******************************************************************************** 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/worm/fasta/RankLinear2.0_40/ztf-11.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrX:1345012-1345092 1.0000 80 chrX:16056503-16056583 1.0000 80 chrIII:835911-835991 1.0000 80 chrX:16682024-16682104 1.0000 80 chrX:12363095-12363175 1.0000 80 chrX:5841250-5841330 1.0000 80 chrIII:8874333-8874413 1.0000 80 chrX:5429518-5429598 1.0000 80 chrX:11031243-11031323 1.0000 80 chrV:17093027-17093107 1.0000 80 chrII:6331613-6331693 1.0000 80 chrX:2364784-2364864 1.0000 80 chrX:8036341-8036421 1.0000 80 chrIII:5679095-5679175 1.0000 80 chrX:9465852-9465932 1.0000 80 chrII:11545469-11545549 1.0000 80 chrX:13700815-13700895 1.0000 80 chrX:806660-806740 1.0000 80 chrIII:4475629-4475709 1.0000 80 chrX:11937539-11937619 1.0000 80 chrIV:6323805-6323885 1.0000 80 chrX:1627064-1627144 1.0000 80 chrX:14525867-14525947 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/worm/inference_raw/MEME/RankLinear2.0_40_ztf-11/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/worm/fasta/RankLinear2.0_40/ztf-11.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= 23 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= 1840 N= 23 sample: seed= 0 hsfrac= 0 searchsize= 1840 norand= no csites= 1000 Letter frequencies in dataset: A 0.278 C 0.237 G 0.214 T 0.272 Background letter frequencies (from file dataset with add-one prior applied): A 0.278 C 0.237 G 0.214 T 0.272 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF GCGMAGKG MEME-1 width = 8 sites = 12 llr = 106 E-value = 4.6e-006 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCGMAGKG MEME-1 Description -------------------------------------------------------------------------------- Simplified A 2::4a:1: pos.-specific C :a:4:2:: probability G 8:a2:86a matrix T ::::::3: bits 2.2 * * 2.0 ** * 1.8 ** * * 1.6 *** ** * Relative 1.3 *** ** * Entropy 1.1 *** ** * (12.8 bits) 0.9 *** **** 0.7 *** **** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GCGAAGGG consensus C T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGMAGKG MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:806660-806740 14 7.01e-06 TGCGATTATC GCGCAGGG GTGTTTGTTG chrX:5429518-5429598 72 7.01e-06 ATTAAATTTA GCGCAGGG A chrX:1345012-1345092 44 7.01e-06 AATGTCATTC GCGCAGGG CAGCTGAGCC chrX:14525867-14525947 58 1.52e-05 AATAGTCATC GCGAAGGG ACACATTTTG chrX:1627064-1627144 42 1.52e-05 TTCTCCCATC GCGAAGGG ATACTTTCGC chrX:9465852-9465932 31 1.52e-05 GAAAATTTAG GCGAAGGG AGAGATACTG chrIII:4475629-4475709 34 5.67e-05 GGAGCGTCAT GCGGAGTG TATGGCATAC chrIII:5679095-5679175 62 5.67e-05 AAGACATGCT GCGGAGTG ATACAGAAAC chrX:11937539-11937619 2 7.49e-05 A ACGCAGGG AAGAGAATTA chrX:11031243-11031323 45 1.22e-04 TCCTCGTGTC GCGCACTG GATGACCCCC chrIV:6323805-6323885 41 1.67e-04 CGAGAGGACT ACGAAGTG GCACGCAACG chrX:12363095-12363175 52 2.50e-04 ATAAGAATAG GCGAACAG TATGTCAATG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGMAGKG MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:806660-806740 7e-06 13_[+1]_59 chrX:5429518-5429598 7e-06 71_[+1]_1 chrX:1345012-1345092 7e-06 43_[+1]_29 chrX:14525867-14525947 1.5e-05 57_[+1]_15 chrX:1627064-1627144 1.5e-05 41_[+1]_31 chrX:9465852-9465932 1.5e-05 30_[+1]_42 chrIII:4475629-4475709 5.7e-05 33_[+1]_39 chrIII:5679095-5679175 5.7e-05 61_[+1]_11 chrX:11937539-11937619 7.5e-05 1_[+1]_71 chrX:11031243-11031323 0.00012 44_[+1]_28 chrIV:6323805-6323885 0.00017 40_[+1]_32 chrX:12363095-12363175 0.00025 51_[+1]_21 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGMAGKG MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCGMAGKG width=8 seqs=12 chrX:806660-806740 ( 14) GCGCAGGG 1 chrX:5429518-5429598 ( 72) GCGCAGGG 1 chrX:1345012-1345092 ( 44) GCGCAGGG 1 chrX:14525867-14525947 ( 58) GCGAAGGG 1 chrX:1627064-1627144 ( 42) GCGAAGGG 1 chrX:9465852-9465932 ( 31) GCGAAGGG 1 chrIII:4475629-4475709 ( 34) GCGGAGTG 1 chrIII:5679095-5679175 ( 62) GCGGAGTG 1 chrX:11937539-11937619 ( 2) ACGCAGGG 1 chrX:11031243-11031323 ( 45) GCGCACTG 1 chrIV:6323805-6323885 ( 41) ACGAAGTG 1 chrX:12363095-12363175 ( 52) GCGAACAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGMAGKG MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 1679 bayes= 8.70995 E= 4.6e-006 -74 -1023 196 -1023 -1023 208 -1023 -1023 -1023 -1023 223 -1023 59 81 -36 -1023 185 -1023 -1023 -1023 -1023 -51 196 -1023 -173 -1023 145 29 -1023 -1023 223 -1023 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGMAGKG MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 12 E= 4.6e-006 0.166667 0.000000 0.833333 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.416667 0.416667 0.166667 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.166667 0.833333 0.000000 0.083333 0.000000 0.583333 0.333333 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCGMAGKG MEME-1 regular expression -------------------------------------------------------------------------------- GCG[AC]AG[GT]G -------------------------------------------------------------------------------- Time 0.54 secs. ******************************************************************************** ******************************************************************************** MOTIF TCMCWRYG MEME-2 width = 8 sites = 13 llr = 98 E-value = 1.7e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif TCMCWRYG MEME-2 Description -------------------------------------------------------------------------------- Simplified A ::3:53:: pos.-specific C :a6a::5: probability G 2:1::5:a matrix T 8:::525: bits 2.2 * 2.0 * * * 1.8 * * * 1.6 * * * Relative 1.3 * * * Entropy 1.1 ** * * (10.8 bits) 0.9 ***** ** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TCCCTGTG consensus G A AAC sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCMCWRYG MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:14525867-14525947 32 2.30e-05 ACCACATCTG TCCCTGCG CGATAGGCAA chrX:8036341-8036421 59 2.30e-05 TCGACATACG TCCCTGCG CGATAAAAAA chrX:16056503-16056583 29 2.30e-05 AATGTGCAAC TCCCTGCG GCAAATTTGA chrIII:5679095-5679175 34 1.03e-04 ATAGCACATT TCACTGTG CCGCGACTCA chrII:6331613-6331693 56 1.03e-04 TGCTGCGTAC TCCCTATG AAAAACGGGA chrV:17093027-17093107 39 1.79e-04 CATCCTTCCA TCCCAATG CACAAATCAA chrX:5841250-5841330 40 1.79e-04 CCTTGCCAAC TCACAGTG GTCGACGCGC chrX:5429518-5429598 38 2.27e-04 TCATCTCGTG TCCCTTCG CCAATGCTTA chrII:11545469-11545549 13 3.36e-04 GATCGAACAT GCACTGCG CTTCGCGAGT chrX:16682024-16682104 66 4.38e-04 GCCATATGTT GCCCAATG TTCCTGC chrIII:835911-835991 1 4.38e-04 . GCCCAATG TGCACCATAA chrIV:6323805-6323885 67 4.60e-04 CGCTCGGGTC TCGCAGCG ACCTGC chrX:2364784-2364864 49 5.52e-04 AGTAAGAGAG TCACATTG TATTTTTATT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCMCWRYG MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:14525867-14525947 2.3e-05 31_[+2]_41 chrX:8036341-8036421 2.3e-05 58_[+2]_14 chrX:16056503-16056583 2.3e-05 28_[+2]_44 chrIII:5679095-5679175 0.0001 33_[+2]_39 chrII:6331613-6331693 0.0001 55_[+2]_17 chrV:17093027-17093107 0.00018 38_[+2]_34 chrX:5841250-5841330 0.00018 39_[+2]_33 chrX:5429518-5429598 0.00023 37_[+2]_35 chrII:11545469-11545549 0.00034 12_[+2]_60 chrX:16682024-16682104 0.00044 65_[+2]_7 chrIII:835911-835991 0.00044 [+2]_72 chrIV:6323805-6323885 0.00046 66_[+2]_6 chrX:2364784-2364864 0.00055 48_[+2]_24 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCMCWRYG MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TCMCWRYG width=8 seqs=13 chrX:14525867-14525947 ( 32) TCCCTGCG 1 chrX:8036341-8036421 ( 59) TCCCTGCG 1 chrX:16056503-16056583 ( 29) TCCCTGCG 1 chrIII:5679095-5679175 ( 34) TCACTGTG 1 chrII:6331613-6331693 ( 56) TCCCTATG 1 chrV:17093027-17093107 ( 39) TCCCAATG 1 chrX:5841250-5841330 ( 40) TCACAGTG 1 chrX:5429518-5429598 ( 38) TCCCTTCG 1 chrII:11545469-11545549 ( 13) GCACTGCG 1 chrX:16682024-16682104 ( 66) GCCCAATG 1 chrIII:835911-835991 ( 1) GCCCAATG 1 chrIV:6323805-6323885 ( 67) TCGCAGCG 1 chrX:2364784-2364864 ( 49) TCACATTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCMCWRYG MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 1679 bayes= 8.17234 E= 1.7e+001 -1035 -1035 11 150 -1035 208 -1035 -1035 15 138 -147 -1035 -1035 208 -1035 -1035 73 -1035 -1035 99 15 -1035 133 -82 -1035 96 -1035 99 -1035 -1035 223 -1035 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCMCWRYG MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 13 E= 1.7e+001 0.000000 0.000000 0.230769 0.769231 0.000000 1.000000 0.000000 0.000000 0.307692 0.615385 0.076923 0.000000 0.000000 1.000000 0.000000 0.000000 0.461538 0.000000 0.000000 0.538462 0.307692 0.000000 0.538462 0.153846 0.000000 0.461538 0.000000 0.538462 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCMCWRYG MEME-2 regular expression -------------------------------------------------------------------------------- [TG]C[CA]C[TA][GA][TC]G -------------------------------------------------------------------------------- Time 0.92 secs. ******************************************************************************** ******************************************************************************** MOTIF STCGTCTC MEME-3 width = 8 sites = 9 llr = 76 E-value = 2.6e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif STCGTCTC MEME-3 Description -------------------------------------------------------------------------------- Simplified A 12:1:::: pos.-specific C 4:9::a:a probability G 4:17:::: matrix T :8:2a:a: bits 2.2 2.0 * * 1.8 **** 1.6 * **** Relative 1.3 * **** Entropy 1.1 ** **** (12.2 bits) 0.9 ******* 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CTCGTCTC consensus GA T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif STCGTCTC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:11031243-11031323 68 1.23e-05 CCCCCACACA GTCGTCTC GGTCG chrIII:8874333-8874413 29 1.23e-05 ACACTCAATC GTCGTCTC CGCAAGGCGA chrX:13700815-13700895 54 3.84e-05 TCCACAGCAC GACGTCTC CTCTTACTAG chrV:17093027-17093107 10 6.79e-05 TTTCAGTCC CACGTCTC AATTGCGCCA chrX:1627064-1627144 29 8.51e-05 ACCCCCTGCC CTCTTCTC CCATCGCGAA chrII:11545469-11545549 58 8.51e-05 AAGTTCCGCA CTCTTCTC TCTCATGATT chrX:5841250-5841330 21 1.01e-04 CTTTTGTTTC ATCGTCTC GCCTTGCCAA chrX:806660-806740 45 1.12e-04 CGTCTCTTGT GTGGTCTC ATCCGATCGC chrX:5429518-5429598 27 1.58e-04 ATCCAAGAGA CTCATCTC GTGTCCCTTC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif STCGTCTC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:11031243-11031323 1.2e-05 67_[+3]_5 chrIII:8874333-8874413 1.2e-05 28_[+3]_44 chrX:13700815-13700895 3.8e-05 53_[+3]_19 chrV:17093027-17093107 6.8e-05 9_[+3]_63 chrX:1627064-1627144 8.5e-05 28_[+3]_44 chrII:11545469-11545549 8.5e-05 57_[+3]_15 chrX:5841250-5841330 0.0001 20_[+3]_52 chrX:806660-806740 0.00011 44_[+3]_28 chrX:5429518-5429598 0.00016 26_[+3]_46 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif STCGTCTC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF STCGTCTC width=8 seqs=9 chrX:11031243-11031323 ( 68) GTCGTCTC 1 chrIII:8874333-8874413 ( 29) GTCGTCTC 1 chrX:13700815-13700895 ( 54) GACGTCTC 1 chrV:17093027-17093107 ( 10) CACGTCTC 1 chrX:1627064-1627144 ( 29) CTCTTCTC 1 chrII:11545469-11545549 ( 58) CTCTTCTC 1 chrX:5841250-5841330 ( 21) ATCGTCTC 1 chrX:806660-806740 ( 45) GTGGTCTC 1 chrX:5429518-5429598 ( 27) CTCATCTC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif STCGTCTC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 1679 bayes= 7.6707 E= 2.6e+001 -132 91 106 -982 -32 -982 -982 152 -982 191 -94 -982 -132 -982 164 -29 -982 -982 -982 188 -982 208 -982 -982 -982 -982 -982 188 -982 208 -982 -982 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif STCGTCTC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 9 E= 2.6e+001 0.111111 0.444444 0.444444 0.000000 0.222222 0.000000 0.000000 0.777778 0.000000 0.888889 0.111111 0.000000 0.111111 0.000000 0.666667 0.222222 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif STCGTCTC MEME-3 regular expression -------------------------------------------------------------------------------- [CG][TA]C[GT]TCTC -------------------------------------------------------------------------------- Time 1.68 secs. ******************************************************************************** ******************************************************************************** MOTIF TATCCACA MEME-4 width = 8 sites = 5 llr = 52 E-value = 6.8e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif TATCCACA MEME-4 Description -------------------------------------------------------------------------------- Simplified A :8:::a:a pos.-specific C :::aa:a: probability G :2:::::: matrix T a:a::::: bits 2.2 2.0 ** * 1.8 * ****** 1.6 * ****** Relative 1.3 * ****** Entropy 1.1 ******** (14.9 bits) 0.9 ******** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TATCCACA consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCCACA MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:13700815-13700895 42 2.12e-05 CGTATACATA TATCCACA GCACGACGTC chrX:8036341-8036421 38 2.12e-05 CTAATCGAAT TATCCACA GTGTCGACAT chrX:16056503-16056583 10 2.12e-05 CATATTGAT TATCCACA GAATGTGCAA chrX:1345012-1345092 25 2.12e-05 CATATACATT TATCCACA CAATGTCATT chrX:14525867-14525947 11 3.74e-05 GACAGCTGGC TGTCCACA TGTACCACAT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCCACA MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:13700815-13700895 2.1e-05 41_[+4]_31 chrX:8036341-8036421 2.1e-05 37_[+4]_35 chrX:16056503-16056583 2.1e-05 9_[+4]_63 chrX:1345012-1345092 2.1e-05 24_[+4]_48 chrX:14525867-14525947 3.7e-05 10_[+4]_62 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCCACA MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TATCCACA width=8 seqs=5 chrX:13700815-13700895 ( 42) TATCCACA 1 chrX:8036341-8036421 ( 38) TATCCACA 1 chrX:16056503-16056583 ( 10) TATCCACA 1 chrX:1345012-1345092 ( 25) TATCCACA 1 chrX:14525867-14525947 ( 11) TGTCCACA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCCACA MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 1679 bayes= 8.63938 E= 6.8e+001 -897 -897 -897 188 152 -897 -10 -897 -897 -897 -897 188 -897 207 -897 -897 -897 207 -897 -897 185 -897 -897 -897 -897 207 -897 -897 185 -897 -897 -897 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCCACA MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 5 E= 6.8e+001 0.000000 0.000000 0.000000 1.000000 0.800000 0.000000 0.200000 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 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TATCCACA MEME-4 