******************************************************************************** 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/ceh-9.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrI:8263752-8263832 1.0000 80 chrI:11126473-11126553 1.0000 80 chrX:7285093-7285173 1.0000 80 chrV:966302-966382 1.0000 80 chrX:6316102-6316182 1.0000 80 chrII:243596-243676 1.0000 80 chrX:15189415-15189495 1.0000 80 chrV:11959096-11959176 1.0000 80 chrX:10482952-10483032 1.0000 80 chrI:12665000-12665080 1.0000 80 chrIV:13026239-13026319 1.0000 80 chrV:3057682-3057762 1.0000 80 chrIV:14033099-14033179 1.0000 80 chrX:15276846-15276926 1.0000 80 chrIV:11027716-11027796 1.0000 80 chrIV:2053660-2053740 1.0000 80 chrIV:12417964-12418044 1.0000 80 chrI:6435885-6435965 1.0000 80 chrX:1323145-1323225 1.0000 80 chrX:16682055-16682135 1.0000 80 chrX:11605831-11605911 1.0000 80 chrX:14561636-14561716 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_ceh-9/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/worm/fasta/RankLinear2.0_40/ceh-9.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= 22 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= 1760 N= 22 sample: seed= 0 hsfrac= 0 searchsize= 1760 norand= no csites= 1000 Letter frequencies in dataset: A 0.274 C 0.248 G 0.209 T 0.269 Background letter frequencies (from file dataset with add-one prior applied): A 0.274 C 0.248 G 0.209 T 0.269 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF CTTTTCSC MEME-1 width = 8 sites = 13 llr = 100 E-value = 3.6e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif CTTTTCSC MEME-1 Description -------------------------------------------------------------------------------- Simplified A :3:::::: pos.-specific C 7::2:a59 probability G ::::1:3: matrix T 37a89:21 bits 2.3 2.0 * 1.8 * * 1.6 * ** * Relative 1.4 **** * Entropy 1.1 * **** * (11.1 bits) 0.9 ****** * 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CTTTTCCC consensus TA G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTTTCSC MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:10482952-10483032 41 1.98e-05 GGTTGAGTTG CTTTTCCC AATATTTTCC chrV:11959096-11959176 12 1.98e-05 TCTTTTTCTG CTTTTCCC TCAACACACA chrII:243596-243676 65 3.65e-05 CAAACTACAA CTTTTCGC CCAGAACA chrX:6316102-6316182 2 5.67e-05 A CATTTCCC AGTGCACATT chrI:6435885-6435965 9 7.82e-05 CGTCATCG TTTTTCCC CTTTTTTCTC chrX:1323145-1323225 8 9.52e-05 TTAATCT CATTTCGC ATGGAGAAGA chrX:15276846-15276926 42 1.35e-04 GACATTTGCA CTTTtctc tatttctctt chrIV:14033099-14033179 24 1.53e-04 CTCTCATCAG CTTCTCCC TATCGGTCCC chrV:966302-966382 53 2.46e-04 CACCTAACAC TATTTCGC CGCCGTCTTC chrIV:2053660-2053740 58 2.69e-04 GGGCTTCATC TTTTTCTC TCTCACTCAC chrIV:13026239-13026319 62 3.29e-04 CCGCTTCTGG TTTCTCCC TCCGGATGAA chrX:7285093-7285173 71 3.29e-04 TTTCGTCGCT CTTTTCCT CT chrIV:12417964-12418044 18 5.47e-04 ACGCGTTATC CATTGCGC CACGCGGCCA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTTTCSC MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:10482952-10483032 2e-05 40_[+1]_32 chrV:11959096-11959176 2e-05 11_[+1]_61 chrII:243596-243676 3.6e-05 64_[+1]_8 chrX:6316102-6316182 5.7e-05 1_[+1]_71 chrI:6435885-6435965 7.8e-05 8_[+1]_64 chrX:1323145-1323225 9.5e-05 7_[+1]_65 chrX:15276846-15276926 0.00013 41_[+1]_31 chrIV:14033099-14033179 0.00015 23_[+1]_49 chrV:966302-966382 0.00025 52_[+1]_20 chrIV:2053660-2053740 0.00027 57_[+1]_15 chrIV:13026239-13026319 0.00033 61_[+1]_11 chrX:7285093-7285173 0.00033 70_[+1]_2 chrIV:12417964-12418044 0.00055 17_[+1]_55 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTTTCSC MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CTTTTCSC width=8 seqs=13 chrX:10482952-10483032 ( 41) CTTTTCCC 1 chrV:11959096-11959176 ( 12) CTTTTCCC 1 chrII:243596-243676 ( 65) CTTTTCGC 1 chrX:6316102-6316182 ( 2) CATTTCCC 1 chrI:6435885-6435965 ( 9) TTTTTCCC 1 chrX:1323145-1323225 ( 8) CATTTCGC 1 chrX:15276846-15276926 ( 42) CTTTTCTC 1 chrIV:14033099-14033179 ( 24) CTTCTCCC 1 chrV:966302-966382 ( 53) TATTTCGC 1 chrIV:2053660-2053740 ( 58) TTTTTCTC 1 chrIV:13026239-13026319 ( 62) TTTCTCCC 1 chrX:7285093-7285173 ( 71) CTTTTCCT 1 chrIV:12417964-12418044 ( 18) CATTGCGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTTTCSC MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 1606 bayes= 7.47122 E= 3.6e-001 -1035 148 -1035 20 17 -1035 -1035 136 -1035 -1035 -1035 190 -1035 -69 -1035 165 -1035 -1035 -144 178 -1035 201 -1035 -1035 -1035 112 56 -80 -1035 189 -1035 -180 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTTTCSC MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 13 E= 3.6e-001 0.000000 0.692308 0.000000 0.307692 0.307692 0.000000 0.000000 0.692308 0.000000 0.000000 0.000000 1.000000 0.000000 0.153846 0.000000 0.846154 0.000000 0.000000 0.076923 0.923077 0.000000 1.000000 0.000000 0.000000 0.000000 0.538462 0.307692 0.153846 0.000000 0.923077 0.000000 0.076923 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CTTTTCSC MEME-1 regular expression -------------------------------------------------------------------------------- [CT][TA]TTTC[CG]C -------------------------------------------------------------------------------- Time 6.14 secs. ******************************************************************************** ******************************************************************************** MOTIF TCTGCGYC MEME-2 width = 8 sites = 5 llr = 48 E-value = 2.5e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif TCTGCGYC MEME-2 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C :a::a:48 probability G ::2a:a:2 matrix T a:8:::6: bits 2.3 * * 2.0 * *** 1.8 ** *** 1.6 ** *** Relative 1.4 ****** * Entropy 1.1 ****** * (14.0 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TCTGCGTC consensus G CG sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTGCGYC MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIV:14033099-14033179 7 1.30e-05 TAGTTG TCTGCGTC TCTCATCAGC chrV:966302-966382 27 1.30e-05 GTATGTAAAG TCTGCGTC TCTATAGCCA chrV:11959096-11959176 43 2.49e-05 ACATAAACCA TCTGCGCC AAAAACAATT chrV:3057682-3057762 45 4.59e-05 TACCACCGCC TCTGCGTG GACTGTTGTA chrI:12665000-12665080 11 5.52e-05 GCGATTCAAA TCGGCGCC AATTTAAAGT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTGCGYC MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV:14033099-14033179 1.3e-05 6_[+2]_66 chrV:966302-966382 1.3e-05 26_[+2]_46 chrV:11959096-11959176 2.5e-05 42_[+2]_30 chrV:3057682-3057762 4.6e-05 44_[+2]_28 chrI:12665000-12665080 5.5e-05 10_[+2]_62 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTGCGYC MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TCTGCGYC width=8 seqs=5 chrIV:14033099-14033179 ( 7) TCTGCGTC 1 chrV:966302-966382 ( 27) TCTGCGTC 1 chrV:11959096-11959176 ( 43) TCTGCGCC 1 chrV:3057682-3057762 ( 45) TCTGCGTG 1 chrI:12665000-12665080 ( 11) TCGGCGCC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTGCGYC MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 1606 bayes= 8.57509 E= 2.5e+002 -897 -897 -897 189 -897 201 -897 -897 -897 -897 -6 157 -897 -897 225 -897 -897 201 -897 -897 -897 -897 225 -897 -897 69 -897 116 -897 169 -6 -897 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTGCGYC MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 5 E= 2.5e+002 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.800000 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 0.400000 0.000000 0.600000 0.000000 0.800000 0.200000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCTGCGYC MEME-2 regular expression -------------------------------------------------------------------------------- TC[TG]GCG[TC][CG] -------------------------------------------------------------------------------- Time 8.39 secs. ******************************************************************************** ******************************************************************************** MOTIF RAWGAAGA MEME-3 width = 8 sites = 13 llr = 94 E-value = 2.5e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif RAWGAAGA MEME-3 Description -------------------------------------------------------------------------------- Simplified A 5a5:581a pos.