******************************************************************************** MEME - Motif discovery tool ******************************************************************************** MEME version 5.3.3 (Release date: Sun Feb 7 15:39:52 2021 -0800) For further information on how to interpret these results please access https://meme-suite.org/meme. To get a copy of the MEME Suite software please access https://meme-suite.org. ******************************************************************************** ******************************************************************************** REFERENCE ******************************************************************************** If you use this program in your research, please cite: Timothy L. Bailey and Charles Elkan, "Fitting a mixture model by expectation maximization to discover motifs in biopolymers", Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology, pp. 28-36, AAAI Press, Menlo Park, California, 1994. ******************************************************************************** ******************************************************************************** TRAINING SET ******************************************************************************** PRIMARY SEQUENCES= ../result/final_prediction/K562/fasta/RankLinear0.6_40/SMARCB1.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr12:51411388-51411468 1.0000 80 chr1:40688257-40688337 1.0000 80 chr7:106691757-106691837 1.0000 80 chr1:234505329-234505409 1.0000 80 chr5:53622052-53622132 1.0000 80 chr14:23474788-23474868 1.0000 80 chr5:95062045-95062125 1.0000 80 chr1:115298117-115298197 1.0000 80 chr9:127521202-127521282 1.0000 80 chr7:8171535-8171615 1.0000 80 chr1:32393386-32393466 1.0000 80 chr3:156167942-156168022 1.0000 80 chr10:70230369-70230449 1.0000 80 chr8:106340802-106340882 1.0000 80 chr7:127030651-127030731 1.0000 80 chr5:173277867-173277947 1.0000 80 chr7:150021640-150021720 1.0000 80 chr1:28394003-28394083 1.0000 80 chr7:16299994-16300074 1.0000 80 chr2:189158739-189158819 1.0000 80 chr11:130183394-13018347 1.0000 80 chr1:167628265-167628345 1.0000 80 chr7:2797394-2797474 1.0000 80 chr2:74801380-74801460 1.0000 80 chr7:149458618-149458698 1.0000 80 chr6:26479401-26479481 1.0000 80 chr7:96750531-96750611 1.0000 80 chr7:107477532-107477612 1.0000 80 chr9:139781950-139782030 1.0000 80 chr2:216636903-216636983 1.0000 80 chr12:116638821-11663890 1.0000 80 chr7:50350090-50350170 1.0000 80 chr18:9609183-9609263 1.0000 80 chr7:148547578-148547658 1.0000 80 chr18:3443068-3443148 1.0000 80 chr7:7138099-7138179 1.0000 80 chr4:175342175-175342255 1.0000 80 chr11:47027107-47027187 1.0000 80 chr2:191329847-191329927 1.0000 80 chr15:57209479-57209559 1.0000 80 chr6:31762090-31762170 1.0000 80 chr17:74189456-74189536 1.0000 80 chr2:26298057-26298137 1.0000 80 chr1:145610412-145610492 1.0000 80 chr2:158126445-158126525 1.0000 80 chr10:75003519-75003599 1.0000 80 chr6:13396116-13396196 1.0000 80 chr13:22142035-22142115 1.0000 80 chr1:207195019-207195099 1.0000 80 chr15:40671998-40672078 1.0000 80 chr5:43601757-43601837 1.0000 80 chr20:49140420-49140500 1.0000 80 chr19:45350916-45350996 1.0000 80 chr12:92734757-92734837 1.0000 80 chr7:107477768-107477848 1.0000 80 chr5:43301889-43301969 1.0000 80 chr22:38003300-38003380 1.0000 80 chr10:62735971-62736051 1.0000 80 chr12:118798822-11879890 1.0000 80 chr1:109928115-109928195 1.0000 80 chr15:35459521-35459601 1.0000 80 chr7:106362792-106362872 1.0000 80 chr1:109797478-109797558 1.0000 80 chr2:55592466-55592546 1.0000 80 chr7:112092262-112092342 1.0000 80 chr19:1204073-1204153 1.0000 80 chr18:23668635-23668715 1.0000 80 chr7:127636640-127636720 1.0000 80 chr1:26449130-26449210 1.0000 80 chr21:36257553-36257633 1.0000 80 chr5:77780510-77780590 1.0000 80 chr8:117718443-117718523 1.0000 80 chr1:166448208-166448288 1.0000 80 chr11:22850527-22850607 1.0000 80 chr7:158612529-158612609 1.0000 80 chr1:12555956-12556036 1.0000 80 chr4:95469885-95469965 1.0000 80 chr8:92050479-92050559 1.0000 80 chr19:49838623-49838703 1.0000 80 chr1:7891630-7891710 1.0000 80 chr5:112069973-112070053 1.0000 80 chr6:35619271-35619351 1.0000 80 chr6:27518393-27518473 1.0000 80 chr7:116727014-116727094 1.0000 80 chr8:130329472-130329552 1.0000 80 chr12:28296723-28296803 1.0000 80 chr15:64134496-64134576 1.0000 80 chr1:47704976-47705056 1.0000 80 chr8:95999952-96000032 1.0000 80 chr3:160111628-160111708 1.0000 80 chr12:116634709-11663478 1.0000 80 chr5:137331321-137331401 1.0000 80 chr7:92677019-92677099 1.0000 80 chr6:147202648-147202728 1.0000 80 chr9:127529276-127529356 1.0000 80 chr6:108886783-108886863 1.0000 80 chr12:12369452-12369532 1.0000 80 chr5:40791834-40791914 1.0000 80 chr8:56684236-56684316 1.0000 80 chr5:139154860-139154940 1.0000 80 chr3:186667162-186667242 1.0000 80 chr1:51953780-51953860 1.0000 80 chr3:20080290-20080370 1.0000 80 chr4:170526392-170526472 1.0000 80 chr5:40799464-40799544 1.0000 80 chr7:106669595-106669675 1.0000 80 chr7:131014053-131014133 1.0000 80 chr1:180991085-180991165 1.0000 80 chr18:1050673-1050753 1.0000 80 chr7:158651029-158651109 1.0000 80 chr4:81046568-81046648 1.0000 80 chr17:78414983-78415063 1.0000 80 chr5:94984399-94984479 1.0000 80 chr6:13987123-13987203 1.0000 80 chr9:113133422-113133502 1.0000 80 chr1:178996861-178996941 1.0000 80 chr15:68013011-68013091 1.0000 80 chr2:100102081-100102161 1.0000 80 chr7:92892005-92892085 1.0000 80 chr6:168236225-168236305 1.0000 80 chr1:110473871-110473951 1.0000 80 chr7:148401888-148401968 1.0000 80 chr8:38226078-38226158 1.0000 80 chr11:95718564-95718644 1.0000 80 chr8:91095019-91095099 1.0000 80 chr18:9575676-9575756 1.0000 80 chr1:109126900-109126980 1.0000 80 chr18:9104721-9104801 1.0000 80 chr1:155271295-155271375 1.0000 80 chr1:213434146-213434226 1.0000 80 chr17:47372149-47372229 1.0000 80 chr22:22464354-22464434 1.0000 80 chr8:100103592-100103672 