******************************************************************************** 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/mml-1.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrX:7446614-7446694 1.0000 80 chrX:4530553-4530633 1.0000 80 chrX:6916313-6916393 1.0000 80 chrI:11994163-11994243 1.0000 80 chrV:12634905-12634985 1.0000 80 chrV:12157779-12157859 1.0000 80 chrX:14810041-14810121 1.0000 80 chrII:13737036-13737116 1.0000 80 chrIV:16171496-16171576 1.0000 80 chrI:7670054-7670134 1.0000 80 chrX:1479763-1479843 1.0000 80 chrII:14042997-14043077 1.0000 80 chrIV:11962161-11962241 1.0000 80 chrX:10333507-10333587 1.0000 80 chrIII:8655540-8655620 1.0000 80 chrIII:844132-844212 1.0000 80 chrI:10751744-10751824 1.0000 80 chrX:4146172-4146252 1.0000 80 chrIV:11149166-11149246 1.0000 80 chrI:12549929-12550009 1.0000 80 chrX:13360054-13360134 1.0000 80 chrI:2291548-2291628 1.0000 80 chrX:6745669-6745749 1.0000 80 chrIV:7166729-7166809 1.0000 80 chrIV:9063327-9063407 1.0000 80 chrV:13212799-13212879 1.0000 80 chrX:10332479-10332559 1.0000 80 chrIV:6879074-6879154 1.0000 80 chrIII:4273077-4273157 1.0000 80 chrV:5032359-5032439 1.0000 80 chrIII:5839589-5839669 1.0000 80 chrV:10536348-10536428 1.0000 80 chrX:17640963-17641043 1.0000 80 chrX:6741207-6741287 1.0000 80 chrV:11922158-11922238 1.0000 80 chrIV:3654360-3654440 1.0000 80 chrX:5468024-5468104 1.0000 80 chrII:9493815-9493895 1.0000 80 chrIV:1454365-1454445 1.0000 80 chrV:2133704-2133784 1.0000 80 chrII:4747180-4747260 1.0000 80 chrX:2904067-2904147 1.0000 80 chrI:7658808-7658888 1.0000 80 chrII:13469328-13469408 1.0000 80 chrIV:3652355-3652435 1.0000 80 chrV:6240875-6240955 1.0000 80 chrX:17633319-17633399 1.0000 80 chrII:2803076-2803156 1.0000 80 chrX:6742973-6743053 1.0000 80 chrI:9167049-9167129 1.0000 80 chrX:6807526-6807606 1.0000 80 chrII:13469906-13469986 1.0000 80 chrIII:6904036-6904116 1.0000 80 chrI:7662235-7662315 1.0000 80 chrV:11799395-11799475 1.0000 80 chrV:13796591-13796671 1.0000 80 chrIII:4274664-4274744 1.0000 80 chrIV:7023928-7024008 1.0000 80 chrI:12826716-12826796 1.0000 80 chrV:8610761-8610841 1.0000 80 chrII:8481267-8481347 1.0000 80 chrIII:6897756-6897836 1.0000 80 chrIV:3656018-3656098 1.0000 80 chrIV:1867188-1867268 1.0000 80 chrX:13353615-13353695 1.0000 80 chrII:10389874-10389954 1.0000 80 chrV:11802570-11802650 1.0000 80 chrX:17631855-17631935 1.0000 80 chrV:5271579-5271659 1.0000 80 chrIV:6881283-6881363 1.0000 80 chrII:4745403-4745483 1.0000 80 chrIV:8535127-8535207 1.0000 80 chrI:7563215-7563295 1.0000 80 chrIII:6898699-6898779 1.0000 80 chrV:12637357-12637437 1.0000 80 chrI:7575348-7575428 1.0000 80 chrV:6239975-6240055 1.0000 80 chrX:13351073-13351153 1.0000 80 chrIII:7375637-7375717 1.0000 80 chrX:17636380-17636460 1.0000 80 chrX:6741769-6741849 1.0000 80 chrX:13358746-13358826 1.0000 80 chrV:8661380-8661460 1.0000 80 chrV:5768517-5768597 1.0000 80 chrII:7528399-7528479 1.0000 80 chrIV:5762949-5763029 1.0000 80 chrIV:13395412-13395492 1.0000 80 chrIV:10782168-10782248 1.0000 80 chrII:14600140-14600220 1.0000 80 chrX:13329017-13329097 1.0000 80 chrX:3090181-3090261 1.0000 80 chrX:6750234-6750314 1.0000 80 chrII:10390600-10390680 1.0000 80 chrII:13462114-13462194 1.0000 80 chrX:6736672-6736752 1.0000 80 chrIV:4472878-4472958 1.0000 80 chrIV:7047771-7047851 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_mml-1/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/worm/fasta/RankLinear2.0_40/mml-1.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= 97 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= 7760 N= 97 sample: seed= 0 hsfrac= 0 searchsize= 7760 norand= no csites= 1000 Letter frequencies in dataset: A 0.26 C 0.239 G 0.216 T 0.285 Background letter frequencies (from file dataset with add-one prior applied): A 0.26 C 0.239 G 0.216 T 0.285 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF TTCACGTG MEME-1 width = 8 sites = 75 llr = 665 E-value = 1.0e-108 ******************************************************************************** -------------------------------------------------------------------------------- Motif TTCACGTG MEME-1 Description -------------------------------------------------------------------------------- Simplified A 1::a:1:: pos.-specific C 11a:9::: probability G :2:::9:a matrix T 87::1:a: bits 2.2 * 2.0 ** * 1.8 *** ** 1.5 ****** Relative 1.3 ****** Entropy 1.1 ****** (12.8 bits) 0.9 * ****** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel TTCACGTG consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCACGTG MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrII:13462114-13462194 32 1.60e-05 CTAACATAGG TTCACGTG AACAACGCGT chrIV:13395412-13395492 47 1.60e-05 GCACGCGTTG TTCACGTG TACTTTTTGA chrV:5768517-5768597 38 1.60e-05 TCGTGTGATG TTCACGTG AACTTCAGCA chrX:13358746-13358826 46 1.60e-05 GAGGATGCGA TTCACGTG CAATCAGCCT chrX:6741769-6741849 38 1.60e-05 TGTGAGGAAA TTCACGTG GGTATTCCCC chrX:17636380-17636460 14 1.60e-05 GTTCACATGT TTCACGTG AGTCTCATTG chrV:12637357-12637437 25 1.60e-05 GTTCATACTG TTCACGTG CACCACACAT chrIII:6898699-6898779 22 