******************************************************************************** MEME - Motif discovery tool ******************************************************************************** MEME version 4.12.0 (Release date: Tue Jun 27 16:22:50 2017 -0700) For further information on how to interpret these results or to get a copy of the MEME software please access http://meme-suite.org . This file may be used as input to the MAST algorithm for searching sequence databases for matches to groups of motifs. MAST is available for interactive use and downloading at http://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 ******************************************************************************** DATAFILE= /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--SOK2/seqs-sampled ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrII:347425-347921 1.0000 100 chrVIII:294000-294451 1.0000 100 chrXV:92075-94735 1.0000 100 chrVII:115345-115723 1.0000 100 chrXI:333943-335006 1.0000 100 chrI:138980-139345 1.0000 100 chrIV:1269877-1271071 1.0000 100 chrXVI:831893-832316 1.0000 100 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chrVIII:48129-48970 1.0000 100 chrXII:645600-646941 1.0000 100 chrII:642832-643229 1.0000 100 chrIV:1354390-1355597 1.0000 100 chrVII:397876-400146 1.0000 100 chrIV:974126-974770 1.0000 100 chrXI:554173-554687 1.0000 100 chrIV:359360-359781 1.0000 100 chrXIII:761117-763120 1.0000 100 chrVIII:50212-51691 1.0000 100 chrXIII:758937-760563 1.0000 100 chrV:166818-167651 1.0000 100 chrXV:464286-464723 1.0000 100 chrIV:330986-333353 1.0000 100 chrVIII:134112-134568 1.0000 100 chrII:167493-169658 1.0000 100 chrXI:458009-458932 1.0000 100 chrXI:533649-533923 1.0000 100 chrXII:903306-904481 1.0000 100 chrVII:122100-122403 1.0000 100 chrIV:835811-836251 1.0000 100 chrXI:518607-521251 1.0000 100 chrVII:363224-364434 1.0000 100 chrI:180956-181474 1.0000 100 chrXV:444582-446233 1.0000 100 chrVIII:16467-18510 1.0000 100 chrX:542815-542915 1.0000 100 chrXV:741749-742600 1.0000 100 chrII:679827-682473 1.0000 100 chrIX:338611-339749 1.0000 100 chrVII:440491-440974 1.0000 100 chrIV:1361930-1362757 1.0000 100 chrIV:667741-668195 1.0000 100 chrXV:866573-868147 1.0000 100 chrIII:188-1041 1.0000 100 chrXII:720601-721403 1.0000 100 chrXII:97172-97827 1.0000 100 chrXIV:217221-217976 1.0000 100 chrXIII:499041-500756 1.0000 100 chrX:466557-466657 1.0000 100 chrXVI:435674-436162 1.0000 100 chrV:138463-142608 1.0000 100 chrXVI:730941-731322 1.0000 100 chrIX:197356-197803 1.0000 100 chrXVI:927569-928253 1.0000 100 chrV:305837-307483 1.0000 100 chrXIV:518836-519126 