******************************************************************************** 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/SRSF7.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr22:23359453-23359533 1.0000 80 chr13:91622737-91622817 1.0000 80 chr22:21311455-21311535 1.0000 80 chr13:93255166-93255246 1.0000 80 chr2:91670023-91670103 1.0000 80 chr5:137802127-137802207 1.0000 80 chr8:99076972-99077052 1.0000 80 chr21:11118372-11118452 1.0000 80 chr1:1168493-1168573 1.0000 80 chr12:125161347-12516142 1.0000 80 chr3:45187574-45187654 1.0000 80 chr22:21212772-21212852 1.0000 80 chr7:117107671-117107751 1.0000 80 chr19:33183311-33183391 1.0000 80 chr22:21272014-21272094 1.0000 80 chr19:16738673-16738753 1.0000 80 chr2:170896132-170896212 1.0000 80 chr11:910616-910696 1.0000 80 chr12:46663004-46663084 1.0000 80 chr8:82754692-82754772 1.0000 80 chr22:21311660-21311740 1.0000 80 chrX:136520475-136520555 1.0000 80 chr19:47933562-47933642 1.0000 80 chr16:3019754-3019834 1.0000 80 chr9:140197291-140197371 1.0000 80 chr13:92119622-92119702 1.0000 80 chr22:17090531-17090611 1.0000 80 chr21:46495100-46495180 1.0000 80 chr10:17271412-17271492 1.0000 80 chr7:154795441-154795521 1.0000 80 chr19:13264623-13264703 1.0000 80 chr19:16682774-16682854 1.0000 80 chr17:54911635-54911715 1.0000 80 chr1:45266350-45266430 1.0000 80 chr22:23092707-23092787 1.0000 80 chr7:5569227-5569307 1.0000 80 chr22:21922225-21922305 1.0000 80 chr19:47729847-47729927 1.0000 80 chr1:117452694-117452774 1.0000 80 chr7:110035299-110035379 1.0000 80 chr17:39845218-39845298 1.0000 80 chr7:5570131-5570211 1.0000 80 chr10:22610285-22610365 1.0000 80 chr22:20785300-20785380 1.0000 80 chr11:859318-859398 1.0000 80 chr6:34359991-34360071 1.0000 80 chr20:48807456-48807536 1.0000 80 chr1:109643109-109643189 1.0000 80 chr15:74658124-74658204 1.0000 80 chr2:32582521-32582601 1.0000 80 chr1:182360708-182360788 1.0000 80 chr17:79479716-79479796 1.0000 80 chr1:39956823-39956903 1.0000 80 chr2:133015380-133015460 1.0000 80 chr22:19419977-19420057 1.0000 80 chr9:77567509-77567589 1.0000 80 chr22:22925104-22925184 1.0000 80 chr1:111713629-111713709 1.0000 80 chr11:63754218-63754298 1.0000 80 chr16:85690207-85690287 1.0000 80 chr16:31191488-31191568 1.0000 80 chr18:23806711-23806791 1.0000 80 chr17:73775597-73775677 1.0000 80 chr2:170805870-170805950 1.0000 80 chr22:20779800-20779880 1.0000 80 chr6:2903440-2903520 1.0000 80 chr8:80677672-80677752 1.0000 80 chr10:63422594-63422674 1.0000 80 chr16:28834857-28834937 1.0000 80 chr21:44299294-44299374 1.0000 80 chr1:212782170-212782250 1.0000 80 chr21:38739366-38739446 1.0000 80 chr22:20748641-20748721 1.0000 80 chr9:95821011-95821091 1.0000 80 chr1:45196467-45196547 1.0000 80 chr22:22454353-22454433 1.0000 80 chr11:118965857-11896593 1.0000 80 chr2:74426088-74426168 1.0000 80 chr21:46494285-46494365 1.0000 80 chr1:90098930-90099010 1.0000 80 chr9:130953834-130953914 1.0000 80 chr11:65625060-65625140 1.0000 80 chr22:19754024-19754104 1.0000 80 chr13:93230705-93230785 1.0000 80 chr3:51422770-51422850 1.0000 80 chr1:45271885-45271965 1.0000 80 chr22:20286736-20286816 1.0000 80 chr10:103590542-10359062 1.0000 80 chr11:118965278-11896535 1.0000 80 chr10:5854952-5855032 1.0000 80 chr5:177631682-177631762 1.0000 80 chr6:37138285-37138365 1.0000 80 chr17:79486346-79486426 1.0000 80 