1.60e-05 TAAACCAAAC TTCACGTG AAGTACATGA chrIV:8535127-8535207 19 1.60e-05 TCATCCATGG TTCACGTG CCCCATGTCT chrV:5271579-5271659 72 1.60e-05 GCACGTTGTG TTCACGTG A chrX:13353615-13353695 26 1.60e-05 TGATCAACAC TTCACGTG CGGTACGCGT chrIII:4274664-4274744 15 1.60e-05 TCATATGTTG TTCACGTG AAAAGGATCT chrV:11799395-11799475 44 1.60e-05 ACACAACACA TTCACGTG GCGCCAACAG chrIII:6904036-6904116 27 1.60e-05 AATCATGTGC TTCACGTG AAATAGAAAT chrX:6807526-6807606 59 1.60e-05 TCACGCTCTT TTCACGTG TTCTACGGAC chrI:9167049-9167129 54 1.60e-05 TCACATGAAA TTCACGTG CTCTTGTAAG chrII:13469328-13469408 46 1.60e-05 ATTCCTCTCG TTCACGTG AACAAATGTC chrII:4747180-4747260 50 1.60e-05 ACGTGATTCA TTCACGTG CCACATTCCG chrIV:1454365-1454445 7 1.60e-05 GTGTCA TTCACGTG TATTTTGGTC chrII:9493815-9493895 29 1.60e-05 TCTATTCTTG TTCACGTG CCTACCTCGT chrIV:3654360-3654440 51 1.60e-05 CCCCGGGCGA TTCACGTG AATTTAGCCC chrV:11922158-11922238 36 1.60e-05 TCCGCCAAGT TTCACGTG AATAAGCGCG chrX:17640963-17641043 23 1.60e-05 GGAGGGGGAC TTCACGTG TGTCGCCACG chrIV:6879074-6879154 47 1.60e-05 TCACAGGCAA TTCACGTG AAGCAGAGCA chrIV:9063327-9063407 19 1.60e-05 CCTCTTCCTC TTCACGTG CAATTCACTA chrI:2291548-2291628 37 1.60e-05 ACATGTGCTG TTCACGTG AAAAGATGAG chrX:13360054-13360134 33 1.60e-05 CCCTCTCCAA TTCACGTG CTATTGTACC chrX:4146172-4146252 21 1.60e-05 CATTATTGTA TTCACGTG AAATTGTAAT chrI:10751744-10751824 49 1.60e-05 ACACGGGAAA TTCACGTG CATGTGAGGA chrIII:8655540-8655620 25 1.60e-05 ACCTCAATGA TTCACGTG TGATCGGTGA chrX:10333507-10333587 43 1.60e-05 CACGTGTTAC TTCACGTG CACAAAATTG chrIV:11962161-11962241 47 1.60e-05 ACATGTGCTT TTCACGTG CACACAAACG chrII:14042997-14043077 60 1.60e-05 GCGCGTGGTC TTCACGTG AACCTATTTT chrX:1479763-1479843 23 1.60e-05 CCACATGCGT TTCACGTG AAGGCTGGCG chrI:7670054-7670134 24 1.60e-05 GAAAAAGAAA TTCACGTG AATTCATCAT chrIV:16171496-16171576 39 1.60e-05 ACATGCGTTT TTCACGTG ATTCCACGAA chrII:13737036-13737116 42 1.60e-05 GAGAAGGTGT TTCACGTG AACGGCAGGC chrX:14810041-14810121 38 1.60e-05 TCACATGAAT TTCACGTG AAACCACCGT chrX:7446614-7446694 45 1.60e-05 tcacgtgaac ttcacgtg aacACCAAAT chrV:6240875-6240955 61 2.82e-05 GCTCGTGGAA TGCACGTG GCGAATGAAG chrX:6741207-6741287 35 2.82e-05 GCCAAGCTCC TGCACGTG AGGCTTCAAA chrV:5032359-5032439 49 2.82e-05 GGCCAAGTAA TGCACGTG CAGAAGAGGA chrIII:4273077-4273157 42 2.82e-05 ACCCGTGATG TGCACGTG ACGGAGCACA chrI:11994163-11994243 36 2.82e-05 TCACGTGATT TGCACGTG CCCGCAAAAA chrII:4745403-4745483 56 4.28e-05 ACATGTTGGA ATCACGTG AAGCCCGTGA chrV:13796591-13796671 27 4.28e-05 TCACGAGCAA ATCACGTG AGCCCACGTG chrV:10536348-10536428 68 4.28e-05 GTAGAAGAAA ATCACGTG GATAA chrX:6916313-6916393 48 4.28e-05 GCACGAGGGA ATCACGTG GACATTTTGA chrII:14600140-14600220 3 7.56e-05 TT TTCACATG CGTGCCACAG chrI:7563215-7563295 18 7.56e-05 ACACGAGTAT TTCACATG TTCCTTGCCT chrV:8610761-8610841 54 7.56e-05 GCATCTCTAT CTCACGTG TTTTTGAACA chrIII:5839589-5839669 16 7.56e-05 TATATCTACA TTCACATG AAATGCCACA chrV:12634905-12634985 42 7.56e-05 ACTCATGAAA TTCACATG CAGAAGCTGC chrII:10390600-10390680 62 8.90e-05 TCTCAATCGT TCCACGTG ATTGTTGTGT chrI:7575348-7575428 36 8.90e-05 ACACATGTTT TCCACGTG AAATGTATTT chrV:11802570-11802650 40 8.90e-05 CAGCGTGGCG TCCACGTG GATATGATAA chrX:6742973-6743053 7 8.90e-05 GTTTCA TCCACGTG CGTCTAGCGT chrIV:3652355-3652435 44 1.08e-04 GTTCAGCAGA TTCATGTG AATTATGTGT chrV:12157779-12157859 32 1.08e-04 CTGCATGCGT TTCATGTG CCCGCCACAT chrIV:7047771-7047851 38 1.20e-04 TCACATGTTT GTCACGTG GACTGTCAAC chrII:2803076-2803156 25 1.46e-04 CATACAACTG TACACGTG GCCCGCGCGT chrX:10332479-10332559 32 1.46e-04 CCACGAACCG AGCACGTG AATGGCAGCT chrIII:6897756-6897836 27 1.71e-04 CCATGTGAAT TGCACATG AAGTGGGTGG chrX:5468024-5468104 27 1.71e-04 TGATAAGCAG CGCACGTG CAAGTGGCAC chrIV:11149166-11149246 46 1.71e-04 AATTTACGTG TGCACATG CGCTGCACGG chrIV:10782168-10782248 9 1.88e-04 AAGTACTT ATCACATG GAAATGCGGG chrII:10389874-10389954 53 2.46e-04 TCACATACAC TTGACGTG TTTCCCTTGC chrI:7658808-7658888 33 2.46e-04 GCATGTGACG CTCACATG TATTTTCACT chrIV:7166729-7166809 47 2.46e-04 CTCATTCTCT TGCATGTG CTTAGCATGT chrX:6750234-6750314 43 2.73e-04 AAAACATAGA CCCACGTG TGGGTGCGTC chrV:13212799-13212879 33 3.39e-04 GCATGCGCTT CTCATGTG CGGAGCATGC chrV:2133704-2133784 30 3.83e-04 GAGAGAGCAA GTCACATG CTCGGCGCAT chrX:17633319-17633399 10 4.26e-04 CCGCCAACA CACACGTG CACTATTTTG chrI:12549929-12550009 33 4.26e-04 TCCCCCAAGG AGCACATG TTTTTCATGC chrI:7662235-7662315 37 5.18e-04 ACATGTGGAC AGCATGTG AAGAAGAGAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCACGTG MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrII:13462114-13462194 1.6e-05 31_[+1]_41 chrIV:13395412-13395492 1.6e-05 46_[+1]_26 chrV:5768517-5768597 1.6e-05 37_[+1]_35 chrX:13358746-13358826 1.6e-05 45_[+1]_27 chrX:6741769-6741849 1.6e-05 37_[+1]_35 chrX:17636380-17636460 1.6e-05 13_[+1]_59 chrV:12637357-12637437 1.6e-05 24_[+1]_48 chrIII:6898699-6898779 1.6e-05 21_[+1]_51 chrIV:8535127-8535207 1.6e-05 18_[+1]_54 chrV:5271579-5271659 1.6e-05 71_[+1]_1 chrX:13353615-13353695 1.6e-05 25_[+1]_47 chrIII:4274664-4274744 1.6e-05 14_[+1]_58 chrV:11799395-11799475 1.6e-05 43_[+1]_29 chrIII:6904036-6904116 1.6e-05 26_[+1]_46 