1.0000 100 chrIV:116330-118233 1.0000 100 chrXI:551521-552654 1.0000 100 chrIV:83441-83800 1.0000 100 chrXIV:10097-10461 1.0000 100 chrVII:640524-642080 1.0000 100 chrV:18588-19282 1.0000 100 chrVII:364888-366750 1.0000 100 chrXI:8589-8817 1.0000 100 chrVIII:554108-554730 1.0000 100 chrXV:571738-572138 1.0000 100 chrIX:325747-326226 1.0000 100 chrIV:1352338-1353439 1.0000 100 chrXIV:575079-577538 1.0000 100 chrVI:131310-131619 1.0000 100 chrIV:306411-307847 1.0000 100 chrII:236495-237349 1.0000 100 chrIX:210528-211033 1.0000 100 chrVI:106484-106847 1.0000 100 chrIV:1344670-1346035 1.0000 100 chrVII:384127-385082 1.0000 100 chrXV:977172-981144 1.0000 100 chrI:68292-69513 1.0000 100 chrIV:229571-231014 1.0000 100 chrXV:1003901-1004984 1.0000 100 chrX:353999-354099 1.0000 100 chrXV:877227-878009 1.0000 100 chrVII:227291-228560 1.0000 100 chrV:434389-435159 1.0000 100 chrXIV:241475-241862 1.0000 100 chrXVI:213070-215979 1.0000 100 chrVII:345807-346703 1.0000 100 chrII:163058-164045 1.0000 100 chrXIV:88888-89952 1.0000 100 chrIV:118417-118900 1.0000 100 chrVIII:451155-453082 1.0000 100 chrXII:1051949-1052200 1.0000 100 chrXV:384569-385123 1.0000 100 ******************************************************************************** ******************************************************************************** COMMAND LINE SUMMARY ******************************************************************************** This information can also be useful in the event you wish to report a problem with the MEME software. command: meme /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--SOK2/seqs-sampled -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--SOK2/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 30 -bfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--SOK2/background -dna -revcomp -nostatus model: mod= zoops nmotifs= 3 evt= inf object function= E-value of product of p-values width: minw= 6 maxw= 30 width: wg= 11 ws= 1 endgaps= yes nsites: minsites= 2 maxsites= 600 wnsites= 0.8 theta: spmap= uni spfuzz= 0.5 global: substring= yes branching= no wbranch= no em: prior= dirichlet b= 0.01 maxiter= 50 distance= 1e-05 data: n= 60000 N= 600 shuffle= -1 strands: + - sample: seed= 0 ctfrac= -1 maxwords= -1 Letter frequencies in dataset: A 0.296 C 0.204 G 0.204 T 0.296 Background letter frequencies (from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--SOK2/background): A 0.303 C 0.197 G 0.197 T 0.303 ******************************************************************************** ******************************************************************************** MOTIF