-specific C 1::::11: probability G 5::a2:8: matrix T ::5:22:: bits 2.3 * 2.0 * 1.8 * * * 1.6 * * * Relative 1.4 * * ** Entropy 1.1 * * ** (10.5 bits) 0.9 *** *** 0.7 **** *** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel AAAGAAGA consensus G T G sequence T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RAWGAAGA MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:1323145-1323225 30 1.41e-05 AGAAGAGAAA GAAGAAGA TGCAGAAAAC chrX:15189415-15189495 56 1.41e-05 ACTGAACGGC GAAGAAGA AACGCGAGAA chrX:14561636-14561716 30 2.79e-05 AGCACGAAGA GATGAAGA CGTGCACGTA chrIV:2053660-2053740 6 2.79e-05 GATTT GATGAAGA AGTGTGGGGG chrX:15276846-15276926 26 4.64e-05 CGGAGAATGC AAAGAAGA CATTTGCACT chrX:7285093-7285173 2 1.14e-04 C AAAGGAGA CGCAGCTTCA chrIV:11027716-11027796 17 1.77e-04 agatagGAAT AATGTAGA GTAACGAGAC chrI:8263752-8263832 25 3.64e-04 ACGTATGGAA AAAGACGA CACATGCATG chrX:11605831-11605911 2 4.55e-04 T GAAGAAAA TATAAGTTTT chrIV:14033099-14033179 57 4.55e-04 TGATGGCGGC AATGGTGA CTCTCTCTCT chrV:966302-966382 70 5.68e-04 CCGCCGTCTT CAAGTAGA GAG chrI:11126473-11126553 68 6.10e-04 ACATCCGGAA AATGTTGA CGACG chrX:6316102-6316182 38 7.87e-04 AAATCCACCA GATGGACA CGACGGAAGA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RAWGAAGA MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:1323145-1323225 1.4e-05 29_[+3]_43 chrX:15189415-15189495 1.4e-05 55_[+3]_17 chrX:14561636-14561716 2.8e-05 29_[+3]_43 chrIV:2053660-2053740 2.8e-05 5_[+3]_67 chrX:15276846-15276926 4.6e-05 25_[+3]_47 chrX:7285093-7285173 0.00011 1_[+3]_71 chrIV:11027716-11027796 0.00018 16_[+3]_56 chrI:8263752-8263832 0.00036 24_[+3]_48 chrX:11605831-11605911 0.00046 1_[+3]_71 chrIV:14033099-14033179 0.00046 56_[+3]_16 chrV:966302-966382 0.00057 69_[+3]_3 chrI:11126473-11126553 0.00061 67_[+3]_5 chrX:6316102-6316182 0.00079 37_[+3]_35 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RAWGAAGA MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF RAWGAAGA width=8 seqs=13 chrX:1323145-1323225 ( 30) GAAGAAGA 1 chrX:15189415-15189495 ( 56) GAAGAAGA 1 chrX:14561636-14561716 ( 30) GATGAAGA 1 chrIV:2053660-2053740 ( 6) GATGAAGA 1 chrX:15276846-15276926 ( 26) AAAGAAGA 1 chrX:7285093-7285173 ( 2) AAAGGAGA 1 chrIV:11027716-11027796 ( 17) AATGTAGA 1 chrI:8263752-8263832 ( 25) AAAGACGA 1 chrX:11605831-11605911 ( 2) GAAGAAAA 1 chrIV:14033099-14033179 ( 57) AATGGTGA 1 chrV:966302-966382 ( 70) CAAGTAGA 1 chrI:11126473-11126553 ( 68) AATGTTGA 1 chrX:6316102-6316182 ( 38) GATGGACA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RAWGAAGA MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 1606 bayes= 7.47122 E= 2.5e+002 75 -169 114 -1035 187 -1035 -1035 -1035 98 -1035 -1035 78 -1035 -1035 226 -1035 98 -1035 14 -22 149 -169 -1035 -80 -183 -169 202 -1035 187 -1035 -1035 -1035 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RAWGAAGA MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 13 E= 2.5e+002 0.461538 0.076923 0.461538 0.000000 1.000000 0.000000 0.000000 0.000000 0.538462 0.000000 0.000000 0.461538 0.000000 0.000000 1.000000 0.000000 0.538462 0.000000 0.230769 0.230769 0.769231 0.076923 0.000000 0.153846 0.076923 0.076923 0.846154 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif RAWGAAGA MEME-3 regular expression -------------------------------------------------------------------------------- [AG]A[AT]G[AGT]AGA -------------------------------------------------------------------------------- Time 8.82 secs. ******************************************************************************** ******************************************************************************** MOTIF YGGCGCGC MEME-4 width = 8 sites = 2 llr = 22 E-value = 1.3e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif YGGCGCGC MEME-4 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C 5::a:a:a probability G :aa:a:a: matrix T 5::::::: bits 2.3 ** * * 2.0 ******* 1.8 ******* 1.6 ******* Relative 1.4 ******* Entropy 1.1 ******* (16.0 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CGGCGCGC consensus T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YGGCGCGC MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrI:12665000-12665080 41 7.22e-06 GCAAACACGG CGGCGCGC ACTTGCGTAC chrX:11605831-11605911 46 1.50e-05 AAGAGCCGTT TGGCGCGC TACAAACACA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YGGCGCGC MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrI:12665000-12665080 7.2e-06 40_[+4]_32 chrX:11605831-11605911 1.5e-05 45_[+4]_27 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YGGCGCGC MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF YGGCGCGC width=8 