chrX:6807526-6807606 1.6e-05 58_[+1]_14 chrI:9167049-9167129 1.6e-05 53_[+1]_19 chrII:13469328-13469408 1.6e-05 45_[+1]_27 chrII:4747180-4747260 1.6e-05 49_[+1]_23 chrIV:1454365-1454445 1.6e-05 6_[+1]_66 chrII:9493815-9493895 1.6e-05 28_[+1]_44 chrIV:3654360-3654440 1.6e-05 50_[+1]_22 chrV:11922158-11922238 1.6e-05 35_[+1]_37 chrX:17640963-17641043 1.6e-05 22_[+1]_50 chrIV:6879074-6879154 1.6e-05 46_[+1]_26 chrIV:9063327-9063407 1.6e-05 18_[+1]_54 chrI:2291548-2291628 1.6e-05 36_[+1]_36 chrX:13360054-13360134 1.6e-05 32_[+1]_40 chrX:4146172-4146252 1.6e-05 20_[+1]_52 chrI:10751744-10751824 1.6e-05 48_[+1]_24 chrIII:8655540-8655620 1.6e-05 24_[+1]_48 chrX:10333507-10333587 1.6e-05 42_[+1]_30 chrIV:11962161-11962241 1.6e-05 46_[+1]_26 chrII:14042997-14043077 1.6e-05 59_[+1]_13 chrX:1479763-1479843 1.6e-05 22_[+1]_50 chrI:7670054-7670134 1.6e-05 23_[+1]_49 chrIV:16171496-16171576 1.6e-05 38_[+1]_34 chrII:13737036-13737116 1.6e-05 41_[+1]_31 chrX:14810041-14810121 1.6e-05 37_[+1]_35 chrX:7446614-7446694 1.6e-05 44_[+1]_28 chrV:6240875-6240955 2.8e-05 60_[+1]_12 chrX:6741207-6741287 2.8e-05 34_[+1]_38 chrV:5032359-5032439 2.8e-05 48_[+1]_24 chrIII:4273077-4273157 2.8e-05 41_[+1]_31 chrI:11994163-11994243 2.8e-05 35_[+1]_37 chrII:4745403-4745483 4.3e-05 55_[+1]_17 chrV:13796591-13796671 4.3e-05 26_[+1]_46 chrV:10536348-10536428 4.3e-05 67_[+1]_5 chrX:6916313-6916393 4.3e-05 47_[+1]_25 chrII:14600140-14600220 7.6e-05 2_[+1]_70 chrI:7563215-7563295 7.6e-05 17_[+1]_55 chrV:8610761-8610841 7.6e-05 53_[+1]_19 chrIII:5839589-5839669 7.6e-05 15_[+1]_57 chrV:12634905-12634985 7.6e-05 41_[+1]_31 chrII:10390600-10390680 8.9e-05 61_[+1]_11 chrI:7575348-7575428 8.9e-05 35_[+1]_37 chrV:11802570-11802650 8.9e-05 39_[+1]_33 chrX:6742973-6743053 8.9e-05 6_[+1]_66 chrIV:3652355-3652435 0.00011 43_[+1]_29 chrV:12157779-12157859 0.00011 31_[+1]_41 chrIV:7047771-7047851 0.00012 37_[+1]_35 chrII:2803076-2803156 0.00015 24_[+1]_48 chrX:10332479-10332559 0.00015 31_[+1]_41 chrIII:6897756-6897836 0.00017 26_[+1]_46 chrX:5468024-5468104 0.00017 26_[+1]_46 chrIV:11149166-11149246 0.00017 45_[+1]_27 chrIV:10782168-10782248 0.00019 8_[+1]_64 chrII:10389874-10389954 0.00025 52_[+1]_20 chrI:7658808-7658888 0.00025 32_[+1]_40 chrIV:7166729-7166809 0.00025 46_[+1]_26 chrX:6750234-6750314 0.00027 42_[+1]_30 chrV:13212799-13212879 0.00034 32_[+1]_40 chrV:2133704-2133784 0.00038 29_[+1]_43 chrX:17633319-17633399 0.00043 9_[+1]_63 chrI:12549929-12550009 0.00043 32_[+1]_40 chrI:7662235-7662315 0.00052 36_[+1]_36 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCACGTG MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TTCACGTG width=8 seqs=75 chrII:13462114-13462194 ( 32) TTCACGTG 1 chrIV:13395412-13395492 ( 47) TTCACGTG 1 chrV:5768517-5768597 ( 38) TTCACGTG 1 chrX:13358746-13358826 ( 46) TTCACGTG 1 chrX:6741769-6741849 ( 38) TTCACGTG 1 chrX:17636380-17636460 ( 14) TTCACGTG 1 chrV:12637357-12637437 ( 25) TTCACGTG 1 chrIII:6898699-6898779 ( 22) TTCACGTG 1 chrIV:8535127-8535207 ( 19) TTCACGTG 1 chrV:5271579-5271659 ( 72) TTCACGTG 1 chrX:13353615-13353695 ( 26) TTCACGTG 1 chrIII:4274664-4274744 ( 15) TTCACGTG 1 chrV:11799395-11799475 ( 44) TTCACGTG 1 chrIII:6904036-6904116 ( 27) TTCACGTG 1 chrX:6807526-6807606 ( 59) TTCACGTG 1 chrI:9167049-9167129 ( 54) TTCACGTG 1 chrII:13469328-13469408 ( 46) TTCACGTG 1 chrII:4747180-4747260 ( 50) TTCACGTG 1 chrIV:1454365-1454445 ( 7) TTCACGTG 1 chrII:9493815-9493895 ( 29) TTCACGTG 1 chrIV:3654360-3654440 ( 51) TTCACGTG 1 chrV:11922158-11922238 ( 36) TTCACGTG 1 chrX:17640963-17641043 ( 23) TTCACGTG 1 chrIV:6879074-6879154 ( 47) TTCACGTG 1 chrIV:9063327-9063407 ( 19) TTCACGTG 1 chrI:2291548-2291628 ( 37) TTCACGTG 1 chrX:13360054-13360134 ( 33) TTCACGTG 1 chrX:4146172-4146252 ( 21) TTCACGTG 1 chrI:10751744-10751824 ( 49) TTCACGTG 1 chrIII:8655540-8655620 ( 25) TTCACGTG 1 chrX:10333507-10333587 ( 43) TTCACGTG 1 chrIV:11962161-11962241 ( 47) TTCACGTG 1 chrII:14042997-14043077 ( 60) TTCACGTG 1 chrX:1479763-1479843 ( 23) TTCACGTG 1 chrI:7670054-7670134 ( 24) TTCACGTG 1 chrIV:16171496-16171576 ( 39) TTCACGTG 1 chrII:13737036-13737116 ( 42) TTCACGTG 1 chrX:14810041-14810121 ( 38) TTCACGTG 1 chrX:7446614-7446694 ( 45) TTCACGTG 1 chrV:6240875-6240955 ( 61) TGCACGTG 1 chrX:6741207-6741287 ( 35) TGCACGTG 1 chrV:5032359-5032439 ( 49) TGCACGTG 1 chrIII:4273077-4273157 ( 42) TGCACGTG 1 chrI:11994163-11994243 ( 36) TGCACGTG 1 chrII:4745403-4745483 ( 56) ATCACGTG 1 chrV:13796591-13796671 ( 27) ATCACGTG 1 chrV:10536348-10536428 ( 68) ATCACGTG 1 chrX:6916313-6916393 ( 48) ATCACGTG 1 chrII:14600140-14600220 ( 3) TTCACATG 1 chrI:7563215-7563295 ( 18) TTCACATG 1 chrV:8610761-8610841 ( 54) CTCACGTG 1 chrIII:5839589-5839669 ( 16) TTCACATG 1 chrV:12634905-12634985 ( 42) TTCACATG 1 chrII:10390600-10390680 ( 62) TCCACGTG 1 chrI:7575348-7575428 ( 36) TCCACGTG 1 chrV:11802570-11802650 ( 40) TCCACGTG 1 chrX:6742973-6743053 ( 7) TCCACGTG 1 chrIV:3652355-3652435 ( 44) TTCATGTG 1 chrV:12157779-12157859 ( 32) TTCATGTG 1 chrIV:7047771-7047851 ( 38) GTCACGTG 1 chrII:2803076-2803156 ( 25) TACACGTG 1 chrX:10332479-10332559 ( 32) AGCACGTG 