chr6:150464749-150464829 1.0000 80 chr14:105458436-10545851 1.0000 80 chr18:23806944-23807024 1.0000 80 chr20:47935037-47935117 1.0000 80 chr7:149321898-149321978 1.0000 80 chr6:167368763-167368843 1.0000 80 chr2:85132852-85132932 1.0000 80 chr9:139872403-139872483 1.0000 80 chr20:44563423-44563503 1.0000 80 chr6:16760306-16760386 1.0000 80 chr1:32801517-32801597 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_SRSF7/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/K562/fasta/RankLinear0.6_40/SRSF7.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= 104 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= 8320 N= 104 sample: seed= 0 hsfrac= 0 searchsize= 8320 norand= no csites= 1000 Letter frequencies in dataset: A 0.159 C 0.341 G 0.353 T 0.147 Background letter frequencies (from file dataset with add-one prior applied): A 0.159 C 0.341 G 0.353 T 0.147 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF TWAWWATW MEME-1 width = 8 sites = 11 llr = 115 E-value = 1.4e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif TWAWWATW MEME-1 Description -------------------------------------------------------------------------------- Simplified A :5a649:5 pos.-specific C 1:::::11 probability G :::::::2 matrix T 95:46193 bits 2.8 * 2.5 * 2.2 * * ** 1.9 * * ** Relative 1.7 ******* Entropy 1.4 ******* (15.1 bits) 1.1 ******* 0.8 ******* 0.6 ******** 0.3 ******** 0.0 -------- Multilevel TTAATATA consensus A TA T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TWAWWATW MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2:170805870-170805950 71 6.21e-07 TGAGTGGGAT TAAATATA TT chr7:117107671-117107751 22 8.97e-07 TAGCCAGTAG TTAATATT ACCTTGCAAG chr1:45196467-45196547 2 1.50e-06 a ttaaaata caaaaactaa chr2:170896132-170896212 3 1.79e-06 ag taaatatt tgctgaatga chr1:111713629-111713709 51 3.89e-06 GGAAAGACAT TAAAAATT TGTGGGAGAG chr13:92119622-92119702 53 7.06e-06 TTCCTTGCGA TTAATTTA ATTTCCTGAG chr13:91622737-91622817 16 7.06e-06 tctctcgctt ttattatg atttccacat chr13:93230705-93230785 14 9.38e-06 ttggctcacc taattatg gagactgaga chr21:11118372-11118452 38 1.74e-05 ttttatggtc ttaataca ttcctactta chr22:22454353-22454433 48 2.14e-05 tgactcatgc ttataatc acaatacttt chr7:110035299-110035379 59 4.27e-05 AGAGCTTTCA CAATAATA CCTAAAATCT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TWAWWATW MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2:170805870-170805950 6.2e-07 70_[+1]_2 chr7:117107671-117107751 9e-07 21_[+1]_51 chr1:45196467-45196547 1.5e-06 1_[+1]_71 chr2:170896132-170896212 1.8e-06 2_[+1]_70 chr1:111713629-111713709 3.9e-06 50_[+1]_22 chr13:92119622-92119702 7.1e-06 52_[+1]_20 chr13:91622737-91622817 7.1e-06 15_[+1]_57 chr13:93230705-93230785 9.4e-06 13_[+1]_59 chr21:11118372-11118452 1.7e-05 37_[+1]_35 chr22:22454353-22454433 2.1e-05 47_[+1]_25 chr7:110035299-110035379 4.3e-05 58_[+1]_14 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TWAWWATW MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TWAWWATW width=8 seqs=11 chr2:170805870-170805950 ( 71) TAAATATA 1 chr7:117107671-117107751 ( 22) TTAATATT 1 chr1:45196467-45196547 ( 2) TTAAAATA 1 chr2:170896132-170896212 ( 3) TAAATATT 1 chr1:111713629-111713709 ( 51) TAAAAATT 1 chr13:92119622-92119702 ( 53) TTAATTTA 1 chr13:91622737-91622817 ( 16) TTATTATG 1 chr13:93230705-93230785 ( 14) TAATTATG 1 chr21:11118372-11118452 ( 