1.0000 80 chr22:40298541-40298621 1.0000 80 chr16:47500284-47500364 1.0000 80 chr5:53588805-53588885 1.0000 80 chr22:23053401-23053481 1.0000 80 chr1:171710053-171710133 1.0000 80 chr6:135626235-135626315 1.0000 80 chr7:106719717-106719797 1.0000 80 chr1:41446328-41446408 1.0000 80 chr7:106593060-106593140 1.0000 80 chr7:30387843-30387923 1.0000 80 chr7:120640713-120640793 1.0000 80 chr6:15736690-15736770 1.0000 80 chr7:101723188-101723268 1.0000 80 chr3:151922038-151922118 1.0000 80 chr2:17892337-17892417 1.0000 80 chr12:51005069-51005149 1.0000 80 chr8:56832100-56832180 1.0000 80 chr10:94732211-94732291 1.0000 80 chr1:12501687-12501767 1.0000 80 chr6:157340491-157340571 1.0000 80 chr15:91161361-91161441 1.0000 80 chr3:141766102-141766182 1.0000 80 chr10:28971071-28971151 1.0000 80 chr1:114402173-114402253 1.0000 80 chr10:35418341-35418421 1.0000 80 chr19:11202714-11202794 1.0000 80 chr4:99918845-99918925 1.0000 80 chr2:172015046-172015126 1.0000 80 chr16:30906451-30906531 1.0000 80 chr3:150481797-150481877 1.0000 80 chr1:115054791-115054871 1.0000 80 chr5:81149821-81149901 1.0000 80 chr7:120647173-120647253 1.0000 80 chr19:47349526-47349606 1.0000 80 chr15:77914883-77914963 1.0000 80 chr3:154733084-154733164 1.0000 80 chr1:226593873-226593953 1.0000 80 chr3:171171132-171171212 1.0000 80 chr7:158496200-158496280 1.0000 80 chr1:110334959-110335039 1.0000 80 chr11:78026205-78026285 1.0000 80 chr2:39348618-39348698 1.0000 80 chr22:21211775-21211855 1.0000 80 chr4:89679596-89679676 1.0000 80 chr1:174934768-174934848 1.0000 80 chr1:95635285-95635365 1.0000 80 chr19:44124458-44124538 1.0000 80 chr6:36928196-36928276 1.0000 80 chr6:13987420-13987500 1.0000 80 chr7:75293134-75293214 1.0000 80 chr7:106666464-106666544 1.0000 80 chr5:10310813-10310893 1.0000 80 chr3:183271511-183271591 1.0000 80 chr2:27286216-27286296 1.0000 80 chr4:186278958-186279038 1.0000 80 chr6:126267589-126267669 1.0000 80 chr5:65277482-65277562 1.0000 80 chr6:146133261-146133341 1.0000 80 chr19:45901539-45901619 1.0000 80 chr10:49597327-49597407 1.0000 80 chr14:31508003-31508083 1.0000 80 chr2:196478886-196478966 1.0000 80 chr15:34947226-34947306 1.0000 80 chr9:94707701-94707781 1.0000 80 chr2:187792863-187792943 1.0000 80 chr3:25645866-25645946 1.0000 80 chr4:83807670-83807750 1.0000 80 chr9:133557739-133557819 1.0000 80 chr11:111913610-11191369 1.0000 80 chr22:21364049-21364129 1.0000 80 chr1:113753047-113753127 1.0000 80 chr4:140187625-140187705 1.0000 80 chr14:34459458-34459538 1.0000 80 chr1:101536831-101536911 1.0000 80 chr4:140006627-140006707 1.0000 80 chr2:171217840-171217920 1.0000 80 chr12:32193266-32193346 1.0000 80 chr5:39177123-39177203 1.0000 80 chr11:78061402-78061482 1.0000 80 chr16:75025455-75025535 1.0000 80 chr20:39715057-39715137 1.0000 80 chr9:131059255-131059335 1.0000 80 chr6:84980280-84980360 1.0000 80 chr1:202135514-202135594 1.0000 80 chr8:103553957-103554037 1.0000 80 chr3:47159447-47159527 1.0000 80 chr3:43814858-43814938 1.0000 80 chr19:48948652-48948732 1.0000 80 chr11:78139973-78140053 1.0000 80 chr11:18346088-18346168 1.0000 80 chr1:26868408-26868488 1.0000 80 chr18:33262554-33262634 1.0000 80 chr12:127393619-12739369 1.0000 80 chr6:37173644-37173724 1.0000 80 chr11:111563247-11156332 1.0000 80 chr1:32389901-32389981 1.0000 80 chr3:42856806-42856886 1.0000 80 chr1:184737862-184737942 1.0000 80 chr5:121461927-121462007 1.0000 80 chr3:140672013-140672093 1.0000 80 chr7:148418149-148418229 1.0000 80 chr6:157909213-157909293 1.0000 80 chr1:54841667-54841747 1.0000 80 chr1:172420304-172420384 1.0000 80 chr12:112179048-11217912 1.0000 80 chr1:155271494-155271574 1.0000 80 chr10:52035583-52035663 1.0000 80 chr7:106626773-106626853 1.0000 80 chr6:147217424-147217504 1.0000 80 chr18:814644-814724 1.0000 80 chr12:80326898-80326978 1.0000 80 chr19:6066171-6066251 1.0000 80 chr20:52355706-52355786 1.0000 80 chr7:112727659-112727739 1.0000 80 chrX:117638034-117638114 1.0000 80 chr1:227486706-227486786 1.0000 80 chr9:111873598-111873678 1.0000 80 ******************************************************************************** ******************************************************************************** COMMAND LINE SUMMARY ******************************************************************************** This information can also be useful in the event you wish to report a problem with the MEME software. command: meme -oc ../result/final_prediction/K562/inference_raw/MEME/RankLinear0.6_40_SMARCB1/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/K562/fasta/RankLinear0.6_40/SMARCB1.fasta model: mod= zoops nmotifs= 5 evt= inf objective function: em= E-value of product of p-values starts= E-value of product of p-values strands: + width: minw= 8 maxw= 8 nsites: minsites= 2 maxsites= 250 wnsites= 0.8 theta: spmap= uni spfuzz= 0.5 em: prior= dirichlet b= 0.01 maxiter= 50 distance= 1e-05 trim: wg= 11 ws= 1 endgaps= yes data: n= 20000 N= 250 sample: seed= 0 hsfrac= 0 searchsize= 20000 norand= no csites= 1000 Letter frequencies in dataset: A 0.288 C 0.211 G 0.212 T 0.289 Background letter frequencies (from file dataset with add-one prior applied): A 0.288 C 0.211 G 0.212 T 0.289 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF GGARGGAG MEME-1 width = 8 sites = 23 llr = 212 E-value = 1.9e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGARGGAG MEME-1 Description -------------------------------------------------------------------------------- Simplified A :293:1a: pos.