1 chrIII:6897756-6897836 ( 27) TGCACATG 1 chrX:5468024-5468104 ( 27) CGCACGTG 1 chrIV:11149166-11149246 ( 46) TGCACATG 1 chrIV:10782168-10782248 ( 9) ATCACATG 1 chrII:10389874-10389954 ( 53) TTGACGTG 1 chrI:7658808-7658888 ( 33) CTCACATG 1 chrIV:7166729-7166809 ( 47) TGCATGTG 1 chrX:6750234-6750314 ( 43) CCCACGTG 1 chrV:13212799-13212879 ( 33) CTCATGTG 1 chrV:2133704-2133784 ( 30) GTCACATG 1 chrX:17633319-17633399 ( 10) CACACGTG 1 chrI:12549929-12550009 ( 33) AGCACATG 1 chrI:7662235-7662315 ( 37) AGCATGTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCACGTG MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 7081 bayes= 7.43803 E= 1.0e-108 -128 -158 -302 147 -328 -184 -43 139 -1287 204 -401 -1287 194 -1287 -1287 -1287 -1287 196 -1287 -209 -96 -1287 200 -1287 -1287 -1287 -1287 181 -1287 -1287 221 -1287 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCACGTG MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 75 E= 1.0e-108 0.106667 0.080000 0.026667 0.786667 0.026667 0.066667 0.160000 0.746667 0.000000 0.986667 0.013333 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.933333 0.000000 0.066667 0.133333 0.000000 0.866667 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCACGTG MEME-1 regular expression -------------------------------------------------------------------------------- TTCACGTG -------------------------------------------------------------------------------- Time 2.06 secs. ******************************************************************************** ******************************************************************************** MOTIF CACGTGWW MEME-2 width = 8 sites = 41 llr = 280 E-value = 5.5e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif CACGTGWW MEME-2 Description -------------------------------------------------------------------------------- Simplified A :9:3::55 pos.-specific C a17:::11 probability G :::7:a:2 matrix T ::3:9:33 bits 2.2 * 2.0 * 1.8 * * 1.5 ** * Relative 1.3 ** *** Entropy 1.1 ****** (9.9 bits) 0.9 ****** 0.7 ****** 0.4 ******* 0.2 ******** 0.0 -------- Multilevel CACGTGAA consensus TA TT sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACGTGWW MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIV:3654360-3654440 32 1.33e-05 CCGCCGGGTG CACGTGAA CCCCCGGGCG chrX:7446614-7446694 36 1.33e-05 acgtgaactt cacgtgaa cttcacgtga chrV:13796591-13796671 39 2.80e-05 CACGTGAGCC CACGTGAT AACATGTGCG chrII:4747180-4747260 39 2.80e-05 AAAGTGGATT CACGTGAT TCATTCACGT chrI:11994163-11994243 27 2.80e-05 CCCAGAAGCT CACGTGAT TTGCACGTGC chrIII:8655540-8655620 60 4.26e-05 GGCTGGCTGG CACGTGTA CCAGGCGAAA chrX:6750234-6750314 14 8.57e-05 TGGAGGCAAG CATGTGAA ACGCACATGA chrIII:6897756-6897836 18 8.57e-05 CAGATCTGTC CATGTGAA TTGCACATGA chrIII:6904036-6904116 51 8.57e-05 AAATGGGTCG CATGTGAA AAATAGATAG chrI:9167049-9167129 45 8.57e-05 GCAACATTTT CACATGAA ATTCACGTGC chrIV:3652355-3652435 24 8.57e-05 GTGGATCTCA CATGTGAA AAGTTCAGCA chrX:14810041-14810121 29 8.57e-05 AGCTTTGAAT CACATGAA TTTCACGTGA chrX:10333507-10333587 33 1.02e-04 ATGAAGTTTT CACGTGTT ACTTCACGTG chrX:5468024-5468104 42 1.14e-04 GTGCAAGTGG CACGTGCA GTCCGATAGC chrX:13358746-13358826 19 1.38e-04 GTCCATATGA CACGTGAC GGAAACGATG chrX:17640963-17641043 37 1.38e-04 CGTGTGTCGC CACGTGTG CTTCACGTAT chrIII:5839589-5839669 41 2.09e-04 ACATCAAATT CACATGTA GAAGTGTAAA chrV:12157779-12157859 45 2.09e-04 ATGTGCCCGC CACATGTA AAACACTGCA chrX:6741769-6741849 26 2.49e-04 CAATGCATTG CATGTGAG GAAATTCACG chrI:10751744-10751824 57 2.49e-04 AATTCACGTG CATGTGAG GAGGAGAGGC chrII:7528399-7528479 29 2.85e-04 AAAGTGTGCA CCCGTGAA AATATCGTGA chrIV:7047771-7047851 29 3.53e-04 AACCGAATCT CACATGTT TGTCACGTGG chrI:7575348-7575428 27 3.53e-04 AAAAAGTCAA CACATGTT TTCCACGTGA chrII:14042997-14043077 19 3.53e-04 GAACTCTCCC CACATGTT GTAGAGGGTG chrI:7658808-7658888 24 4.41e-04 TGAGAAGAAG CATGTGAC GCTCACATGT chrIII:4273077-4273157 33 4.55e-04 CCTGAAGCGA CCCGTGAT GTGCACGTGA chrX:6745669-6745749 64 5.04e-04 GATTATTGCA CACGAGAA AAACATGTG chrII:4745403-4745483 67 5.35e-04 TCACGTGAAG CCCGTGAG AACTTT chrX:17633319-17633399 64 5.80e-04 GGTAAACGTG AACGTGAA GCGGCAACG chrX:4530553-4530633 28 5.80e-04 GTATGCAATA AACGTGAA AACTGCGTGG chrI:2291548-2291628 28 6.28e-04 TCACATTTGA CATGTGCT GTTCACGTGA chrIV:11962161-11962241 38 6.28e-04 TCCCTCAATA CATGTGCT TTTCACGTGC chrV:12637357-12637437 38 7.24e-04 ACGTGCACCA CACATGTC TATCTTCCCG chrIV:11149166-11149246 59 7.24e-04 ACATGCGCTG CACGGGAA GTGGGAACAG chrX:1479763-1479843 14 7.24e-04 CTCTCAGCTC CACATGCG TTTCACGTGA chrIV:16171496-16171576 28 7.24e-04 AAACGAGAGA CACATGCG TTTTTCACGT chrI:7662235-7662315 28 7.79e-04 AAAGAATGAA CATGTGGA CAGCATGTGA chrI:7563215-7563295 9 8.03e-04 GAAATATA CACGAGTA TTTCACATGT chrV:5271579-5271659 34 8.75e-04 TCAGTTGTTC CCCGTGTG CCAGGAGACA chrIII:4274664-4274744 6 8.75e-04 AAATT CATATGTT GTTCACGTGA chrV:11799395-11799475 12 9.18e-04 GGCGCGCACG CACGTGGC GGAAGATCAT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACGTGWW MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV:3654360-3654440 1.3e-05 31_[+2]_41 chrX:7446614-7446694 1.3e-05 35_[+2]_37 chrV:13796591-13796671 