38) TTAATACA 1 chr22:22454353-22454433 ( 48) TTATAATC 1 chr7:110035299-110035379 ( 59) CAATAATA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TWAWWATW MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 7592 bayes= 10.9635 E= 1.4e-004 -1010 -190 -1010 263 151 -1010 -1010 189 265 -1010 -1010 -1010 200 -1010 -1010 131 119 -1010 -1010 211 251 -1010 -1010 -69 -1010 -190 -1010 263 151 -190 -96 89 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TWAWWATW MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 11 E= 1.4e-004 0.000000 0.090909 0.000000 0.909091 0.454545 0.000000 0.000000 0.545455 1.000000 0.000000 0.000000 0.000000 0.636364 0.000000 0.000000 0.363636 0.363636 0.000000 0.000000 0.636364 0.909091 0.000000 0.000000 0.090909 0.000000 0.090909 0.000000 0.909091 0.454545 0.090909 0.181818 0.272727 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TWAWWATW MEME-1 regular expression -------------------------------------------------------------------------------- T[TA]A[AT][TA]AT[AT] -------------------------------------------------------------------------------- Time 1.21 secs. ******************************************************************************** ******************************************************************************** MOTIF AAKWSHTT MEME-2 width = 8 sites = 9 llr = 92 E-value = 1.3e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif AAKWSHTT MEME-2 Description -------------------------------------------------------------------------------- Simplified A aa:724:: pos.-specific C ::::33:: probability G ::6:4::: matrix T ::43:2aa bits 2.8 ** ** 2.5 ** ** 2.2 ** ** 1.9 ** ** Relative 1.7 ** * ** Entropy 1.4 ** * ** (14.7 bits) 1.1 **** ** 0.8 **** *** 0.6 **** *** 0.3 ******** 0.0 -------- Multilevel AAGAGATT consensus TTCC sequence AT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAKWSHTT MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr1:111713629-111713709 16 1.04e-06 GTAGAAGAAC AATAGATT GTTTCTGATT chr21:11118372-11118452 21 6.15e-06 tacaaaatta aagagatt tttatggtct chr13:93255166-93255246 55 6.15e-06 cacaggacaa aattgatt cctccggtaa chr22:22454353-22454433 58 6.79e-06 ttataatcac aatacttt gggaggttga chr13:91622737-91622817 62 9.78e-06 ttgaaaacaa aagacatt attctattgg chr2:170896132-170896212 42 1.23e-05 AAAAGAGTTG AAGAATTT TGTTCATCCC chr7:110035299-110035379 48 2.94e-05 AATGCCTCCC AAGAGCTT TCACAATAAT chr13:92119622-92119702 41 3.65e-05 GGAGACATGC AATTCCTT GCGATTAATT chr19:16682774-16682854 40 3.94e-05 CACGGACGCG AAGTACTT GCCGAAGGCG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAKWSHTT MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:111713629-111713709 1e-06 15_[+2]_57 chr21:11118372-11118452 6.1e-06 20_[+2]_52 chr13:93255166-93255246 6.1e-06 54_[+2]_18 chr22:22454353-22454433 6.8e-06 57_[+2]_15 chr13:91622737-91622817 9.8e-06 61_[+2]_11 chr2:170896132-170896212 1.2e-05 41_[+2]_31 chr7:110035299-110035379 2.9e-05 47_[+2]_25 chr13:92119622-92119702 3.6e-05 40_[+2]_32 chr19:16682774-16682854 3.9e-05 39_[+2]_33 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAKWSHTT MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF AAKWSHTT width=8 seqs=9 chr1:111713629-111713709 ( 16) AATAGATT 1 chr21:11118372-11118452 ( 21) AAGAGATT 1 chr13:93255166-93255246 ( 55) AATTGATT 1 chr22:22454353-22454433 ( 58) AATACTTT 1 chr13:91622737-91622817 ( 62) AAGACATT 1 chr2:170896132-170896212 ( 42) AAGAATTT 1 chr7:110035299-110035379 ( 48) AAGAGCTT 1 chr13:92119622-92119702 ( 41) AATTCCTT 1 chr19:16682774-16682854 ( 40) AAGTACTT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAKWSHTT MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 7592 bayes= 9.85308 E= 1.3e+001 265 -982 -982 -982 265 -982 -982 -982 -982 -982 65 159 207 -982 -982 118 48 -3 33 -982 148 -3 -982 60 -982 -982 -982 276 -982 -982 -982 276 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAKWSHTT MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 9 E= 1.3e+001 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.555556 0.444444 0.666667 0.000000 0.000000 0.333333 0.222222 0.333333 0.444444 0.000000 0.444444 0.333333 0.000000 0.222222 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAKWSHTT MEME-2 regular expression -------------------------------------------------------------------------------- AA[GT][AT][GCA][ACT]TT -------------------------------------------------------------------------------- Time 2.31 secs. ******************************************************************************** ******************************************************************************** MOTIF TGMTKAMT MEME-3 width = 8 sites = 7 llr = 73 E-value = 4.2e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGMTKAMT MEME-3 Description -------------------------------------------------------------------------------- Simplified A :16::a6: pos.-specific C ::4:::4: probability G :7::6::: matrix T a1:a4::a bits 2.8 * * * * 2.5 * * * * 2.2 * * * * 1.9 * * * * Relative 1.7 * * * * Entropy 1.4 * * * * (15.1 bits) 1.1 * ****** 0.8 ******** 0.6 ******** 0.3 ******** 0.0 -------- Multilevel TGATGAAT consensus C T C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGMTKAMT MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr1:111713629-111713709 70 6.63e-07 GTGGGAGAGA TGATTAAT GTG chr1:109643109-109643189 55 2.25e-06 CGCTCAGAAG TGATGAAT TGATCAGATA chr7:117107671-117107751 51 2.25e-06 TTGGTATGGT TGATGAAT TGCATCCTGT chr2:170896132-170896212 11 1.39e-05 agtaaatatt tgctgaat gaTCGAGCCT chr2:170805870-170805950 43 1.51e-05 GATCTCCTCC TTATTACT GTTTCTAGAT chr22:22454353-22454433 35 3.26e-05 GTgccaggtg tgctgact catgcttata chr21:11118372-11118452 50 3.53e-05 aatacattcc tacttact tctcatgagc -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGMTKAMT MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:111713629-111713709 6.6e-07 69_[+3]_3 chr1:109643109-109643189 2.3e-06 54_[+3]_18 chr7:117107671-117107751 2.3e-06 50_[+3]_22 chr2:170896132-170896212 1.4e-05 10_[+3]_62 chr2:170805870-170805950 1.5e-05 42_[+3]_30 chr22:22454353-22454433 3.3e-05 34_[+3]_38 chr21:11118372-11118452 3.5e-05 49_[+3]_23 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGMTKAMT MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TGMTKAMT width=8 seqs=7 chr1:111713629-111713709 ( 70) TGATTAAT 1 chr1:109643109-109643189 ( 55) TGATGAAT 1 chr7:117107671-117107751 ( 51) TGATGAAT 1 chr2:170896132-170896212 ( 11) TGCTGAAT 1 chr2:170805870-170805950 ( 43) TTATTACT 1 chr22:22454353-22454433 ( 35) TGCTGACT 1 chr21:11118372-11118452 ( 50) TACTTACT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGMTKAMT MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 7592 bayes= 10.6878 E= 4.2e+002 -945 -945 -945 