-specific C 121::::: probability G 97:7a9:a matrix T :::::::: bits 2.2 * * 2.0 * * 1.8 * **** 1.6 * **** Relative 1.3 * * **** Entropy 1.1 * ****** (13.3 bits) 0.9 ******** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GGAGGGAG consensus A sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGARGGAG MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr1:54841667-54841747 13 7.53e-06 tacagggcag ggagggag ggggaggaaa chr19:45901539-45901619 70 7.53e-06 TGCATGGTGG GGAGGGAG GGA chr6:126267589-126267669 59 7.53e-06 tcatcatttt ggagggag tcagttgaag chr8:91095019-91095099 8 7.53e-06 GGGCTGC GGAGGGAG ACCTGGGCGC chr5:139154860-139154940 51 7.53e-06 AGCTATGAGA GGAGGGAG GGCGCGCGAG chr22:38003300-38003380 20 7.53e-06 GGTCTTTGAT GGAGGGAG ATACAGGAGA chr9:139781950-139782030 56 7.53e-06 gctcggagga ggagggag tctggtctgg chr7:120647173-120647253 25 1.78e-05 GCTTGGGGAA GGAAGGAG CCTCACTGGA chr2:17892337-17892417 51 1.78e-05 TTTGACACTA GGAAGGAG TCACCATTTT chr1:109797478-109797558 71 1.78e-05 GAAGGAGGTG GGAAGGAG GG chr11:78139973-78140053 23 2.53e-05 gtctctgaga gcagggag tatgtcctat chr22:23053401-23053481 63 2.53e-05 ATGCCCACAT GCAGGGAG GGTCGGTGAC chr6:84980280-84980360 23 3.55e-05 ATTAGAGTAT GAAGGGAG ATTGTAACAC chr3:43814858-43814938 14 4.10e-05 GCCCCAGCCA GGCGGGAG CTTGCTCTGC chr6:31762090-31762170 5 5.12e-05 CCAT GCAAGGAG GCAGAGTTGA chr6:15736690-15736770 38 5.87e-05 AAGGTCCCAG CGAGGGAG CATGAGTGAC chr7:106626773-106626853 27 7.26e-05 GGCCTGGAAA GAAAGGAG TCCAAGGGCA chr3:171171132-171171212 52 7.26e-05 AGTAGGTACA GAAAGGAG ACTAAGACAG chr11:47027107-47027187 51 7.26e-05 AAACAAAACA GAAAGGAG ACATATTTTG chr1:26868408-26868488 7 8.28e-05 CCTGTA GGAGGAAG TAAATAAAGA chr13:22142035-22142115 40 8.28e-05 TAGGGAGACT GGAGGAAG ATGACACAGT chr1:115054791-115054871 68 9.03e-05 aggaggctga ggcaggag aatgg chr1:155271494-155271574 7 1.35e-04 GTGAAT CCAGGGAG CAGGGGCTGT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGARGGAG MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:54841667-54841747 7.5e-06 12_[+1]_60 chr19:45901539-45901619 7.5e-06 69_[+1]_3 chr6:126267589-126267669 7.5e-06 58_[+1]_14 chr8:91095019-91095099 7.5e-06 7_[+1]_65 chr5:139154860-139154940 7.5e-06 50_[+1]_22 chr22:38003300-38003380 7.5e-06 19_[+1]_53 chr9:139781950-139782030 7.5e-06 55_[+1]_17 chr7:120647173-120647253 1.8e-05 24_[+1]_48 chr2:17892337-17892417 1.8e-05 50_[+1]_22 chr1:109797478-109797558 1.8e-05 70_[+1]_2 chr11:78139973-78140053 2.5e-05 22_[+1]_50 chr22:23053401-23053481 2.5e-05 62_[+1]_10 chr6:84980280-84980360 3.5e-05 22_[+1]_50 chr3:43814858-43814938 4.1e-05 13_[+1]_59 chr6:31762090-31762170 5.1e-05 4_[+1]_68 chr6:15736690-15736770 5.9e-05 37_[+1]_35 chr7:106626773-106626853 7.3e-05 26_[+1]_46 chr3:171171132-171171212 7.3e-05 51_[+1]_21 chr11:47027107-47027187 7.3e-05 50_[+1]_22 chr1:26868408-26868488 8.3e-05 6_[+1]_66 chr13:22142035-22142115 8.3e-05 39_[+1]_33 chr1:115054791-115054871 9e-05 67_[+1]_5 chr1:155271494-155271574 0.00013 6_[+1]_66 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGARGGAG MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGARGGAG width=8 seqs=23 chr1:54841667-54841747 ( 13) GGAGGGAG 1 chr19:45901539-45901619 ( 70) GGAGGGAG 1 chr6:126267589-126267669 ( 59) GGAGGGAG 1 chr8:91095019-91095099 ( 8) GGAGGGAG 1 chr5:139154860-139154940 ( 51) GGAGGGAG 1 chr22:38003300-38003380 ( 20) GGAGGGAG 1 chr9:139781950-139782030 ( 56) GGAGGGAG 1 chr7:120647173-120647253 ( 25) GGAAGGAG 1 chr2:17892337-17892417 ( 51) GGAAGGAG 1 chr1:109797478-109797558 ( 71) GGAAGGAG 1 chr11:78139973-78140053 ( 23) GCAGGGAG 1 chr22:23053401-23053481 ( 63) GCAGGGAG 1 chr6:84980280-84980360 ( 23) GAAGGGAG 1 chr3:43814858-43814938 ( 14) GGCGGGAG 1 chr6:31762090-31762170 ( 5) GCAAGGAG 1 chr6:15736690-15736770 ( 38) CGAGGGAG 1 chr7:106626773-106626853 ( 27) GAAAGGAG 1 chr3:171171132-171171212 ( 52) GAAAGGAG 1 chr11:47027107-47027187 ( 51) GAAAGGAG 1 chr1:26868408-26868488 ( 7) GGAGGAAG 1 chr13:22142035-22142115 ( 40) GGAGGAAG 1 chr1:115054791-115054871 ( 68) GGCAGGAG 1 chr1:155271494-155271574 ( 7) CCAGGGAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGARGGAG MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.6953 E= 1.9e-002 -1117 -128 211 -1117 -73 -28 162 -1117 166 -128 -1117 -1117 27 -1117 162 -1117 -1117 -1117 224 -1117 -173 -1117 211 -1117 179 -1117 -1117 -1117 -1117 -1117 224 -1117 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGARGGAG MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 23 E= 1.9e-002 0.000000 0.086957 0.913043 0.000000 0.173913 0.173913 0.652174 0.000000 0.913043 0.086957 0.000000 0.000000 0.347826 0.000000 0.652174 0.000000 0.000000 0.000000 1.000000 0.000000 0.086957 0.000000 0.913043 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGARGGAG MEME-1 regular expression -------------------------------------------------------------------------------- GGA[GA]GGAG -------------------------------------------------------------------------------- Time 5.11 secs. ******************************************************************************** ******************************************************************************** MOTIF CYCTCCMY MEME-2 width = 8 sites = 42 llr = 335 E-value = 2.6e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif CYCTCCMY MEME-2 Description -------------------------------------------------------------------------------- Simplified A :1:1::4: pos.-specific C a4a18a55 probability G ::::2::1 matrix T :5:8:::4 bits 2.2 * * * 2.0 * * * 1.8 * * * 1.6 * * ** Relative 1.3 * * ** Entropy 1.1 * * ** (11.5 bits) 0.9 * ****** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CTCTCCCC consensus C AT sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CYCTCCMY MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr1:32389901-32389981 65 5.38e-06 AGCTTCTGTT CCCTCCCC CTCCATCA chr1:155271295-155271375 25 5.38e-06 CCCACAGAAT CCCTCCCC CAGAACGGCC chr7:50350090-50350170 16 5.38e-06 CTGATGAGCC CCCTCCCC CTGGGTTTGC chr15:77914883-77914963 32 1.28e-05 GTGACTTGTC CTCTCCCC AAGTCCCTGC chr3:25645866-25645946 30 2.01e-05 GCTGACCAAT CCCTCCAC ATAAGGAGTT chr1:207195019-207195099 53 2.01e-05 CAGCGGCCCC CCCTCcac acacacacca chr5:65277482-65277562 43 3.75e-05 tgttaagaat ctctccac cacttggctt chr22:22464354-22464434 14 3.75e-05 ggctgtggga ccctccct taacacacac chr1:234505329-234505409 