2.8e-05 38_[+2]_34 chrII:4747180-4747260 2.8e-05 38_[+2]_34 chrI:11994163-11994243 2.8e-05 26_[+2]_46 chrIII:8655540-8655620 4.3e-05 59_[+2]_13 chrX:6750234-6750314 8.6e-05 13_[+2]_59 chrIII:6897756-6897836 8.6e-05 17_[+2]_55 chrIII:6904036-6904116 8.6e-05 50_[+2]_22 chrI:9167049-9167129 8.6e-05 44_[+2]_28 chrIV:3652355-3652435 8.6e-05 23_[+2]_49 chrX:14810041-14810121 8.6e-05 28_[+2]_44 chrX:10333507-10333587 0.0001 32_[+2]_40 chrX:5468024-5468104 0.00011 41_[+2]_31 chrX:13358746-13358826 0.00014 18_[+2]_54 chrX:17640963-17641043 0.00014 36_[+2]_36 chrIII:5839589-5839669 0.00021 40_[+2]_32 chrV:12157779-12157859 0.00021 44_[+2]_28 chrX:6741769-6741849 0.00025 25_[+2]_47 chrI:10751744-10751824 0.00025 56_[+2]_16 chrII:7528399-7528479 0.00028 28_[+2]_44 chrIV:7047771-7047851 0.00035 28_[+2]_44 chrI:7575348-7575428 0.00035 26_[+2]_46 chrII:14042997-14043077 0.00035 18_[+2]_54 chrI:7658808-7658888 0.00044 23_[+2]_49 chrIII:4273077-4273157 0.00045 32_[+2]_40 chrX:6745669-6745749 0.0005 63_[+2]_9 chrII:4745403-4745483 0.00053 66_[+2]_6 chrX:17633319-17633399 0.00058 63_[+2]_9 chrX:4530553-4530633 0.00058 27_[+2]_45 chrI:2291548-2291628 0.00063 27_[+2]_45 chrIV:11962161-11962241 0.00063 37_[+2]_35 chrV:12637357-12637437 0.00072 37_[+2]_35 chrIV:11149166-11149246 0.00072 58_[+2]_14 chrX:1479763-1479843 0.00072 13_[+2]_59 chrIV:16171496-16171576 0.00072 27_[+2]_45 chrI:7662235-7662315 0.00078 27_[+2]_45 chrI:7563215-7563295 0.0008 8_[+2]_64 chrV:5271579-5271659 0.00087 33_[+2]_39 chrIII:4274664-4274744 0.00087 5_[+2]_67 chrV:11799395-11799475 0.00092 11_[+2]_61 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACGTGWW MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CACGTGWW width=8 seqs=41 chrIV:3654360-3654440 ( 32) CACGTGAA 1 chrX:7446614-7446694 ( 36) CACGTGAA 1 chrV:13796591-13796671 ( 39) CACGTGAT 1 chrII:4747180-4747260 ( 39) CACGTGAT 1 chrI:11994163-11994243 ( 27) CACGTGAT 1 chrIII:8655540-8655620 ( 60) CACGTGTA 1 chrX:6750234-6750314 ( 14) CATGTGAA 1 chrIII:6897756-6897836 ( 18) CATGTGAA 1 chrIII:6904036-6904116 ( 51) CATGTGAA 1 chrI:9167049-9167129 ( 45) CACATGAA 1 chrIV:3652355-3652435 ( 24) CATGTGAA 1 chrX:14810041-14810121 ( 29) CACATGAA 1 chrX:10333507-10333587 ( 33) CACGTGTT 1 chrX:5468024-5468104 ( 42) CACGTGCA 1 chrX:13358746-13358826 ( 19) CACGTGAC 1 chrX:17640963-17641043 ( 37) CACGTGTG 1 chrIII:5839589-5839669 ( 41) CACATGTA 1 chrV:12157779-12157859 ( 45) CACATGTA 1 chrX:6741769-6741849 ( 26) CATGTGAG 1 chrI:10751744-10751824 ( 57) CATGTGAG 1 chrII:7528399-7528479 ( 29) CCCGTGAA 1 chrIV:7047771-7047851 ( 29) CACATGTT 1 chrI:7575348-7575428 ( 27) CACATGTT 1 chrII:14042997-14043077 ( 19) CACATGTT 1 chrI:7658808-7658888 ( 24) CATGTGAC 1 chrIII:4273077-4273157 ( 33) CCCGTGAT 1 chrX:6745669-6745749 ( 64) CACGAGAA 1 chrII:4745403-4745483 ( 67) CCCGTGAG 1 chrX:17633319-17633399 ( 64) AACGTGAA 1 chrX:4530553-4530633 ( 28) AACGTGAA 1 chrI:2291548-2291628 ( 28) CATGTGCT 1 chrIV:11962161-11962241 ( 38) CATGTGCT 1 chrV:12637357-12637437 ( 38) CACATGTC 1 chrIV:11149166-11149246 ( 59) CACGGGAA 1 chrX:1479763-1479843 ( 14) CACATGCG 1 chrIV:16171496-16171576 ( 28) CACATGCG 1 chrI:7662235-7662315 ( 28) CATGTGGA 1 chrI:7563215-7563295 ( 9) CACGAGTA 1 chrV:5271579-5271659 ( 34) CCCGTGTG 1 chrIII:4274664-4274744 ( 6) CATATGTT 1 chrV:11799395-11799475 ( 12) CACGTGGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACGTGWW MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 7081 bayes= 8.39314 E= 5.5e-001 -241 199 -1200 -1200 180 -129 -1200 -1200 -1200 161 -1200 -9 5 -1200 176 -1200 -241 -1200 -314 170 -1200 -1200 221 -1200 105 -97 -215 4 83 -129 -34 -9 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACGTGWW MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 41 E= 5.5e-001 0.048780 0.951220 0.000000 0.000000 0.902439 0.097561 0.000000 0.000000 0.000000 0.731707 0.000000 0.268293 0.268293 0.000000 0.731707 0.000000 0.048780 0.000000 0.024390 0.926829 0.000000 0.000000 1.000000 0.000000 0.536585 0.121951 0.048780 0.292683 0.463415 0.097561 0.170732 0.268293 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CACGTGWW MEME-2 regular expression -------------------------------------------------------------------------------- CA[CT][GA]TG[AT][AT] -------------------------------------------------------------------------------- Time 2.98 secs. ******************************************************************************** ******************************************************************************** MOTIF GAGAAGAR MEME-3 width = 8 sites = 10 llr = 94 E-value = 6.6e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif GAGAAGAR MEME-3 Description -------------------------------------------------------------------------------- Simplified A :918a:a6 pos.