276 -15 -945 102 -4 184 33 -945 -945 -945 -945 -945 276 -945 -945 69 154 265 -945 -945 -945 184 33 -945 -945 -945 -945 -945 276 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGMTKAMT MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 7 E= 4.2e+002 0.000000 0.000000 0.000000 1.000000 0.142857 0.000000 0.714286 0.142857 0.571429 0.428571 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.571429 0.428571 1.000000 0.000000 0.000000 0.000000 0.571429 0.428571 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGMTKAMT MEME-3 regular expression -------------------------------------------------------------------------------- TG[AC]T[GT]A[AC]T -------------------------------------------------------------------------------- Time 3.40 secs. ******************************************************************************** ******************************************************************************** MOTIF TAMTAAAW MEME-4 width = 8 sites = 4 llr = 46 E-value = 4.5e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif TAMTAAAW MEME-4 Description -------------------------------------------------------------------------------- Simplified A :853aa85 pos.-specific C ::5::::: probability G :::::::: matrix T a3:8::35 bits 2.8 * ** 2.5 * ** 2.2 * ** 1.9 ** **** Relative 1.7 ** ***** Entropy 1.4 ** ***** (16.5 bits) 1.1 ******** 0.8 ******** 0.6 ******** 0.3 ******** 0.0 -------- Multilevel TAATAAAA consensus TCA TT sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAMTAAAW MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2:170896132-170896212 28 6.72e-07 tgaTCGAGCC TAATAAAA GAGTTGAAGA chr7:117107671-117107751 69 2.71e-06 TGCATCCTGT TAATAATT GCTA chr22:22454353-22454433 3 7.50e-06 AT TTCTAAAA CCGTAAGTTC chr21:11118372-11118452 11 7.50e-06 ttcacttttt tacaaaat taaagagatt -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAMTAAAW MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2:170896132-170896212 6.7e-07 27_[+4]_45 chr7:117107671-117107751 2.7e-06 68_[+4]_4 chr22:22454353-22454433 7.5e-06 2_[+4]_70 chr21:11118372-11118452 7.5e-06 10_[+4]_62 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAMTAAAW MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TAMTAAAW width=8 seqs=4 chr2:170896132-170896212 ( 28) TAATAAAA 1 chr7:117107671-117107751 ( 69) TAATAATT 1 chr22:22454353-22454433 ( 3) TTCTAAAA 1 chr21:11118372-11118452 ( 11) TACAAAAT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAMTAAAW MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 7592 bayes= 11.6268 E= 4.5e+002 -865 -865 -865 276 223 -865 -865 76 165 55 -865 -865 65 -865 -865 235 265 -865 -865 -865 265 -865 -865 -865 223 -865 -865 76 165 -865 -865 176 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAMTAAAW MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 4 E= 4.5e+002 0.000000 0.000000 0.000000 1.000000 0.750000 0.000000 0.000000 0.250000 0.500000 0.500000 0.000000 0.000000 0.250000 0.000000 0.000000 0.750000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.750000 0.000000 0.000000 0.250000 0.500000 0.000000 0.000000 0.500000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TAMTAAAW MEME-4 regular expression -------------------------------------------------------------------------------- T[AT][AC][TA]AA[AT][AT] -------------------------------------------------------------------------------- Time 4.48 secs. ******************************************************************************** ******************************************************************************** MOTIF TTSACTTT MEME-5 width = 8 sites = 2 llr = 26 E-value = 1.8e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif TTSACTTT MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::a:::: pos.