28 3.75e-05 caccatgtgc ccctccct gatcatatct chr11:78061402-78061482 2 4.76e-05 G CTCTCCCT CAGAACCTCC chr1:47704976-47705056 55 4.76e-05 CAGGATCTCT CTCTCCCT TTTATCTCTT chr7:127636640-127636720 57 4.76e-05 ACTCTCCTGA CTCTCCCT GACGGCCATG chr7:112092262-112092342 61 4.76e-05 gctcaagcag ctctccct cctcagcctc chr20:49140420-49140500 10 4.76e-05 TCTCTGAGT CTCTCCCT AATCTGGGAT chr1:167628265-167628345 44 4.76e-05 cctcctctct ctctccct ctccttccca chr6:26479401-26479481 68 5.77e-05 CAACCCTGAT CCCTCCAT CGTCT chr22:21211775-21211855 39 7.15e-05 AAAACATCCT CTCTCCAT GTGCCAAAAA chr7:107477768-107477848 36 7.15e-05 TCCTTCCATA CTCTCCAT CCCCTAAAGG chr18:9609183-9609263 14 7.15e-05 AAATAAAGAT CTCTCCAT CCAGGCTTGT chr6:13987420-13987500 53 9.16e-05 TTTTACCCTA CACTCCCC TGTCTCTTTG chrX:117638034-117638114 71 9.70e-05 ATCTCCGACC CCCACCCC AG chr19:49838623-49838703 23 9.70e-05 TGGGTGGAGC CCCACCCC TGGAACTTCC chr7:149458618-149458698 72 9.70e-05 CATGTTCAGC CCCACCCC C chr22:21364049-21364129 30 1.10e-04 ATGGAGAGCT CCCTGCAC AGAAGCAAGG chr9:133557739-133557819 60 1.10e-04 ccgagcaaga ccctgcac ctctttgggc chr7:2797394-2797474 1 1.10e-04 . CCCTGCAC ATTCTCAGCC chr1:172420304-172420384 71 1.56e-04 TATAAAATGC CACTCCAC CC chr1:54841667-54841747 53 1.56e-04 TGGCTTCCCC CACTCCAC AGTACCCAGG chr10:28971071-28971151 47 1.56e-04 GCAACAGATG CTCTCCCG TTTGCACTAC chr6:15736690-15736770 55 1.56e-04 GCATGAGTGA CTCTGCAC ATTGCTGGTG chr4:81046568-81046648 69 1.56e-04 agtacaatgt ccctgcct ttct chr12:127393619-12739369 52 1.61e-04 TTTTAATTGG CTCCCCCC CGTTACATTT chr18:9104721-9104801 1 1.61e-04 . ctcccccc TTTTTTAAAC chr19:47349526-47349606 65 1.96e-04 CATCCCGGGT CCCTCCAG CACCCCTG chr1:12501687-12501767 43 2.26e-04 AATGAGCTGT CCCCCCAC CTTCCTGCTA chr4:95469885-95469965 46 2.26e-04 TCTTTCTCAG CTCACCAC TTCTGCTATG chr1:113753047-113753127 32 2.47e-04 ACTGATTAGA CTCTCCAG GTACAGCGTG chr1:174934768-174934848 30 2.79e-04 CTCAGTAGCA CTCACCCT GGGTTCATAC chr1:180991085-180991165 69 2.79e-04 GACTGCTTTC CTCTCCTC ACAT chr7:120640713-120640793 21 3.07e-04 AACTCTGTAA CTCTGCAT ATGACTGTTG chr10:52035583-52035663 29 3.63e-04 GCATTATCTG CACTGCCC TCTGGTGGCT chr3:141766102-141766182 19 3.63e-04 atgcctactc ccctcctt tgagctatgt -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CYCTCCMY MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:32389901-32389981 5.4e-06 64_[+2]_8 chr1:155271295-155271375 5.4e-06 24_[+2]_48 chr7:50350090-50350170 5.4e-06 15_[+2]_57 chr15:77914883-77914963 1.3e-05 31_[+2]_41 chr3:25645866-25645946 2e-05 29_[+2]_43 chr1:207195019-207195099 2e-05 52_[+2]_20 chr5:65277482-65277562 3.8e-05 42_[+2]_30 chr22:22464354-22464434 3.8e-05 13_[+2]_59 chr1:234505329-234505409 3.8e-05 27_[+2]_45 chr11:78061402-78061482 4.8e-05 1_[+2]_71 chr1:47704976-47705056 4.8e-05 54_[+2]_18 chr7:127636640-127636720 4.8e-05 56_[+2]_16 chr7:112092262-112092342 4.8e-05 60_[+2]_12 chr20:49140420-49140500 4.8e-05 9_[+2]_63 chr1:167628265-167628345 4.8e-05 43_[+2]_29 chr6:26479401-26479481 5.8e-05 67_[+2]_5 chr22:21211775-21211855 7.1e-05 38_[+2]_34 chr7:107477768-107477848 7.1e-05 35_[+2]_37 chr18:9609183-9609263 7.1e-05 13_[+2]_59 chr6:13987420-13987500 9.2e-05 52_[+2]_20 chrX:117638034-117638114 9.7e-05 70_[+2]_2 chr19:49838623-49838703 9.7e-05 22_[+2]_50 chr7:149458618-149458698 9.7e-05 71_[+2]_1 chr22:21364049-21364129 0.00011 29_[+2]_43 chr9:133557739-133557819 0.00011 59_[+2]_13 chr7:2797394-2797474 0.00011 [+2]_72 chr1:172420304-172420384 0.00016 70_[+2]_2 chr1:54841667-54841747 0.00016 52_[+2]_20 chr10:28971071-28971151 0.00016 46_[+2]_26 chr6:15736690-15736770 0.00016 54_[+2]_18 chr4:81046568-81046648 0.00016 68_[+2]_4 chr12:127393619-12739369 0.00016 51_[+2]_21 chr18:9104721-9104801 0.00016 [+2]_72 chr19:47349526-47349606 0.0002 64_[+2]_8 chr1:12501687-12501767 0.00023 42_[+2]_30 chr4:95469885-95469965 0.00023 45_[+2]_27 chr1:113753047-113753127 0.00025 31_[+2]_41 chr1:174934768-174934848 0.00028 29_[+2]_43 chr1:180991085-180991165 0.00028 68_[+2]_4 chr7:120640713-120640793 0.00031 20_[+2]_52 chr10:52035583-52035663 0.00036 28_[+2]_44 chr3:141766102-141766182 0.00036 18_[+2]_54 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CYCTCCMY MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CYCTCCMY width=8 seqs=42 chr1:32389901-32389981 ( 65) CCCTCCCC 1 chr1:155271295-155271375 ( 25) CCCTCCCC 1 chr7:50350090-50350170 ( 16) CCCTCCCC 1 chr15:77914883-77914963 ( 32) CTCTCCCC 1 chr3:25645866-25645946 ( 30) CCCTCCAC 1 chr1:207195019-207195099 ( 53) CCCTCCAC 1 chr5:65277482-65277562 ( 43) CTCTCCAC 1 chr22:22464354-22464434 ( 14) CCCTCCCT 1 chr1:234505329-234505409 ( 28) CCCTCCCT 1 chr11:78061402-78061482 ( 2) CTCTCCCT 1 chr1:47704976-47705056 ( 55) CTCTCCCT 1 chr7:127636640-127636720 ( 57) CTCTCCCT 1 chr7:112092262-112092342 ( 61) CTCTCCCT 1 chr20:49140420-49140500 ( 10) CTCTCCCT 1 chr1:167628265-167628345 ( 44) CTCTCCCT 1 chr6:26479401-26479481 ( 68) CCCTCCAT 1 chr22:21211775-21211855 ( 39) CTCTCCAT 1 chr7:107477768-107477848 ( 36) CTCTCCAT 1 chr18:9609183-9609263 ( 14) CTCTCCAT 1 chr6:13987420-13987500 ( 53) CACTCCCC 1 chrX:117638034-117638114 ( 71) CCCACCCC 1 chr19:49838623-49838703 ( 23) CCCACCCC 1 chr7:149458618-149458698 ( 72) CCCACCCC 1 chr22:21364049-21364129 ( 30) CCCTGCAC 1 chr9:133557739-133557819 ( 60) CCCTGCAC 1 chr7:2797394-2797474 ( 1) CCCTGCAC 1 chr1:172420304-172420384 ( 71) CACTCCAC 1 chr1:54841667-54841747 ( 53) CACTCCAC 1 chr10:28971071-28971151 ( 47) CTCTCCCG 1 chr6:15736690-15736770 ( 55) CTCTGCAC 1 chr4:81046568-81046648 ( 69) CCCTGCCT 1 chr12:127393619-12739369 ( 52) CTCCCCCC 1 chr18:9104721-9104801 ( 1) CTCCCCCC 1 chr19:47349526-47349606 ( 65) CCCTCCAG 1 chr1:12501687-12501767 ( 43) CCCCCCAC 1 chr4:95469885-95469965 ( 46) CTCACCAC 1 chr1:113753047-113753127 ( 32) CTCTCCAG 1 chr1:174934768-174934848 ( 30) CTCACCCT 1 chr1:180991085-180991165 ( 69) CTCTCCTC 1 chr7:120640713-120640793 ( 21) CTCTGCAT 1 