-specific C :::::::: probability G a192:a:3 matrix T :::::::1 bits 2.2 * * 2.0 * *** 1.8 * * *** 1.5 *** *** Relative 1.3 ******* Entropy 1.1 ******* (13.5 bits) 0.9 ******* 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GAGAAGAA consensus G G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAAGAR MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrI:12826716-12826796 53 1.20e-05 ATTCATACAA GAGAAGAA TTTCGATTGA chrI:7658808-7658888 15 1.20e-05 ATATTCTTCT GAGAAGAA GCATGTGACG chrX:10332479-10332559 71 1.20e-05 GATTGCAAGA GAGAAGAA AT chrX:10333507-10333587 70 1.20e-05 GAAATTAATG GAGAAGAA AGA chrX:6916313-6916393 64 2.19e-05 TGGACATTTT GAGAAGAG GGACACTTA chrV:10536348-10536428 51 4.01e-05 AAAAAAAATT GAGGAGAG TAGAAGAAAA chrI:10751744-10751824 65 4.01e-05 TGCATGTGAG GAGGAGAG GCAAATAG chrIV:10782168-10782248 60 5.33e-05 TTTCCTAATA GAGAAGAT ATTGGATTGG chrIII:844132-844212 69 6.32e-05 GTTCGTTGAT GGGAAGAA GGCT chrIII:7375637-7375717 20 7.76e-05 ACATATTTGT GAAAAGAA AACGACGAAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAAGAR MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrI:12826716-12826796 1.2e-05 52_[+3]_20 chrI:7658808-7658888 1.2e-05 14_[+3]_58 chrX:10332479-10332559 1.2e-05 70_[+3]_2 chrX:10333507-10333587 1.2e-05 69_[+3]_3 chrX:6916313-6916393 2.2e-05 63_[+3]_9 chrV:10536348-10536428 4e-05 50_[+3]_22 chrI:10751744-10751824 4e-05 64_[+3]_8 chrIV:10782168-10782248 5.3e-05 59_[+3]_13 chrIII:844132-844212 6.3e-05 68_[+3]_4 chrIII:7375637-7375717 7.8e-05 19_[+3]_53 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAAGAR MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GAGAAGAR width=8 seqs=10 chrI:12826716-12826796 ( 53) GAGAAGAA 1 chrI:7658808-7658888 ( 15) GAGAAGAA 1 chrX:10332479-10332559 ( 71) GAGAAGAA 1 chrX:10333507-10333587 ( 70) GAGAAGAA 1 chrX:6916313-6916393 ( 64) GAGAAGAG 1 chrV:10536348-10536428 ( 51) GAGGAGAG 1 chrI:10751744-10751824 ( 65) GAGGAGAG 1 chrIV:10782168-10782248 ( 60) GAGAAGAT 1 chrIII:844132-844212 ( 69) GGGAAGAA 1 chrIII:7375637-7375717 ( 20) GAAAAGAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAAGAR MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 7081 bayes= 10.4102 E= 6.6e+002 -997 -997 221 -997 179 -997 -111 -997 -138 -997 206 -997 162 -997 -11 -997 194 -997 -997 -997 -997 -997 221 -997 194 -997 -997 -997 121 -997 47 -151 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAAGAR MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 10 E= 6.6e+002 0.000000 0.000000 1.000000 0.000000 0.900000 0.000000 0.100000 0.000000 0.100000 0.000000 0.900000 0.000000 0.800000 0.000000 0.200000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.600000 0.000000 0.300000 0.100000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GAGAAGAR MEME-3 regular expression -------------------------------------------------------------------------------- GAG[AG]AGA[AG] -------------------------------------------------------------------------------- Time 3.88 secs. ******************************************************************************** ******************************************************************************** MOTIF TKTTCTCT MEME-4 width = 8 sites = 22 llr = 171 E-value = 5.7e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif TKTTCTCT MEME-4 Description -------------------------------------------------------------------------------- Simplified A :1:::::: pos.-specific C 32:1a:8: probability G :2:::::: matrix T 75a9:a2a bits 2.2 2.0 * 1.8 * ** * 1.5 * ** * Relative 1.3 ****** Entropy 1.1 ****** (11.2 bits) 0.9 * ****** 0.7 * ****** 0.4 * ****** 0.2 ******** 0.0 -------- Multilevel TTTTCTCT consensus CG sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TKTTCTCT MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrI:7563215-7563295 65 3.06e-05 ATCGATGCAT TTTTCTCT GCACTCTC chrIII:6897756-6897836 59 3.06e-05 AGATGTCTCA TTTTCTCT GCGTCTCAAC chrV:2133704-2133784 57 3.06e-05 TGCGCTTTAC TTTTCTCT ACTCCCCGCT chrII:8481267-8481347 59 5.38e-05 TCATCTAATC TGTTCTCT GTGCTCATTT chrI:11994163-11994243 6 5.38e-05 TTGGA TGTTCTCT ACACCCAGAA chrX:13329017-13329097 25 7.95e-05 ATATCTGTGA CTTTCTCT AGCCACTCTC chrI:12826716-12826796 29 7.95e-05 ctcgtcgtct ctttctct ctctctATTC chrX:6742973-6743053 53 7.95e-05 CAATACCATC CTTTCTCT CATTTCTCTC chrV:11922158-11922238 15 7.95e-05 TTCTGCCACT CTTTCTCT TATTCCGCCA chrII:10390600-10390680 15 1.05e-04 AGTGTTGTGT TCTTCTCT TTTTTTCGAT chrV:8661380-8661460 23 1.05e-04 ATCAGACATG TCTTCTCT TCTGTAGGTA chrIV:8535127-8535207 34 1.05e-04 GTGCCCCATG TCTTCTCT AAGTCTCTTC chrV:6239975-6240055 3 1.53e-04 AG TATTCTCT TATTTTTGGG chrI:9167049-9167129 22 2.60e-04 GCCTGAACAT TTTTCTTT GCGCTGCAAC chrV:13212799-13212879 50 2.60e-04 GCGGAGCATG CATTCTCT CCTCGTTTGT chrIV:9063327-9063407 60 2.60e-04 CGCTCACCAT TTTTCTTT GCTTCTCAAC chrIV:7166729-7166809 39 2.60e-04 GCCTGCGTCT CATTCTCT TGCATGTGCT chrX:14810041-14810121 4 2.60e-04 ACA TTTCCTCT TCCTTATAGC chrII:13462114-13462194 54 3.07e-04 ACGCGTTGCG TGTTCTTT GGTACAAAGT chrIV:7023928-7024008 49 3.07e-04 TGCTCATGCT TGTCCTCT CTTTGTCCTC chrI:7658808-7658888 59 4.11e-04 CTCTGTTGGC TCTCCTCT CACACTCTGC chrX:13360054-13360134 59 4.51e-04 CCCACTTAAT CGTTCTTT GACGTTGACA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TKTTCTCT MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrI:7563215-7563295 3.1e-05 64_[+4]_8 chrIII:6897756-6897836 3.1e-05 58_[+4]_14 chrV:2133704-2133784 3.1e-05 56_[+4]_16 chrII:8481267-8481347 5.4e-05 