-specific C ::5:a::: probability G ::5::::: matrix T aa:::aaa bits 2.8 ** * *** 2.5 ** * *** 2.2 ** * *** 1.9 ** * *** Relative 1.7 ** ***** Entropy 1.4 ** ***** (18.6 bits) 1.1 ** ***** 0.8 ** ***** 0.6 ******** 0.3 ******** 0.0 -------- Multilevel TTCACTTT consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTSACTTT MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr21:11118372-11118452 1 1.27e-06 . ttcacttt tttacaaaat chr13:91622737-91622817 46 2.58e-06 ctctagtata ttgacttt gaaaacaaaa -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTSACTTT MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr21:11118372-11118452 1.3e-06 [+5]_72 chr13:91622737-91622817 2.6e-06 45_[+5]_27 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTSACTTT MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TTSACTTT width=8 seqs=2 chr21:11118372-11118452 ( 1) TTCACTTT 1 chr13:91622737-91622817 ( 46) TTGACTTT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTSACTTT MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 7592 bayes= 11.8899 E= 1.8e+003 -765 -765 -765 276 -765 -765 -765 276 -765 55 50 -765 265 -765 -765 -765 -765 155 -765 -765 -765 -765 -765 276 -765 -765 -765 276 -765 -765 -765 276 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTSACTTT MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 1.8e+003 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.500000 0.500000 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 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTSACTTT MEME-5 regular expression -------------------------------------------------------------------------------- TT[CG]ACTTT -------------------------------------------------------------------------------- Time 5.54 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr22:23359453-23359533 1.00e+00 80 chr13:91622737-91622817 7.57e-10 15_[+1(7.06e-06)]_22_[+5(2.58e-06)]_\ 8_[+2(9.78e-06)]_11 chr22:21311455-21311535 9.32e-01 80 chr13:93255166-93255246 5.17e-06 54_[+2(6.15e-06)]_18 chr2:91670023-91670103 4.82e-01 80 chr5:137802127-137802207 9.65e-01 80 chr8:99076972-99077052 6.20e-01 80 chr21:11118372-11118452 2.12e-12 [+5(1.27e-06)]_2_[+4(7.50e-06)]_2_\ [+2(6.15e-06)]_11_[+2(1.73e-06)]_2_[+3(3.53e-05)]_23 chr1:1168493-1168573 9.38e-01 80 chr12:125161347-12516142 9.95e-01 80 chr3:45187574-45187654 9.99e-01 80 chr22:21212772-21212852 9.89e-01 80 chr7:117107671-117107751 2.08e-10 21_[+1(8.97e-07)]_21_[+3(2.25e-06)]_\ 10_[+4(2.71e-06)]_4 chr19:33183311-33183391 1.00e+00 80 chr22:21272014-21272094 7.76e-01 80 chr19:16738673-16738753 1.03e-01 80 chr2:170896132-170896212 1.06e-10 2_[+1(1.79e-06)]_[+3(1.39e-05)]_9_\ [+4(6.72e-07)]_6_[+2(1.23e-05)]_31 chr11:910616-910696 8.33e-01 80 chr12:46663004-46663084 9.95e-01 80 chr8:82754692-82754772 8.12e-01 80 chr22:21311660-21311740 5.91e-02 80 chrX:136520475-136520555 2.13e-01 80 chr19:47933562-47933642 7.56e-01 80 chr16:3019754-3019834 5.21e-01 80 chr9:140197291-140197371 6.09e-01 80 