chr10:52035583-52035663 ( 29) CACTGCCC 1 chr3:141766102-141766182 ( 19) CCCTCCTT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CYCTCCMY MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.2669 E= 2.6e-002 -1204 225 -1204 -1204 -160 102 -1204 72 -1204 225 -1204 -1204 -128 -156 -1204 149 -1204 198 -35 -1204 -1204 225 -1204 -1204 57 131 -1204 -260 -1204 138 -157 40 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CYCTCCMY MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 42 E= 2.6e-002 0.000000 1.000000 0.000000 0.000000 0.095238 0.428571 0.000000 0.476190 0.000000 1.000000 0.000000 0.000000 0.119048 0.071429 0.000000 0.809524 0.000000 0.833333 0.166667 0.000000 0.000000 1.000000 0.000000 0.000000 0.428571 0.523810 0.000000 0.047619 0.000000 0.547619 0.071429 0.380952 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CYCTCCMY MEME-2 regular expression -------------------------------------------------------------------------------- C[TC]CTCC[CA][CT] -------------------------------------------------------------------------------- Time 8.97 secs. ******************************************************************************** ******************************************************************************** MOTIF GGTGGGGC MEME-3 width = 8 sites = 14 llr = 138 E-value = 1.8e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGTGGGGC MEME-3 Description -------------------------------------------------------------------------------- Simplified A ::1::1:: pos.-specific C ::::::19 probability G a8:9a991 matrix T :291:::: bits 2.2 * * 2.0 * * 1.8 * ** * 1.6 * ***** Relative 1.3 ******** Entropy 1.1 ******** (14.2 bits) 0.9 ******** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GGTGGGGC consensus T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGGGC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr1:155271494-155271574 27 5.54e-06 GGGGCTGTAG GGTGGGGC TGGAGCCTGA chr5:121461927-121462007 35 5.54e-06 AATTCCTTGT GGTGGGGC TGCTCCCACA chr18:1050673-1050753 25 5.54e-06 TTGGGCGGGG GGTGGGGC TTGGAGGGGT chr1:47704976-47705056 32 5.54e-06 ATAGGAATGG GGTGGGGC AACCACAGGA chr7:107477768-107477848 7 5.54e-06 AACCAG GGTGGGGC AGAGCTTGGT chr3:171171132-171171212 34 1.31e-05 AATGTTCAGC GTTGGGGC AGTAGGTACA chr7:149458618-149458698 4 1.31e-05 GAG GTTGGGGC CTTCTCTCTC chr22:23053401-23053481 31 1.86e-05 CTGGAGATGG GGTGGGCC TGGGCATCAG chr5:81149821-81149901 47 2.61e-05 TGCTTCCTAT GGTTGGGC TTATTTACAA chr1:110473871-110473951 30 2.61e-05 GAAAATGGCT GGTTGGGC TCTGTCCAAG chr12:12369452-12369532 8 3.72e-05 gtgagga ggtggggg cctagaatga chr19:45350916-45350996 59 3.72e-05 GCCGAGCCAG GGAGGGGC GGGGCGGGCG chr19:49838623-49838703 15 4.47e-05 AGCGGGAGTG GGTGGAGC CCCACCCCTG chr18:3443068-3443148 39 5.23e-05 CTAACATTCT GTTGGGCC CAGCCGGTTC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGGGC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:155271494-155271574 5.5e-06 26_[+3]_46 chr5:121461927-121462007 5.5e-06 34_[+3]_38 chr18:1050673-1050753 5.5e-06 24_[+3]_48 chr1:47704976-47705056 5.5e-06 31_[+3]_41 chr7:107477768-107477848 5.5e-06 6_[+3]_66 chr3:171171132-171171212 1.3e-05 33_[+3]_39 chr7:149458618-149458698 1.3e-05 3_[+3]_69 chr22:23053401-23053481 1.9e-05 30_[+3]_42 chr5:81149821-81149901 2.6e-05 46_[+3]_26 chr1:110473871-110473951 2.6e-05 29_[+3]_43 chr12:12369452-12369532 3.7e-05 7_[+3]_65 chr19:45350916-45350996 3.7e-05 58_[+3]_14 chr19:49838623-49838703 4.5e-05 14_[+3]_58 chr18:3443068-3443148 5.2e-05 38_[+3]_34 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGGGC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGTGGGGC width=8 seqs=14 chr1:155271494-155271574 ( 27) GGTGGGGC 1 chr5:121461927-121462007 ( 35) GGTGGGGC 1 chr18:1050673-1050753 ( 25) GGTGGGGC 1 chr1:47704976-47705056 ( 32) GGTGGGGC 1 chr7:107477768-107477848 ( 7) GGTGGGGC 1 chr3:171171132-171171212 ( 34) GTTGGGGC 1 chr7:149458618-149458698 ( 4) GTTGGGGC 1 chr22:23053401-23053481 ( 31) GGTGGGCC 1 chr5:81149821-81149901 ( 47) GGTTGGGC 1 chr1:110473871-110473951 ( 30) GGTTGGGC 1 chr12:12369452-12369532 ( 8) GGTGGGGG 1 chr19:45350916-45350996 ( 59) GGAGGGGC 1 chr19:49838623-49838703 ( 15) GGTGGAGC 1 chr18:3443068-3443148 ( 39) GTTGGGCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGGGC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.9532 E= 1.8e+001 -1045 -1045 224 -1045 -1045 -1045 189 -43 -201 -1045 -1045 168 -1045 -1045 201 -101 -1045 -1045 224 -1045 -201 -1045 213 -1045 -1045 -56 201 -1045 -1045 214 -157 -1045 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGGGC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 14 E= 1.8e+001 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.785714 0.214286 0.071429 0.000000 0.000000 0.928571 0.000000 0.000000 0.857143 0.142857 0.000000 0.000000 1.000000 0.000000 0.071429 0.000000 0.928571 0.000000 0.000000 0.142857 0.857143 0.000000 0.000000 0.928571 0.071429 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGGGC MEME-3 regular expression -------------------------------------------------------------------------------- G[GT]TGGGGC -------------------------------------------------------------------------------- Time 12.83 secs. ******************************************************************************** ******************************************************************************** MOTIF GGGGCTGG MEME-4 width = 8 sites = 18 llr = 165 E-value = 1.5e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGGGCTGG MEME-4 Description -------------------------------------------------------------------------------- Simplified A :3:::1:1 pos.