.95e-16)]_4 chr14:66934491-66934591 3.08e-01 100 chr6:99411849-99411949 9.98e-01 100 chr14:33123593-33123693 2.71e-01 100 chr8:122742437-122742537 1.22e-01 100 chr2:107340294-107340394 1.00e+00 100 chrX:52059435-52059535 1.00e+00 100 chr15:73268222-73268322 1.00e+00 100 chr12:13800840-13800940 9.96e-01 100 chr19:44676672-44676772 1.15e-03 50_[+10(3.85e-05)]_5_[-3(2.85e-05)]_\ 7 chr9:61031899-61031999 3.62e-08 42_[-3(3.57e-05)]_[-10(4.26e-06)]_4_\ [-10(4.77e-05)]_5 chr3:60167525-60167625 9.78e-01 100 chr2:44462995-44463095 1.00e+00 100 chr9:117400441-117400541 1.93e-03 9_[+1(5.54e-05)]_11_[+2(3.00e-05)]_\ 36 chr14:121062062-12106216 1.94e-01 100 chrX:162735339-162735439 7.89e-02 80_[-10(1.81e-05)]_9 chr3:58122726-58122826 4.34e-02 11_[-2(1.97e-08)]_60 chr6:66292949-66293049 1.00e+00 100 chr3:81789660-81789760 8.89e-01 100 chr1:195010246-195010346 7.79e-01 100 chr11:108223035-10822313 9.40e-01 100 chr1:3415943-3416043 9.97e-01 100 chr10:73040792-73040892 1.00e+00 100 chrX:167654815-167654915 8.23e-02 66_[+3(8.55e-05)]_7 chr7:67109281-67109381 9.27e-01 100 chr3:27489506-27489606 6.33e-01 100 chr1:169875190-169875290 9.87e-01 100 chr6:144477744-144477844 5.11e-01 100 chr13:105226460-10522656 3.66e-01 100 chr4:47129577-47129677 7.50e-01 100 chr14:120299688-12029978 9.62e-01 100 chrX:161977496-161977596 6.97e-01 100 chr11:8229719-8229819 9.52e-02 86_[+6(6.06e-05)] chr13:42593329-42593429 7.81e-01 100 chr8:60706032-60706132 9.91e-01 100 chr4:77558768-77558868 9.56e-03 45_[-1(4.45e-06)]_40 chr8:14641830-14641930 2.13e-01 100 chr16:50528699-50528799 3.54e-09 27_[+1(3.77e-07)]_19_[+3(1.17e-05)]_\ 12 chr13:54926632-54926732 2.04e-02 100 chr16:26051290-26051390 9.97e-01 100 chr2:68911570-68911670 7.81e-01 100 chr19:30128059-30128159 9.82e-01 100 chr9:117487252-117487352 2.02e-01 100 chr4:35823444-35823544 2.43e-04 69_[+2(6.48e-11)]_2 chr5:66710364-66710464 9.98e-01 100 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8.22e-01 100 chr16:13517441-13517541 5.53e-01 10_[+7(8.72e-05)]_61 chr11:110377225-11037732 9.07e-01 100 chr11:32998861-32998961 2.39e-01 100 chr11:81064734-81064834 2.24e-01 100 chr3:38051595-38051695 9.41e-01 100 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (10) found. ******************************************************************************** CPU: compute-1-39.local ********************************************************************************