regular expression -------------------------------------------------------------------------------- T[AG]TCCACA -------------------------------------------------------------------------------- Time 5.19 secs. ******************************************************************************** ******************************************************************************** MOTIF TGCTGCGT MEME-5 width = 8 sites = 2 llr = 23 E-value = 2.2e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGCTGCGT MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C ::a::a:: probability G :a::a:a: matrix T a::a:::a bits 2.2 * * * 2.0 ** *** 1.8 ******** 1.6 ******** Relative 1.3 ******** Entropy 1.1 ******** (16.5 bits) 0.9 ******** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TGCTGCGT consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCTGCGT MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:806660-806740 30 1.11e-05 GGGTGTTTGT TGCTGCGT CTCTTGTGTG chrII:6331613-6331693 46 1.11e-05 CACAGCGCGA TGCTGCGT ACTCCCTATG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCTGCGT MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:806660-806740 1.1e-05 29_[+5]_43 chrII:6331613-6331693 1.1e-05 45_[+5]_27 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCTGCGT MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TGCTGCGT width=8 seqs=2 chrX:806660-806740 ( 30) TGCTGCGT 1 chrII:6331613-6331693 ( 46) TGCTGCGT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCTGCGT MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 1679 bayes= 9.71167 E= 2.2e+003 -765 -765 -765 187 -765 -765 222 -765 -765 207 -765 -765 -765 -765 -765 187 -765 -765 222 -765 -765 207 -765 -765 -765 -765 222 -765 -765 -765 -765 187 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCTGCGT MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 2.2e+003 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 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGCTGCGT MEME-5 regular expression -------------------------------------------------------------------------------- TGCTGCGT -------------------------------------------------------------------------------- Time 9.48 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:1345012-1345092 2.73e-04 24_[+4(2.12e-05)]_11_[+1(7.01e-06)]_\ 29 chrX:16056503-16056583 1.97e-03 9_[+4(2.12e-05)]_11_[+2(2.30e-05)]_\ 44 chrIII:835911-835991 2.47e-01 80 chrX:16682024-16682104 2.14e-01 80 chrX:12363095-12363175 4.33e-01 80 chrX:5841250-5841330 1.32e-02 80 chrIII:8874333-8874413 1.08e-02 28_[+3(1.23e-05)]_44 chrX:5429518-5429598 9.89e-05 71_[+1(7.01e-06)]_1 chrX:11031243-11031323 1.48e-03 67_[+3(1.23e-05)]_5 chrV:17093027-17093107 1.21e-02 9_[+3(6.79e-05)]_63 chrII:6331613-6331693 2.66e-04 45_[+5(1.11e-05)]_27 chrX:2364784-2364864 6.97e-01 80 chrX:8036341-8036421 1.07e-03 37_[+4(2.12e-05)]_13_[+2(2.30e-05)]_\ 14 chrIII:5679095-5679175 2.73e-04 61_[+1(5.67e-05)]_11 chrX:9465852-9465932 3.65e-02 30_[+1(1.52e-05)]_42 chrII:11545469-11545549 1.13e-02 57_[+3(8.51e-05)]_15 chrX:13700815-13700895 2.52e-03 41_[+4(2.12e-05)]_4_[+3(3.84e-05)]_\ 19 chrX:806660-806740 9.93e-06 13_[+1(7.01e-06)]_8_[+5(1.11e-05)]_\ 43 chrIII:4475629-4475709 4.07e-02 33_[+1(5.67e-05)]_39 chrX:11937539-11937619 2.97e-01 1_[+1(7.49e-05)]_71 chrIV:6323805-6323885 1.35e-02 80 chrX:1627064-1627144 3.04e-04 28_[+3(8.51e-05)]_5_[+1(1.52e-05)]_\ 31 chrX:14525867-14525947 4.63e-06 10_[+4(3.74e-05)]_13_[+2(2.30e-05)]_\ 18_[+1(1.52e-05)]_15 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n08.farnam.hpc.yale.internal ********************************************************************************