-specific C :::19::: probability G a79913a8 matrix T ::1::6:1 bits 2.2 * * 2.0 * ** * 1.8 * ** * 1.6 * *** * Relative 1.3 ***** ** Entropy 1.1 ***** ** (13.3 bits) 0.9 ***** ** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GGGGCTGG consensus A G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGCTGG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr1:110334959-110335039 69 5.54e-06 CGCTGCCCTG GGGGCTGG TACC chr5:43601757-43601837 55 5.54e-06 attgacattt ggggctgg ataatgcttc chr5:139154860-139154940 22 9.60e-06 GGGCCGCGCG GGGGCGGG CGAGGACGCC chr19:45350916-45350996 67 9.60e-06 AGGGAGGGGC GGGGCGGG CGCTCC chr5:10310813-10310893 4 1.71e-05 TGA GAGGCTGG GTAGGTGATT chr1:109797478-109797558 9 1.71e-05 GGAAGAGG GAGGCTGG AGCTCCTGTG chr6:157909213-157909293 31 2.82e-05 ATTGTAGTGG GAGGCGGG TATGAAAGGA chr11:111563247-11156332 28 2.82e-05 AAAGCCAGGA GAGGCGGG CATGGGCCAG chr1:26868408-26868488 46 2.82e-05 TGCGGGGGAT GGGGCAGG GACCAAGGGA chr2:27286216-27286296 11 2.82e-05 ttgggaggcc gaggcggg cagatcacga chr1:40688257-40688337 45 2.82e-05 TGGAATCTGA GGGGCAGG ATAACACAGC chr1:155271494-155271574 17 3.57e-05 CCAGGGAGCA GGGGCTGT AGGGTGGGGC chr19:44124458-44124538 30 3.57e-05 aggaacacag ggggctgt gggagcctaa chr16:30906451-30906531 12 4.32e-05 tgtgtaatct ggtgctgg ttccctgggc chr7:107477768-107477848 52 4.32e-05 ATCCCCTAAA GGTGCTGG GGGGACATCA chr7:106626773-106626853 16 5.99e-05 CGTCACACAG GGGCCTGG AAAGAAAGGA chr9:139781950-139782030 12 5.99e-05 AGGGCCGACa gggggtgg ggtgtctggc chr18:23668635-23668715 28 8.04e-05 taagttttca ggggctga ttcagctgta -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGCTGG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:110334959-110335039 5.5e-06 68_[+4]_4 chr5:43601757-43601837 5.5e-06 54_[+4]_18 chr5:139154860-139154940 9.6e-06 21_[+4]_51 chr19:45350916-45350996 9.6e-06 66_[+4]_6 chr5:10310813-10310893 1.7e-05 3_[+4]_69 chr1:109797478-109797558 1.7e-05 8_[+4]_64 chr6:157909213-157909293 2.8e-05 30_[+4]_42 chr11:111563247-11156332 2.8e-05 27_[+4]_45 chr1:26868408-26868488 2.8e-05 45_[+4]_27 chr2:27286216-27286296 2.8e-05 10_[+4]_62 chr1:40688257-40688337 2.8e-05 44_[+4]_28 chr1:155271494-155271574 3.6e-05 16_[+4]_56 chr19:44124458-44124538 3.6e-05 29_[+4]_43 chr16:30906451-30906531 4.3e-05 11_[+4]_61 chr7:107477768-107477848 4.3e-05 51_[+4]_21 chr7:106626773-106626853 6e-05 15_[+4]_57 chr9:139781950-139782030 6e-05 11_[+4]_61 chr18:23668635-23668715 8e-05 27_[+4]_45 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGCTGG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGGGCTGG width=8 seqs=18 chr1:110334959-110335039 ( 69) GGGGCTGG 1 chr5:43601757-43601837 ( 55) GGGGCTGG 1 chr5:139154860-139154940 ( 22) GGGGCGGG 1 chr19:45350916-45350996 ( 67) GGGGCGGG 1 chr5:10310813-10310893 ( 4) GAGGCTGG 1 chr1:109797478-109797558 ( 9) GAGGCTGG 1 chr6:157909213-157909293 ( 31) GAGGCGGG 1 chr11:111563247-11156332 ( 28) GAGGCGGG 1 chr1:26868408-26868488 ( 46) GGGGCAGG 1 chr2:27286216-27286296 ( 11) GAGGCGGG 1 chr1:40688257-40688337 ( 45) GGGGCAGG 1 chr1:155271494-155271574 ( 17) GGGGCTGT 1 chr19:44124458-44124538 ( 30) GGGGCTGT 1 chr16:30906451-30906531 ( 12) GGTGCTGG 1 chr7:107477768-107477848 ( 52) GGTGCTGG 1 chr7:106626773-106626853 ( 16) GGGCCTGG 1 chr9:139781950-139782030 ( 12) GGGGGTGG 1 chr18:23668635-23668715 ( 28) GGGGCTGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGCTGG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.8329 E= 1.5e+002 -1081 -1081 224 -1081 -5 -1081 177 -1081 -1081 -1081 207 -138 -1081 -192 215 -1081 -1081 216 -193 -1081 -137 -1081 39 108 -1081 -1081 224 -1081 -237 -1081 197 -138 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGCTGG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 18 E= 1.5e+002 0.000000 0.000000 1.000000 0.000000 0.277778 0.000000 0.722222 0.000000 0.000000 0.000000 0.888889 0.111111 0.000000 0.055556 0.944444 0.000000 0.000000 0.944444 0.055556 0.000000 0.111111 0.000000 0.277778 0.611111 0.000000 0.000000 1.000000 0.000000 0.055556 0.000000 0.833333 0.111111 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGCTGG MEME-4 regular expression -------------------------------------------------------------------------------- G[GA]GGC[TG]GG -------------------------------------------------------------------------------- Time 16.61 secs. ******************************************************************************** ******************************************************************************** MOTIF CAGCASTC MEME-5 width = 8 sites = 7 llr = 76 E-value = 2.1e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif CAGCASTC MEME-5 Description -------------------------------------------------------------------------------- Simplified A :a::a::: pos.-specific C a::a:6:a probability G ::a::4:: matrix T ::::::a: bits 2.2 * ** * 2.0 * ** * 1.8 ***** ** 1.6 ***** ** Relative 1.3 ******** Entropy 1.1 ******** (15.6 bits) 0.9 ******** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CAGCACTC consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCASTC MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr11:78139973-78140053 47 1.01e-05 ctatttgtct cagcactc atagaatcta chr4:89679596-89679676 28 1.01e-05 ATACACATAT CAGCACTC CCGGTGAGTC chr2:216636903-216636983 42 1.01e-05 CAGGACTTCC CAGCACTC AAAATTCACA chr7:150021640-150021720 46 1.01e-05 CCCTTCTGCA CAGCACTC CAGGACTTGC chr15:34947226-34947306 62 2.02e-05 AATATTATTC CAGCAGTC TCTAGTCTTT chr1:12555956-12556036 52 2.02e-05 ATCCTCTCGG CAGCAGTC GTCCAGCTTC chr18:9609183-9609263 35 2.02e-05 GGCTTGTTGG CAGCAGTC AAAACAGGCT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCASTC MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr11:78139973-78140053 1e-05 46_[+5]_26 chr4:89679596-89679676 1e-05 27_[+5]_45 chr2:216636903-216636983 1e-05 41_[+5]_31 chr7:150021640-150021720 1e-05 45_[+5]_27 chr15:34947226-34947306 2e-05 61_[+5]_11 chr1:12555956-12556036 2e-05 51_[+5]_21 chr18:9609183-9609263 2e-05 34_[+5]_38 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCASTC MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CAGCASTC width=8 seqs=7 chr11:78139973-78140053 ( 47) CAGCACTC 1 chr4:89679596-89679676 ( 28) CAGCACTC 1 chr2:216636903-216636983 ( 42) CAGCACTC 1 