AAYCSDRRGGTCCBSGGTTCGATYCCSVGH MEME-1 width = 30 sites = 61 llr = 1232 E-value = 1.0e-237 ******************************************************************************** -------------------------------------------------------------------------------- Motif AAYCSDRRGGTCCBSGGTTCGATYCCSVGH MEME-1 Description -------------------------------------------------------------------------------- Simplified A 58::1246232:2:12::::3a2::::2:2 pos.-specific C 3:472::11:18644::::a::24a85414 probability G 1:13445367::2458a:::7:1:::546: matrix T 115:231:1:72:21::aa:::56:21:23 bits 2.3 * * 2.1 * * * 1.9 * * * 1.6 * ** * * Relative 1.4 * * ****** * Entropy 1.2 * * * ******* ** (29.1 bits) 0.9 * * * * ******* *** 0.7 *** ** ** ******* ****** 0.5 *** **************** ******* 0.2 ********************** ******* 0.0 ------------------------------ Multilevel AATCGGGAGGTCCGGGGTTCGATTCCCCGC consensus C CGCTAG AA CC A AC GGTT sequence TA T A A -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAYCSDRRGGTCCBSGGTTCGATYCCSVGH MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- ------------------------------ chrIV:1016964-1017457 - 54 7.06e-14 ATCACGTTCT CACCGTGGAGACCGGGGTTCGACTCCCCGC TTCGGAGTTT chrIV:83441-83800 + 12 1.69e-13 CCAACGTTGC CATCGTTGGGCCCCCGGTTCGATTCCGGGC TTGCGCAAGT chrXVI:572052-572584 + 35 1.69e-13 CCAACGTTGC CATCGTTGGGCCCCCGGTTCGATTCCGGGC TTGCGCAATT chrX:531591-531691 + 13 1.69e-13 CCAACGTTGC CATCGTTGGGCCCCCGGTTCGATTCCGGGC TTGCGCAGTT chrVII:845478-845977 + 6 1.69e-13 GTTGC CATCGTTGGGCCCCCGGTTCGATTCCGGGC TTGCGCAATG chrX:396575-396675 - 30 1.69e-13 CCAACGTTGC CATCGTTGGGCCCCCGGTTCGATTCCGGGC TTGCGCATTT chrV:354683-355351 + 2 2.36e-13 T CACCGTGGAGACCGGGGTTCGACTCCCCGT ATCGGAGTAC chrXI:140655-141487 - 4 2.36e-13 ATCACGCTTT CACCGTGGAGACCGGGGTTCGACTCCCCGT ATC chrXVI:209993-210474 - 16 2.36e-13 ATCACGCTTT CACCGTGGAGACCGGGGTTCGACTCCCCGT ATCGGAGTTT chrII:644988-645430 + 43 2.36e-13 ATCACGCTTT CACCGTGGAGACCGGGGTTCGACTCCCCGT ATCGGAGTTA chrV:487100-487595 - 41 2.36e-13 ATCACGCTTT CACCGTGGAGACCGGGGTTCGACTCCCCGT ATCGGAGTAT chrXIII:290594-291140 + 19 2.36e-13 ATCACGCTTT CACCGTGGAGACCGGGGTTCGACTCCCCGT ATCGGAGTCT chrXIV:631668-632134 - 2 7.20e-13 CTCGCTTAGG GTGCGGGAGGTCCCGGGTTCGAGTCCCGGC T chrXII:1051949-1052200 - 54 2.71e-12 CCGTGCTAAT AACGCGGGGATCAGCGGTTCGATCCCGCTA GAGACCATTA chrXVI:880109-880547 - 25 2.71e-12 CCGTGCTAAT AACGCGGGGATCAGCGGTTCGATCCCGCTA GAGACCATTT chrV:443049-443370 - 50 2.71e-12 CCGTGCTAAT AACGCGGGGATCAGCGGTTCGATCCCGCTA GAGACCATAT chrII:197266-197820 + 38 2.71e-12 CCGTGCTAAT AACGCGGGGATCAGCGGTTCGATCCCGCTA GAGACCATTT chrVIII:134112-134568 + 