chr13:92119622-92119702 8.93e-08 40_[+2(3.65e-05)]_4_[+1(7.06e-06)]_\ 20 chr22:17090531-17090611 1.84e-02 80 chr21:46495100-46495180 9.09e-01 80 chr10:17271412-17271492 9.98e-01 80 chr7:154795441-154795521 9.99e-01 80 chr19:13264623-13264703 6.89e-01 80 chr19:16682774-16682854 1.24e-02 39_[+2(3.94e-05)]_33 chr17:54911635-54911715 1.00e+00 80 chr1:45266350-45266430 8.31e-01 80 chr22:23092707-23092787 2.77e-01 80 chr7:5569227-5569307 7.63e-01 80 chr22:21922225-21922305 1.00e+00 80 chr19:47729847-47729927 9.89e-01 80 chr1:117452694-117452774 9.92e-01 80 chr7:110035299-110035379 1.35e-05 47_[+2(2.94e-05)]_3_[+1(4.27e-05)]_\ 1_[+1(9.58e-05)]_5 chr17:39845218-39845298 6.36e-01 80 chr7:5570131-5570211 9.90e-01 80 chr10:22610285-22610365 1.00e+00 80 chr22:20785300-20785380 5.91e-01 80 chr11:859318-859398 9.83e-01 80 chr6:34359991-34360071 7.77e-01 80 chr20:48807456-48807536 1.00e+00 80 chr1:109643109-109643189 9.57e-05 54_[+3(2.25e-06)]_18 chr15:74658124-74658204 9.48e-01 80 chr2:32582521-32582601 5.17e-01 80 chr1:182360708-182360788 2.77e-01 80 chr17:79479716-79479796 9.76e-01 80 chr1:39956823-39956903 1.00e+00 80 chr2:133015380-133015460 9.10e-01 80 chr22:19419977-19420057 9.99e-01 80 chr9:77567509-77567589 9.44e-01 80 chr22:22925104-22925184 2.81e-01 80 chr1:111713629-111713709 1.68e-12 15_[+2(1.04e-06)]_27_[+1(3.89e-06)]_\ 11_[+3(6.63e-07)]_3 chr11:63754218-63754298 9.89e-01 80 chr16:85690207-85690287 9.89e-01 80 chr16:31191488-31191568 3.96e-02 80 chr18:23806711-23806791 1.97e-01 80 chr17:73775597-73775677 1.00e+00 80 chr2:170805870-170805950 1.01e-08 42_[+3(1.51e-05)]_20_[+1(6.21e-07)]_\ 2 chr22:20779800-20779880 1.64e-01 54_[+5(5.92e-05)]_18 chr6:2903440-2903520 1.00e+00 80 chr8:80677672-80677752 9.96e-01 80 chr10:63422594-63422674 1.00e+00 80 chr16:28834857-28834937 1.00e+00 80 chr21:44299294-44299374 1.00e+00 80 chr1:212782170-212782250 6.67e-01 80 chr21:38739366-38739446 9.92e-01 80 chr22:20748641-20748721 1.00e+00 80 chr9:95821011-95821091 1.00e+00 80 chr1:45196467-45196547 2.23e-05 1_[+1(1.50e-06)]_71 chr22:22454353-22454433 5.48e-09 2_[+4(7.50e-06)]_24_[+3(3.26e-05)]_\ 5_[+1(2.14e-05)]_2_[+2(6.79e-06)]_15 chr11:118965857-11896593 2.12e-01 80 chr2:74426088-74426168 1.00e+00 80 chr21:46494285-46494365 1.00e+00 80 chr1:90098930-90099010 7.71e-01 80 chr9:130953834-130953914 9.48e-01 80 chr11:65625060-65625140 1.00e+00 80 chr22:19754024-19754104 9.36e-01 80 chr13:93230705-93230785 1.05e-03 13_[+1(9.38e-06)]_59 chr3:51422770-51422850 9.87e-01 80 chr1:45271885-45271965 1.00e+00 80 chr22:20286736-20286816 1.00e+00 80 chr10:103590542-10359062 9.98e-01 80 chr11:118965278-11896535 9.79e-01 80 chr10:5854952-5855032 8.02e-01 80 chr5:177631682-177631762 9.96e-01 80 chr6:37138285-37138365 9.19e-01 80 chr17:79486346-79486426 9.46e-01 80 chr6:150464749-150464829 9.87e-01 80 chr14:105458436-10545851 9.98e-01 80 chr18:23806944-23807024 9.99e-01 80 chr20:47935037-47935117 9.03e-01 80 chr7:149321898-149321978 1.00e+00 80 chr6:167368763-167368843 1.00e+00 80 chr2:85132852-85132932 1.00e+00 80 chr9:139872403-139872483 9.97e-01 80 chr20:44563423-44563503 8.61e-01 80 chr6:16760306-16760386 9.83e-01 80 chr1:32801517-32801597 2.60e-01 80 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c22n04.farnam.hpc.yale.internal ********************************************************************************