chr7:150021640-150021720 ( 46) CAGCACTC 1 chr15:34947226-34947306 ( 62) CAGCAGTC 1 chr1:12555956-12556036 ( 52) CAGCAGTC 1 chr18:9609183-9609263 ( 35) CAGCAGTC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCASTC MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.1915 E= 2.1e+004 -945 224 -945 -945 179 -945 -945 -945 -945 -945 224 -945 -945 224 -945 -945 179 -945 -945 -945 -945 144 101 -945 -945 -945 -945 179 -945 224 -945 -945 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCASTC MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 7 E= 2.1e+004 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 1.000000 0.000000 0.000000 0.000000 0.000000 0.571429 0.428571 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CAGCASTC MEME-5 regular expression -------------------------------------------------------------------------------- CAGCA[CG]TC -------------------------------------------------------------------------------- Time 20.31 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr12:51411388-51411468 7.05e-01 80 chr1:40688257-40688337 1.57e-04 44_[+4(2.82e-05)]_28 chr7:106691757-106691837 9.42e-01 80 chr1:234505329-234505409 1.47e-02 27_[+2(3.75e-05)]_45 chr5:53622052-53622132 5.52e-01 80 chr14:23474788-23474868 6.98e-01 80 chr5:95062045-95062125 9.82e-01 80 chr1:115298117-115298197 9.91e-01 80 chr9:127521202-127521282 8.67e-02 80 chr7:8171535-8171615 3.68e-01 80 chr1:32393386-32393466 5.24e-01 80 chr3:156167942-156168022 3.83e-01 80 chr10:70230369-70230449 4.65e-01 80 chr8:106340802-106340882 6.97e-01 80 chr7:127030651-127030731 9.73e-01 80 chr5:173277867-173277947 1.16e-01 80 chr7:150021640-150021720 8.58e-03 45_[+5(1.01e-05)]_27 chr1:28394003-28394083 6.54e-01 80 chr7:16299994-16300074 6.28e-01 80 chr2:189158739-189158819 6.06e-02 80 chr11:130183394-13018347 9.51e-01 80 chr1:167628265-167628345 2.37e-01 43_[+2(4.76e-05)]_29 chr7:2797394-2797474 1.63e-01 80 chr2:74801380-74801460 8.71e-01 80 chr7:149458618-149458698 3.87e-04 3_[+3(1.31e-05)]_60_[+2(9.70e-05)]_\ 1 chr6:26479401-26479481 1.98e-02 67_[+2(5.77e-05)]_5 chr7:96750531-96750611 8.40e-01 80 chr7:107477532-107477612 8.34e-01 80 chr9:139781950-139782030 1.59e-04 11_[+4(5.99e-05)]_36_[+1(7.53e-06)]_\ 17 chr2:216636903-216636983 4.74e-03 41_[+5(1.01e-05)]_31 chr12:116638821-11663890 8.56e-01 80 chr7:50350090-50350170 1.03e-02 15_[+2(5.38e-06)]_57 chr18:9609183-9609263 1.20e-03 13_[+2(7.15e-05)]_13_[+5(2.02e-05)]_\ 38 chr7:148547578-148547658 8.14e-01 80 chr18:3443068-3443148 1.03e-02 38_[+3(5.23e-05)]_34 chr7:7138099-7138179 2.76e-01 80 chr4:175342175-175342255 6.60e-01 80 chr11:47027107-47027187 2.63e-01 50_[+1(7.26e-05)]_22 chr2:191329847-191329927 4.75e-01 80 chr15:57209479-57209559 1.00e+00 80 chr6:31762090-31762170 6.01e-03 4_[+1(5.12e-05)]_68 chr17:74189456-74189536 9.44e-01 80 chr2:26298057-26298137 1.00e+00 80 chr1:145610412-145610492 9.96e-01 80 chr2:158126445-158126525 8.45e-01 80 chr10:75003519-75003599 5.49e-01 80 chr6:13396116-13396196 3.06e-03 80 chr13:22142035-22142115 2.97e-02 39_[+1(8.28e-05)]_33 chr1:207195019-207195099 8.18e-02 52_[+2(2.01e-05)]_20 chr15:40671998-40672078 1.10e-01 80 chr5:43601757-43601837 3.52e-05 54_[+4(5.54e-06)]_18 chr20:49140420-49140500 2.25e-01 9_[+2(4.76e-05)]_63 chr19:45350916-45350996 1.13e-05 61_[+4(9.60e-06)]_11 chr12:92734757-92734837 9.17e-01 80 chr7:107477768-107477848 4.11e-06 6_[+3(5.54e-06)]_21_[+2(7.15e-05)]_\ 8_[+4(4.32e-05)]_21 chr5:43301889-43301969 4.64e-01 80 chr22:38003300-38003380 2.99e-04 19_[+1(7.53e-06)]_53 chr10:62735971-62736051 8.09e-01 80 chr12:118798822-11879890 8.93e-01 80 chr1:109928115-109928195 8.17e-01 80 chr15:35459521-35459601 7.71e-01 80 chr7:106362792-106362872 9.12e-01 80 chr1:109797478-109797558 1.61e-04 8_[+4(1.71e-05)]_43_[+1(1.78e-05)]_\ 3_[+1(1.78e-05)]_2 chr2:55592466-55592546 9.53e-01 80 chr7:112092262-112092342 2.64e-03 60_[+2(4.76e-05)]_12 chr19:1204073-1204153 2.75e-01 80 chr18:23668635-23668715 2.19e-02 27_[+4(8.04e-05)]_45 chr7:127636640-127636720 1.09e-02 56_[+2(4.76e-05)]_16 chr1:26449130-26449210 4.16e-01 80 chr21:36257553-36257633 7.34e-02 80 chr5:77780510-77780590 1.75e-01 80 chr8:117718443-117718523 5.66e-01 80 chr1:166448208-166448288 7.99e-01 80 chr11:22850527-22850607 8.58e-01 80 chr7:158612529-158612609 1.00e+00 80 chr1:12555956-12556036 1.08e-02 51_[+5(2.02e-05)]_21 chr4:95469885-95469965 1.81e-01 80 chr8:92050479-92050559 6.42e-01 80 chr19:49838623-49838703 1.61e-05 14_[+3(4.47e-05)]_[+2(9.70e-05)]_50 chr1:7891630-7891710 4.90e-01 80 chr5:112069973-112070053 9.58e-01 80 chr6:35619271-35619351 3.19e-01 80 chr6:27518393-27518473 9.96e-01 80 chr7:116727014-116727094 6.59e-02 80 chr8:130329472-130329552 4.59e-01 80 chr12:28296723-28296803 9.55e-01 80 chr15:64134496-64134576 7.25e-01 80 chr1:47704976-47705056 1.52e-04 31_[+3(5.54e-06)]_15_[+2(4.76e-05)]_\ 18 chr8:95999952-96000032 9.13e-01 80 chr3:160111628-160111708 9.91e-01 80 chr12:116634709-11663478 9.96e-01 80 chr5:137331321-137331401 6.28e-01 80 chr7:92677019-92677099 3.59e-01 80 chr6:147202648-147202728 5.08e-01 80 chr9:127529276-127529356 4.97e-01 80 chr6:108886783-108886863 6.36e-01 80 chr12:12369452-12369532 7.12e-03 7_[+3(3.72e-05)]_65 chr5:40791834-40791914 6.38e-01 80 chr8:56684236-56684316 1.00e+00 80 chr5:139154860-139154940 1.79e-05 8_[+3(9.62e-05)]_5_[+4(9.60e-06)]_\ 21_[+1(7.53e-06)]_22 chr3:186667162-186667242 2.61e-02 80 chr1:51953780-51953860 1.00e+00 80 chr3:20080290-20080370 2.16e-01 80 chr4:170526392-170526472 9.36e-01 80 chr5:40799464-40799544 4.44e-01 80 chr7:106669595-106669675 2.87e-01 80 chr7:131014053-131014133 5.13e-01 80 chr1:180991085-180991165 1.08e-01 80 chr18:1050673-1050753 1.04e-04 24_[+3(5.54e-06)]_48 chr7:158651029-158651109 3.12e-01 80 chr4:81046568-81046648 3.84e-02 80 chr17:78414983-78415063 8.53e-03 80 chr5:94984399-94984479 1.29e-01 80 chr6:13987123-13987203 8.54e-01 80 chr9:113133422-113133502 