66 1.35e-11 TTTCGGTTTT GATCCGGACAACCCCGGTTCGAATCCGGGT AGGAC chrIV:644995-645360 - 33 1.35e-11 TTTCGGTTTT GATCCGGACAACCCCGGTTCGAATCCGGGT AGGACCTTTT chrIV:802585-802988 - 2 1.35e-11 TTTCGGTTTT GATCCGGACAACCCCGGTTCGAATCCGGGT A chrV:130838-131405 - 18 2.84e-11 TTTCGGTTTT GATCCGAACAACCCCGGTTCGAATCCGGGT AAGACCTATT chrXV:464286-464723 + 61 5.13e-11 AAGACAAAGC ATGCGAGAGGCCCTGGGTTCAATTCCCAGC TCGCCCCTTT chrV:435578-435996 - 22 1.26e-10 TATGACTCTT AATCATAAGGTTAGGGGTTCGAGCCCCCTA CAGGGCTTTC chrIX:300004-300508 - 29 1.26e-10 TATGACTCTT AATCATAAGGTTAGGGGTTCGAGCCCCCTA CAGGGCTATC chrXI:578724-579358 + 33 1.74e-10 TAAGCAAGGA TACCGAAATGTCAGGGGTTCGAGCCCCCTA TGAGGAGTTC chrXVI:768991-769466 - 36 1.74e-10 TAAGCAAGGA TACCGAAATGTCAGGGGTTCGAGCCCCCTA TGAGGAGTTC chrVII:115345-115723 + 63 1.74e-10 TAAGCAAGGA TACCGAAATGTCAGGGGTTCGAGCCCCCTA TGAGGAGT chrXIV:374697-375111 + 69 2.39e-10 TCGGTCAAGT CATCTGGAGGTCCTGTGTTCGATCCACAGA GT chrXIII:131656-132069 - 20 2.65e-10 TCTGACTTCT AATCAGAAGATTATGGGTTCGACCCCCATC GTGAGTGCTT chrXV:353903-354291 - 1 4.85e-10 CCACACTAGT AATGTGGAGATCATCGGTTCAAATCCGATT chrII:266209-266648 + 36 4.85e-10 CCACACTAGT AATGTGGAGATCATCGGTTCAAATCCGATT GGAAGCATTT chrX:197191-197291 - 59 6.50e-10 CTCCCTTAGC ATGGGAGAGGTCTCCGGTTCGATTCCGGAC TCGTCCAATT chrXIII:321042-321311 - 28 6.50e-10 CTCCCTTAGC ATGGGAGAGGTCTCCGGTTCGATTCCGGAC TCGTCCATTT chrXVI:856751-857186 + 20 6.50e-10 CTCCCTTAGC ATGGGAGAGGTCTCCGGTTCGATTCCGGAC TCGTCCATTT chrIV:619714-620207 - 66 7.16e-10 CTACG AACCAGAAGATTCCAGGTTCAAGTCCTGGC GGGGAAGATT chrXI:490766-491334 + 4 7.16e-10 ACG AACCAGAAGATTCCAGGTTCAAGTCCTGGC GGGGAAGAAT chrVII:440491-440974 - 41 7.87e-10 TCGGTCAAGT TATCTGGAGGTCCTGTGTTCGATCCACAGA ATTCGCATAA chrVII:287125-287688 - 1 7.87e-10 ATAAGATTGC AATCGAAGGGTTGCAGGTTCAATTCCTGTC chrX:415742-415842 - 2 7.87e-10 ATAAGATTGC AATCGAAGGGTTGCAGGTTCAATTCCTGTC C chrIV:1095146-1095650 - 29 7.87e-10 TTGGTCAAGA TATCTGGAGGTCCTGTGTTCGATCCACAGA GTTCGCATTT chrVII:412095-412581 - 13 7.87e-10 TCTGCTTAAC ACGCAGAACGTCCCCAGTTCGATCCTGGGC GAAATCAAGT chrXI:302713-303232 + 65 7.87e-10 ATAAGATTGC AATCGAAGGGTTGCAGGTTCAATTCCTGTC CGTTTC chrXIII:586419-586895 - 36 7.87e-10 TCTGCTTAAC ACGCAGAACGTCCCCAGTTCGATCCTGGGC GAAATCATTT chrII:326574-327056 - 34 1.26e-09 TCGCCTTTAC ACGGCGAAGATCCCGAGTTCGAACCTCGGT TGGATCAAAC chrIV:884278-884632 + 52 1.26e-09 CTTTAAAAGC AACGCGACCGTCGTGGGTTCAAACCCCACC TCGAGCACTT chrVI:167291-167681 + 53 1.65e-09 ACCACTACGA AATCTTGAGATCGGGCGTTCGACTCGCCCC CGGGAGATAT chrIV:946162-946621 + 23 1.65e-09 ATCACTACGA AATCTTGAGATCGGGCGTTCGACTCGCCCC CGGGAGATTT chrIII:149751-150151 + 54 1.80e-09 CAGGGCTCAT AACCCTGATGTCCTCGGATCGAAACCGAGC