seqs=2 chrI:12665000-12665080 ( 41) CGGCGCGC 1 chrX:11605831-11605911 ( 46) TGGCGCGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YGGCGCGC MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 1606 bayes= 9.64746 E= 1.3e+003 -765 101 -765 89 -765 -765 225 -765 -765 -765 225 -765 -765 200 -765 -765 -765 -765 225 -765 -765 200 -765 -765 -765 -765 225 -765 -765 200 -765 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YGGCGCGC MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 1.3e+003 0.000000 0.500000 0.000000 0.500000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif YGGCGCGC MEME-4 regular expression -------------------------------------------------------------------------------- [CT]GGCGCGC -------------------------------------------------------------------------------- Time 9.17 secs. ******************************************************************************** ******************************************************************************** MOTIF AGAGGGST MEME-5 width = 8 sites = 2 llr = 22 E-value = 3.6e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif AGAGGGST MEME-5 Description -------------------------------------------------------------------------------- Simplified A a:a::::: pos.-specific C ::::::5: probability G :a:aaa5: matrix T :::::::a bits 2.3 * *** 2.0 * *** 1.8 ****** * 1.6 ****** * Relative 1.4 ****** * Entropy 1.1 ******** (15.8 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel AGAGGGCT consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGAGGGST MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrI:8263752-8263832 1 8.05e-06 . AGAGGGGT CAACAGACGT chrIV:2053660-2053740 45 1.76e-05 TGCTCCCAGG AGAGGGCT TCATCTTTTT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGAGGGST MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrI:8263752-8263832 8.1e-06 [+5]_72 chrIV:2053660-2053740 1.8e-05 44_[+5]_28 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGAGGGST MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF AGAGGGST width=8 seqs=2 chrI:8263752-8263832 ( 1) AGAGGGGT 1 chrIV:2053660-2053740 ( 45) AGAGGGCT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGAGGGST MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 1606 bayes= 7.8776 E= 3.6e+003 186 -765 -765 -765 -765 -765 225 -765 186 -765 -765 -765 -765 -765 225 -765 -765 -765 225 -765 -765 -765 225 -765 -765 101 125 -765 -765 -765 -765 189 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGAGGGST MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 3.6e+003 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.500000 0.500000 0.000000 0.000000 0.000000 0.000000 1.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AGAGGGST MEME-5 regular expression -------------------------------------------------------------------------------- AGAGGG[CG]T -------------------------------------------------------------------------------- Time 9.54 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrI:8263752-8263832 1.30e-02 [+5(8.05e-06)]_72 chrI:11126473-11126553 4.59e-01 80 chrX:7285093-7285173 7.34e-03 80 chrV:966302-966382 1.30e-03 26_[+2(1.30e-05)]_46 chrX:6316102-6316182 4.11e-02 1_[+1(5.67e-05)]_71 chrII:243596-243676 1.24e-01 64_[+1(3.65e-05)]_8 chrX:15189415-15189495 1.91e-02 55_[+3(1.41e-05)]_17 chrV:11959096-11959176 2.88e-03 11_[+1(1.98e-05)]_23_[+2(2.49e-05)]_\ 30 chrX:10482952-10483032 5.40e-02 40_[+1(1.98e-05)]_32 chrI:12665000-12665080 2.10e-03 10_[+2(5.52e-05)]_22_[+4(7.22e-06)]_\ 32 chrIV:13026239-13026319 1.78e-01 80 chrV:3057682-3057762 5.81e-02 44_[+2(4.59e-05)]_28 chrIV:14033099-14033179 5.15e-04 6_[+2(1.30e-05)]_66 chrX:15276846-15276926 1.29e-02 25_[+3(4.64e-05)]_47 chrIV:11027716-11027796 1.33e-01 80 chrIV:2053660-2053740 1.12e-04 5_[+3(2.79e-05)]_31_[+5(1.76e-05)]_\ 28 chrIV:12417964-12418044 1.15e-01 80 chrI:6435885-6435965 2.39e-01 8_[+1(7.82e-05)]_64 chrX:1323145-1323225 6.10e-03 7_[+1(9.52e-05)]_14_[+3(1.41e-05)]_\ 43 chrX:16682055-16682135 2.47e-01 80 chrX:11605831-11605911 1.23e-03 45_[+4(1.50e-05)]_27 chrX:14561636-14561716 5.73e-02 29_[+3(2.79e-05)]_43 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n12.farnam.hpc.yale.internal ********************************************************************************