58_[+4]_14 chrI:11994163-11994243 5.4e-05 5_[+4]_67 chrX:13329017-13329097 7.9e-05 24_[+4]_48 chrI:12826716-12826796 7.9e-05 28_[+4]_44 chrX:6742973-6743053 7.9e-05 52_[+4]_20 chrV:11922158-11922238 7.9e-05 14_[+4]_58 chrII:10390600-10390680 0.00011 14_[+4]_58 chrV:8661380-8661460 0.00011 22_[+4]_50 chrIV:8535127-8535207 0.00011 33_[+4]_39 chrV:6239975-6240055 0.00015 2_[+4]_70 chrI:9167049-9167129 0.00026 21_[+4]_51 chrV:13212799-13212879 0.00026 49_[+4]_23 chrIV:9063327-9063407 0.00026 59_[+4]_13 chrIV:7166729-7166809 0.00026 38_[+4]_34 chrX:14810041-14810121 0.00026 3_[+4]_69 chrII:13462114-13462194 0.00031 53_[+4]_19 chrIV:7023928-7024008 0.00031 48_[+4]_24 chrI:7658808-7658888 0.00041 58_[+4]_14 chrX:13360054-13360134 0.00045 58_[+4]_14 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TKTTCTCT MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TKTTCTCT width=8 seqs=22 chrI:7563215-7563295 ( 65) TTTTCTCT 1 chrIII:6897756-6897836 ( 59) TTTTCTCT 1 chrV:2133704-2133784 ( 57) TTTTCTCT 1 chrII:8481267-8481347 ( 59) TGTTCTCT 1 chrI:11994163-11994243 ( 6) TGTTCTCT 1 chrX:13329017-13329097 ( 25) CTTTCTCT 1 chrI:12826716-12826796 ( 29) CTTTCTCT 1 chrX:6742973-6743053 ( 53) CTTTCTCT 1 chrV:11922158-11922238 ( 15) CTTTCTCT 1 chrII:10390600-10390680 ( 15) TCTTCTCT 1 chrV:8661380-8661460 ( 23) TCTTCTCT 1 chrIV:8535127-8535207 ( 34) TCTTCTCT 1 chrV:6239975-6240055 ( 3) TATTCTCT 1 chrI:9167049-9167129 ( 22) TTTTCTTT 1 chrV:13212799-13212879 ( 50) CATTCTCT 1 chrIV:9063327-9063407 ( 60) TTTTCTTT 1 chrIV:7166729-7166809 ( 39) CATTCTCT 1 chrX:14810041-14810121 ( 4) TTTCCTCT 1 chrII:13462114-13462194 ( 54) TGTTCTTT 1 chrIV:7023928-7024008 ( 49) TGTCCTCT 1 chrI:7658808-7658888 ( 59) TCTCCTCT 1 chrX:13360054-13360134 ( 59) CGTTCTTT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TKTTCTCT MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 7081 bayes= 7.87672 E= 5.7e+002 -1110 41 -1110 126 -93 -40 7 67 -1110 -1110 -1110 181 -1110 -81 -1110 160 -1110 206 -1110 -1110 -1110 -1110 -1110 181 -1110 177 -1110 -65 -1110 -1110 -1110 181 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TKTTCTCT MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 22 E= 5.7e+002 0.000000 0.318182 0.000000 0.681818 0.136364 0.181818 0.227273 0.454545 0.000000 0.000000 0.000000 1.000000 0.000000 0.136364 0.000000 0.863636 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.818182 0.000000 0.181818 0.000000 0.000000 0.000000 1.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TKTTCTCT MEME-4 regular expression -------------------------------------------------------------------------------- [TC][TG]TTCTCT -------------------------------------------------------------------------------- Time 4.83 secs. ******************************************************************************** ******************************************************************************** MOTIF GGGGAGGG MEME-5 width = 8 sites = 2 llr = 24 E-value = 2.1e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGGGAGGG MEME-5 Description -------------------------------------------------------------------------------- Simplified A ::::a::: pos.-specific C :::::::: probability G aaaa:aaa matrix T :::::::: bits 2.2 **** *** 2.0 ******** 1.8 ******** 1.5 ******** Relative 1.3 ******** Entropy 1.1 ******** (17.4 bits) 0.9 ******** 0.7 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel GGGGAGGG consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGAGGG MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIV:13395412-13395492 30 5.70e-06 AGGCGCCCCC GGGGAGGG CACGCGTTGT chrX:17640963-17641043 11 5.70e-06 AGAAGAAAGG GGGGAGGG GGACTTCACG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGAGGG MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV:13395412-13395492 5.7e-06 29_[+5]_43 chrX:17640963-17641043 5.7e-06 10_[+5]_62 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGAGGG MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGGGAGGG width=8 seqs=2 chrIV:13395412-13395492 ( 30) GGGGAGGG 1 chrX:17640963-17641043 ( 11) GGGGAGGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGAGGG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 7081 bayes= 11.7893 E= 2.1e+003 -765 -765 221 -765 -765 -765 221 -765 -765 -765 221 -765 -765 -765 221 -765 194 -765 -765 -765 -765 -765 221 -765 -765 -765 221 -765 -765 -765 221 -765 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGAGGG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 2 E= 2.1e+003 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 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 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGAGGG MEME-5 regular expression -------------------------------------------------------------------------------- GGGGAGGG -------------------------------------------------------------------------------- Time 7.46 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:7446614-7446694 4.36e-04 24_[+2(1.33e-05)]_3_[+2(1.33e-05)]_\ 3_[+2(1.33e-05)]_26 chrX:4530553-4530633 2.60e-01 80 chrX:6916313-6916393 8.52e-05 47_[+1(4.28e-05)]_8_[+3(2.19e-05)]_\ 9 