GGCGCTATTA chrX:517658-517758 - 5 1.80e-09 CAGGGCTCAT AACCCTGATGTCCTCGGATCGAAACCGAGC GGCG chrXIII:572669-573119 - 46 1.97e-09 TCAGTCTCAT AATCTGAAGGTCGAGAGTTCGAACCTCCCC TGGAGCACAT chrXVI:435674-436162 - 32 8.09e-09 GCAGATTGCA AATCTGTTGGTCCTTAGTTCGATCCTGAGT GCGAGCTTTC chrII:642832-643229 - 34 8.09e-09 GCAGATTGCA AATCTGTTGGTCCTTAGTTCGATCCTGAGT GCGAGCTTCT chrVIII:466830-467293 + 14 1.28e-08 TTGCACTTGT AATGCAAAGGTCGCTAGTTCAATTCTGGCA GGTGGCATTA chrXVI:810591-810867 + 34 1.60e-08 TGCGACTGTT AATCGCAAGATCGTGAGTTCAACCCTCACT GGGGTCGTAT chrIII:127589-127878 + 70 1.60e-08 TGCGACTGTT AATCGCAAGATCGTGAGTTCAACCCTCACT G chrII:405681-406362 + 24 1.72e-08 GGGCGCTTGT CGCGTGCCAGATCGGGGTTCAATTCCCCGT CGCGGAGATT chrXI:513122-513590 - 33 1.72e-08 GGGCGCTTGT CGCGTGCCAGATCGGGGTTCAATTCCCCGT CGCGGAGATT chrX:204549-204649 + 19 1.72e-08 GGGCGCTTGT CGCGTGCCAGATCGGGGTTCAATTCCCCGT CGCGGAGATT chrXVI:744083-744590 + 33 3.97e-08 TTGCACTTGT AATGCAAAGGTCGTTAGTTCAATTCTGACA GGTGGCAAAA chrII:347425-347921 - 37 4.84e-08 AAAAAAATAT TACTGAAGGATGCGAGGTTCGAACTCGCGC GGACAACCGT chrIV:519661-519949 - 45 5.51e-08 AAAAATAAGT TATTGAAGGATGCGAGGTTCGAACTCGCGC GGACAACCGT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAYCSDRRGGTCCBSGGTTCGATYCCSVGH MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV:1016964-1017457 7.1e-14 53_[-1]_17 chrIV:83441-83800 1.7e-13 11_[+1]_59 chrXVI:572052-572584 1.7e-13 34_[+1]_36 chrX:531591-531691 1.7e-13 12_[+1]_58 chrVII:845478-845977 1.7e-13 5_[+1]_65 chrX:396575-396675 1.7e-13 29_[-1]_41 chrV:354683-355351 2.4e-13 1_[+1]_69 chrXI:140655-141487 2.4e-13 3_[-1]_67 chrXVI:209993-210474 2.4e-13 15_[-1]_55 chrII:644988-645430 2.4e-13 42_[+1]_28 chrV:487100-487595 2.4e-13 40_[-1]_30 chrXIII:290594-291140 2.4e-13 18_[+1]_52 chrXIV:631668-632134 7.2e-13 1_[-1]_69 chrXII:1051949-1052200 2.7e-12 53_[-1]_17 chrXVI:880109-880547 2.7e-12 24_[-1]_46 chrV:443049-443370 2.7e-12 49_[-1]_21 chrII:197266-197820 2.7e-12 37_[+1]_33 chrVIII:134112-134568 1.3e-11 65_[+1]_5 chrIV:644995-645360 1.3e-11 32_[-1]_38 chrIV:802585-802988 1.3e-11 1_[-1]_69 chrV:130838-131405 2.8e-11 17_[-1]_53 chrXV:464286-464723 5.1e-11 60_[+1]_10 chrV:435578-435996 1.3e-10 21_[-1]_49 chrIX:300004-300508 1.3e-10 28_[-1]_42 chrXI:578724-579358 1.7e-10 32_[+1]_38 chrXVI:768991-769466 1.7e-10 35_[-1]_35 chrVII:115345-115723 1.7e-10 62_[+1]_8 chrXIV:374697-375111 2.4e-10 68_[+1]_2 chrXIII:131656-132069 2.6e-10 19_[-1]_51 chrXV:353903-354291 4.9e-10 [-1]_70 chrII:266209-266648 4.9e-10 35_[+1]_35 chrX:197191-197291 6.5e-10 58_[-1]_12 chrXIII:321042-321311 6.5e-10 27_[-1]_43 chrXVI:856751-857186 6.5e-10 19_[+1]_51 