6.89e-01 80 chr1:178996861-178996941 8.13e-01 80 chr15:68013011-68013091 2.30e-01 80 chr2:100102081-100102161 9.28e-01 80 chr7:92892005-92892085 7.74e-03 80 chr6:168236225-168236305 7.94e-01 80 chr1:110473871-110473951 2.27e-03 29_[+3(2.61e-05)]_43 chr7:148401888-148401968 9.27e-01 80 chr8:38226078-38226158 9.98e-01 80 chr11:95718564-95718644 9.97e-01 80 chr8:91095019-91095099 1.21e-04 7_[+1(7.53e-06)]_65 chr18:9575676-9575756 9.20e-01 80 chr1:109126900-109126980 9.52e-01 80 chr18:9104721-9104801 4.55e-01 80 chr1:155271295-155271375 8.65e-03 24_[+2(5.38e-06)]_14_[+2(9.16e-05)]_\ 26 chr1:213434146-213434226 3.60e-01 80 chr17:47372149-47372229 4.34e-01 80 chr22:22464354-22464434 2.88e-02 13_[+2(3.75e-05)]_59 chr8:100103592-100103672 4.12e-02 80 chr22:40298541-40298621 9.75e-01 80 chr16:47500284-47500364 7.18e-01 80 chr5:53588805-53588885 7.69e-02 80 chr22:23053401-23053481 4.28e-05 30_[+3(1.86e-05)]_24_[+1(2.53e-05)]_\ 10 chr1:171710053-171710133 1.00e+00 80 chr6:135626235-135626315 2.87e-01 80 chr7:106719717-106719797 9.75e-01 80 chr1:41446328-41446408 2.48e-01 80 chr7:106593060-106593140 1.89e-01 80 chr7:30387843-30387923 1.53e-01 80 chr7:120640713-120640793 6.26e-02 80 chr6:15736690-15736770 1.86e-03 37_[+1(5.87e-05)]_35 chr7:101723188-101723268 1.36e-01 80 chr3:151922038-151922118 9.71e-01 80 chr2:17892337-17892417 1.36e-02 50_[+1(1.78e-05)]_22 chr12:51005069-51005149 3.91e-01 80 chr8:56832100-56832180 8.05e-01 80 chr10:94732211-94732291 7.64e-01 80 chr1:12501687-12501767 7.83e-02 80 chr6:157340491-157340571 3.50e-01 80 chr15:91161361-91161441 1.00e+00 80 chr3:141766102-141766182 2.34e-01 80 chr10:28971071-28971151 1.10e-02 80 chr1:114402173-114402253 6.92e-01 80 chr10:35418341-35418421 9.29e-01 80 chr19:11202714-11202794 2.08e-01 80 chr4:99918845-99918925 8.38e-01 80 chr2:172015046-172015126 6.34e-01 80 chr16:30906451-30906531 2.14e-01 11_[+4(4.32e-05)]_61 chr3:150481797-150481877 1.59e-02 80 chr1:115054791-115054871 4.05e-03 65_[+4(8.04e-05)]_7 chr5:81149821-81149901 6.68e-02 46_[+3(2.61e-05)]_26 chr7:120647173-120647253 1.15e-03 24_[+1(1.78e-05)]_48 chr19:47349526-47349606 9.07e-03 80 chr15:77914883-77914963 3.72e-02 31_[+2(1.28e-05)]_41 chr3:154733084-154733164 5.21e-01 80 chr1:226593873-226593953 9.79e-01 80 chr3:171171132-171171212 3.72e-05 33_[+3(1.31e-05)]_10_[+1(7.26e-05)]_\ 21 chr7:158496200-158496280 9.94e-01 80 chr1:110334959-110335039 1.23e-03 68_[+4(5.54e-06)]_4 chr11:78026205-78026285 8.90e-01 80 chr2:39348618-39348698 9.15e-01 80 chr22:21211775-21211855 8.16e-02 38_[+2(7.15e-05)]_34 chr4:89679596-89679676 1.02e-04 27_[+5(1.01e-05)]_45 chr1:174934768-174934848 5.15e-03 80 chr1:95635285-95635365 2.82e-01 80 chr19:44124458-44124538 3.32e-03 29_[+4(3.57e-05)]_43 chr6:36928196-36928276 8.57e-01 80 chr6:13987420-13987500 1.07e-01 52_[+2(9.16e-05)]_20 chr7:75293134-75293214 2.04e-01 80 chr7:106666464-106666544 9.48e-01 80 chr5:10310813-10310893 8.50e-03 3_[+4(1.71e-05)]_69 chr3:183271511-183271591 1.94e-01 80 chr2:27286216-27286296 4.55e-02 10_[+4(2.82e-05)]_62 chr4:186278958-186279038 5.73e-01 80 chr6:126267589-126267669 1.91e-03 58_[+1(7.53e-06)]_14 chr5:65277482-65277562 8.01e-02 42_[+2(3.75e-05)]_30 chr6:146133261-146133341 7.81e-01 80 chr19:45901539-45901619 1.42e-04 69_[+1(7.53e-06)]_3 chr10:49597327-49597407 1.11e-01 80 chr14:31508003-31508083 3.95e-01 80 chr2:196478886-196478966 1.43e-01 80 chr15:34947226-34947306 1.44e-01 61_[+5(2.02e-05)]_11 chr9:94707701-94707781 1.12e-01 80 chr2:187792863-187792943 7.47e-01 80 chr3:25645866-25645946 3.01e-02 29_[+2(2.01e-05)]_43 chr4:83807670-83807750 5.69e-01 80 chr9:133557739-133557819 1.46e-02 80 chr11:111913610-11191369 8.05e-01 80 chr22:21364049-21364129 3.73e-02 80 chr1:113753047-113753127 6.21e-03 80 chr4:140187625-140187705 9.49e-01 80 chr14:34459458-34459538 1.50e-01 80 chr1:101536831-101536911 9.38e-01 80 chr4:140006627-140006707 8.58e-01 80 chr2:171217840-171217920 3.09e-01 80 chr12:32193266-32193346 5.55e-02 80 chr5:39177123-39177203 7.00e-01 80 chr11:78061402-78061482 6.63e-02 1_[+2(4.76e-05)]_71 chr16:75025455-75025535 1.04e-01 80 chr20:39715057-39715137 5.08e-01 80 chr9:131059255-131059335 1.21e-01 80 chr6:84980280-84980360 1.38e-01 22_[+1(3.55e-05)]_50 chr1:202135514-202135594 9.62e-02 80 chr8:103553957-103554037 4.79e-01 80 chr3:47159447-47159527 8.96e-01 80 chr3:43814858-43814938 1.45e-02 13_[+1(4.10e-05)]_59 chr19:48948652-48948732 3.81e-02 80 chr11:78139973-78140053 3.28e-05 22_[+1(2.53e-05)]_16_[+5(1.01e-05)]_\ 26 chr11:18346088-18346168 9.57e-01 80 chr1:26868408-26868488 7.17e-04 6_[+1(8.28e-05)]_31_[+4(2.82e-05)]_\ 27 chr18:33262554-33262634 8.45e-01 80 chr12:127393619-12739369 3.84e-01 80 chr6:37173644-37173724 5.98e-01 80 chr11:111563247-11156332 2.83e-03 27_[+4(2.82e-05)]_45 chr1:32389901-32389981 2.34e-02 64_[+2(5.38e-06)]_8 chr3:42856806-42856886 1.38e-01 80 chr1:184737862-184737942 6.94e-01 80 chr5:121461927-121462007 3.75e-04 34_[+3(5.54e-06)]_38 chr3:140672013-140672093 9.99e-01 80 chr7:148418149-148418229 8.93e-01 80 chr6:157909213-157909293 3.10e-02 30_[+4(2.82e-05)]_42 chr1:54841667-54841747 1.19e-06 12_[+1(7.53e-06)]_60 chr1:172420304-172420384 1.55e-01 80 chr12:112179048-11217912 9.31e-01 80 chr1:155271494-155271574 1.17e-05 16_[+4(3.57e-05)]_5_[+4(5.54e-06)]_\ 43 chr10:52035583-52035663 1.18e-01 80 chr7:106626773-106626853 5.43e-03 15_[+4(5.99e-05)]_3_[+1(7.26e-05)]_\ 46 chr6:147217424-147217504 3.28e-01 80 chr18:814644-814724 5.97e-01 80 chr12:80326898-80326978 9.62e-01 80 chr19:6066171-6066251 9.04e-01 80 chr20:52355706-52355786 1.00e+00 80 chr7:112727659-112727739 9.18e-01 80 chrX:117638034-117638114 4.63e-02 70_[+2(9.70e-05)]_2 chr1:227486706-227486786 5.76e-01 80 chr9:111873598-111873678 3.23e-01 80 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c22n09.farnam.hpc.yale.internal ********************************************************************************