chrI:11994163-11994243 6.01e-05 5_[+4(5.38e-05)]_13_[+2(2.80e-05)]_\ 1_[+1(2.82e-05)]_37 chrV:12634905-12634985 3.85e-02 41_[+1(7.56e-05)]_31 chrV:12157779-12157859 3.25e-02 80 chrX:14810041-14810121 1.07e-04 28_[+2(8.57e-05)]_3_[+2(1.33e-05)]_\ 33 chrII:13737036-13737116 2.65e-04 43_[+2(1.33e-05)]_29 chrIV:16171496-16171576 1.03e-03 38_[+1(1.60e-05)]_34 chrI:7670054-7670134 1.36e-04 25_[+2(1.33e-05)]_47 chrX:1479763-1479843 1.01e-03 24_[+2(1.33e-05)]_48 chrII:14042997-14043077 3.49e-04 61_[+2(1.33e-05)]_11 chrIV:11962161-11962241 3.44e-03 46_[+1(1.60e-05)]_26 chrX:10333507-10333587 2.55e-05 30_[+1(1.60e-05)]_4_[+1(1.60e-05)]_\ 19_[+3(1.20e-05)]_3 chrIII:8655540-8655620 1.58e-03 24_[+1(1.60e-05)]_27_[+2(4.26e-05)]_\ 13 chrIII:844132-844212 7.13e-02 68_[+3(6.32e-05)]_4 chrI:10751744-10751824 2.66e-05 48_[+1(1.60e-05)]_8_[+3(4.01e-05)]_\ 8 chrX:4146172-4146252 7.24e-04 22_[+2(1.33e-05)]_50 chrIV:11149166-11149246 9.68e-03 80 chrI:12549929-12550009 5.65e-03 80 chrX:13360054-13360134 1.55e-03 32_[+1(1.60e-05)]_40 chrI:2291548-2291628 5.65e-05 38_[+2(1.33e-05)]_34 chrX:6745669-6745749 1.25e-02 80 chrIV:7166729-7166809 1.40e-02 80 chrIV:9063327-9063407 5.46e-04 18_[+1(1.60e-05)]_54 chrV:13212799-13212879 8.86e-03 80 chrX:10332479-10332559 1.18e-05 33_[+2(1.33e-05)]_29_[+3(1.20e-05)]_\ 2 chrIV:6879074-6879154 1.90e-05 48_[+2(1.33e-05)]_24 chrIII:4273077-4273157 6.32e-03 41_[+1(2.82e-05)]_31 chrV:5032359-5032439 1.41e-03 48_[+1(2.82e-05)]_24 chrIII:5839589-5839669 1.22e-02 15_[+1(7.56e-05)]_15_[+1(7.56e-05)]_\ 34 chrV:10536348-10536428 8.44e-05 50_[+3(4.01e-05)]_9_[+1(4.28e-05)]_\ 5 chrX:17640963-17641043 2.28e-06 10_[+5(5.70e-06)]_4_[+1(1.60e-05)]_\ 50 chrX:6741207-6741287 1.71e-03 34_[+1(2.82e-05)]_38 chrV:11922158-11922238 1.78e-05 14_[+4(7.95e-05)]_15_[+2(1.33e-05)]_\ 35 chrIV:3654360-3654440 5.87e-04 31_[+2(1.33e-05)]_13_[+2(1.33e-05)]_\ 20 chrX:5468024-5468104 1.17e-02 80 chrII:9493815-9493895 7.77e-03 28_[+1(1.60e-05)]_44 chrIV:1454365-1454445 2.74e-03 6_[+1(1.60e-05)]_66 chrV:2133704-2133784 4.45e-05 56_[+4(3.06e-05)]_16 chrII:4747180-4747260 3.47e-03 36_[+1(1.60e-05)]_5_[+1(1.60e-05)]_\ 23 chrX:2904067-2904147 8.04e-01 80 chrI:7658808-7658888 4.50e-05 14_[+3(1.20e-05)]_58 chrII:13469328-13469408 6.71e-05 47_[+2(1.33e-05)]_25 chrIV:3652355-3652435 4.48e-03 23_[+2(8.57e-05)]_14_[+2(8.57e-05)]_\ 27 chrV:6240875-6240955 2.20e-02 60_[+1(2.82e-05)]_12 chrX:17633319-17633399 1.23e-02 80 chrII:2803076-2803156 3.26e-02 80 chrX:6742973-6743053 1.57e-03 6_[+1(8.90e-05)]_38_[+4(7.95e-05)]_\ 20 chrI:9167049-9167129 4.52e-04 42_[+1(7.56e-05)]_3_[+1(1.60e-05)]_\ 19 chrX:6807526-6807606 2.47e-03 58_[+1(1.60e-05)]_14 chrII:13469906-13469986 7.58e-01 80 chrIII:6904036-6904116 9.61e-04 28_[+2(1.33e-05)]_14_[+2(8.57e-05)]_\ 22 chrI:7662235-7662315 2.80e-03 38_[+2(8.57e-05)]_34 chrV:11799395-11799475 1.37e-03 43_[+1(1.60e-05)]_29 chrV:13796591-13796671 2.28e-03 26_[+1(4.28e-05)]_4_[+2(2.80e-05)]_\ 34 chrIII:4274664-4274744 1.01e-04 16_[+2(1.33e-05)]_56 chrIV:7023928-7024008 1.15e-01 80 chrI:12826716-12826796 7.68e-04 28_[+4(7.95e-05)]_16_[+3(1.20e-05)]_\ 20 chrV:8610761-8610841 2.75e-03 53_[+1(7.56e-05)]_19 chrII:8481267-8481347 1.41e-01 58_[+4(5.38e-05)]_14 chrIII:6897756-6897836 1.95e-04 17_[+2(8.57e-05)]_3_[+2(8.57e-05)]_\ 22_[+4(3.06e-05)]_14 chrIV:3656018-3656098 8.67e-01 80 chrIV:1867188-1867268 6.55e-01 80 chrX:13353615-13353695 9.96e-03 25_[+1(1.60e-05)]_47 chrII:10389874-10389954 1.14e-01 80 chrV:11802570-11802650 5.27e-03 39_[+1(8.90e-05)]_33 chrX:17631855-17631935 8.14e-01 80 chrV:5271579-5271659 1.87e-02 71_[+1(1.60e-05)]_1 chrIV:6881283-6881363 9.60e-01 80 chrII:4745403-4745483 2.54e-03 57_[+2(1.33e-05)]_15 chrIV:8535127-8535207 8.93e-04 18_[+1(1.60e-05)]_54 chrI:7563215-7563295 8.57e-04 17_[+1(7.56e-05)]_39_[+4(3.06e-05)]_\ 8 chrIII:6898699-6898779 9.81e-04 23_[+2(1.33e-05)]_49 chrV:12637357-12637437 5.79e-04 24_[+1(1.60e-05)]_48 chrI:7575348-7575428 4.36e-04 37_[+2(1.33e-05)]_35 chrV:6239975-6240055 4.01e-02 80 chrX:13351073-13351153 1.38e-01 80 chrIII:7375637-7375717 7.44e-02 19_[+3(7.76e-05)]_53 chrX:17636380-17636460 4.53e-03 4_[+1(7.56e-05)]_1_[+1(1.60e-05)]_\ 59 chrX:6741769-6741849 3.37e-03 37_[+1(1.60e-05)]_35 chrX:13358746-13358826 1.59e-03 45_[+1(1.60e-05)]_27 chrV:8661380-8661460 1.12e-02 80 chrV:5768517-5768597 3.95e-04 39_[+2(1.33e-05)]_33 chrII:7528399-7528479 8.54e-02 80 chrIV:5762949-5763029 8.88e-01 80 chrIV:13395412-13395492 1.15e-06 29_[+5(5.70e-06)]_9_[+1(1.60e-05)]_\ 26 chrIV:10782168-10782248 2.13e-03 59_[+3(5.33e-05)]_13 chrII:14600140-14600220 3.25e-02 2_[+1(7.56e-05)]_70 chrX:13329017-13329097 1.53e-01 24_[+4(7.95e-05)]_48 chrX:3090181-3090261 3.90e-01 80 chrX:6750234-6750314 1.08e-02 13_[+2(8.57e-05)]_59 chrII:10390600-10390680 3.57e-04 63_[+2(2.80e-05)]_9 chrII:13462114-13462194 6.14e-07 33_[+2(1.33e-05)]_39 chrX:6736672-6736752 6.10e-01 80 chrIV:4472878-4472958 5.33e-01 80 chrIV:7047771-7047851 1.58e-02 80 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c28n01.farnam.hpc.yale.internal ********************************************************************************