chrIV:619714-620207 7.2e-10 65_[-1]_5 chrXI:490766-491334 7.2e-10 3_[+1]_67 chrVII:440491-440974 7.9e-10 40_[-1]_30 chrVII:287125-287688 7.9e-10 [-1]_70 chrX:415742-415842 7.9e-10 1_[-1]_69 chrIV:1095146-1095650 7.9e-10 28_[-1]_42 chrVII:412095-412581 7.9e-10 12_[-1]_58 chrXI:302713-303232 7.9e-10 64_[+1]_6 chrXIII:586419-586895 7.9e-10 35_[-1]_35 chrII:326574-327056 1.3e-09 33_[-1]_37 chrIV:884278-884632 1.3e-09 51_[+1]_19 chrVI:167291-167681 1.6e-09 52_[+1]_18 chrIV:946162-946621 1.6e-09 22_[+1]_48 chrIII:149751-150151 1.8e-09 53_[+1]_17 chrX:517658-517758 1.8e-09 4_[-1]_66 chrXIII:572669-573119 2e-09 45_[-1]_25 chrXVI:435674-436162 8.1e-09 31_[-1]_39 chrII:642832-643229 8.1e-09 33_[-1]_37 chrVIII:466830-467293 1.3e-08 13_[+1]_57 chrXVI:810591-810867 1.6e-08 33_[+1]_37 chrIII:127589-127878 1.6e-08 69_[+1]_1 chrII:405681-406362 1.7e-08 23_[+1]_47 chrXI:513122-513590 1.7e-08 32_[-1]_38 chrX:204549-204649 1.7e-08 18_[+1]_52 chrXVI:744083-744590 4e-08 32_[+1]_38 chrII:347425-347921 4.8e-08 36_[-1]_34 chrIV:519661-519949 5.5e-08 44_[-1]_26 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAYCSDRRGGTCCBSGGTTCGATYCCSVGH MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF AAYCSDRRGGTCCBSGGTTCGATYCCSVGH width=30 seqs=61 chrIV:1016964-1017457 ( 54) CACCGTGGAGACCGGGGTTCGACTCCCCGC 1 chrIV:83441-83800 ( 12) CATCGTTGGGCCCCCGGTTCGATTCCGGGC 1 chrXVI:572052-572584 ( 35) CATCGTTGGGCCCCCGGTTCGATTCCGGGC 1 chrX:531591-531691 ( 13) CATCGTTGGGCCCCCGGTTCGATTCCGGGC 1 chrVII:845478-845977 ( 6) CATCGTTGGGCCCCCGGTTCGATTCCGGGC 1 chrX:396575-396675 ( 30) CATCGTTGGGCCCCCGGTTCGATTCCGGGC 1 chrV:354683-355351 ( 2) CACCGTGGAGACCGGGGTTCGACTCCCCGT 1 chrXI:140655-141487 ( 4) CACCGTGGAGACCGGGGTTCGACTCCCCGT 1 chrXVI:209993-210474 ( 16) CACCGTGGAGACCGGGGTTCGACTCCCCGT 1 chrII:644988-645430 ( 43) CACCGTGGAGACCGGGGTTCGACTCCCCGT 1 chrV:487100-487595 ( 41) CACCGTGGAGACCGGGGTTCGACTCCCCGT 1 chrXIII:290594-291140 ( 19) CACCGTGGAGACCGGGGTTCGACTCCCCGT 1 chrXIV:631668-632134 ( 2) GTGCGGGAGGTCCCGGGTTCGAGTCCCGGC 1 chrXII:1051949-1052200 ( 54) AACGCGGGGATCAGCGGTTCGATCCCGCTA 1 chrXVI:880109-880547 ( 25) AACGCGGGGATCAGCGGTTCGATCCCGCTA 1 chrV:443049-443370 ( 50) AACGCGGGGATCAGCGGTTCGATCCCGCTA 1 chrII:197266-197820 ( 38) AACGCGGGGATCAGCGGTTCGATCCCGCTA 1 chrVIII:134112-134568 ( 66) GATCCGGACAACCCCGGTTCGAATCCGGGT 1 chrIV:644995-645360 ( 33) GATCCGGACAACCCCGGTTCGAATCCGGGT 1 chrIV:802585-802988 ( 2) GATCCGGACAACCCCGGTTCGAATCCGGGT 1 chrV:130838-131405 ( 18) GATCCGAACAACCCCGGTTCGAATCCGGGT 1 chrXV:464286-464723 ( 61) ATGCGAGAGGCCCTGGGTTCAATTCCCAGC 1 chrV:435578-435996 ( 22) AATCATAAGGTTAGGGGTTCGAGCCCCCTA 1 chrIX:300004-300508 ( 29) AATCATAAGGTTAGGGGTTCGAGCCCCCTA 1 chrXI:578724-579358 ( 33) TACCGAAATGTCAGGGGTTCGAGCCCCCTA 1 chrXVI:768991-769466 ( 36) TACCGAAATGTCAGGGGTTCGAGCCCCCTA 1 chrVII:115345-115723 ( 63) TACCGAAATGTCAGGGGTTCGAGCCCCCTA 1 chrXIV:374697-375111 ( 69) CATCTGGAGGTCCTGTGTTCGATCCACAGA 1 chrXIII:131656-132069 ( 20) AATCAGAAGATTATGGGTTCGACCCCCATC 1 chrXV:353903-354291 ( 1) AATGTGGAGATCATCGGTTCAAATCCGATT 1 chrII:266209-266648 ( 36) AATGTGGAGATCATCGGTTCAAATCCGATT 1 chrX:197191-197291 ( 59) ATGGGAGAGGTCTCCGGTTCGATTCCGGAC 1 chrXIII:321042-321311 ( 28) ATGGGAGAGGTCTCCGGTTCGATTCCGGAC 1 chrXVI:856751-857186 ( 20) ATGGGAGAGGTCTCCGGTTCGATTCCGGAC 1 chrIV:619714-620207 ( 66) AACCAGAAGATTCCAGGTTCAAGTCCTGGC 1 chrXI:490766-491334 ( 4) AACCAGAAGATTCCAGGTTCAAGTCCTGGC 1 chrVII:440491-440974 ( 41) TATCTGGAGGTCCTGTGTTCGATCCACAGA 1 chrVII:287125-287688 ( 1) AATCGAAGGGTTGCAGGTTCAATTCCTGTC 1 chrX:415742-415842 ( 2) AATCGAAGGGTTGCAGGTTCAATTCCTGTC 1 chrIV:1095146-1095650 ( 29) TATCTGGAGGTCCTGTGTTCGATCCACAGA 1 chrVII:412095-412581 ( 13) ACGCAGAACGTCCCCAGTTCGATCCTGGGC 1 chrXI:302713-303232 ( 65) AATCGAAGGGTTGCAGGTTCAATTCCTGTC 1 chrXIII:586419-586895 ( 36) ACGCAGAACGTCCCCAGTTCGATCCTGGGC 1 chrII:326574-327056 ( 34) ACGGCGAAGATCCCGAGTTCGAACCTCGGT 1 chrIV:884278-884632 ( 52) AACGCGACCGTCGTGGGTTCAAACCCCACC 1 chrVI:167291-167681 ( 53) AATCTTGAGATCGGGCGTTCGACTCGCCCC 1 chrIV:946162-946621 ( 23) AATCTTGAGATCGGGCGTTCGACTCGCCCC 1 chrIII:149751-150151 ( 54) AACCCTGATGTCCTCGGATCGAAACCGAGC 1 chrX:517658-517758 ( 5) AACCCTGATGTCCTCGGATCGAAACCGAGC 1 chrXIII:572669-573119 ( 46) AATCTGAAGGTCGAGAGTTCGAACCTCCCC 1 chrXVI:435674-436162 ( 32) AATCTGTTGGTCCTTAGTTCGATCCTGAGT 1 chrII:642832-643229 ( 34) AATCTGTTGGTCCTTAGTTCGATCCTGAGT 1 chrVIII:466830-467293 ( 14) AATGCAAAGGTCGCTAGTTCAATTCTGGCA 1 chrXVI:810591-810867 ( 34) AATCGCAAGATCGTGAGTTCAACCCTCACT 1 chrIII:127589-127878 ( 70) AATCGCAAGATCGTGAGTTCAACCCTCACT 1 chrII:405681-406362 ( 24) CGCGTGCCAGATCGGGGTTCAATTCCCCGT 1 chrXI:513122-513590 ( 33) CGCGTGCCAGATCGGGGTTCAATTCCCCGT 1 chrX:204549-204649 ( 19) CGCGTGCCAGATCGGGGTTCAATTCCCCGT 1 chrXVI:744083-744590 ( 33) AATGCAAAGGTCGTTAGTTCAATTCTGACA 1 chrII:347425-347921 ( 37) TACTGAAGGATGCGAGGTTCGAACTCGCGC 1 chrIV:519661-519949 ( 45) TATTGAAGGATGCGAGGTTCGAACTCGCGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAYCSDRRGGTCCBSGGTTCGATYCCSVGH MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 30 n= 42600 bayes= 10.7339 E= 1.0e-237 83 42 -126 -140 143 -200 -200 -189 -1257 94 -58 70 -1257 184 42 -321 -140 22 117 -51 -40 -258 117 -4 31 -200 122 -140 88 -158 81 -321 -89 -78 170 -189 11 -1257 177 -1257 -40 -100 -1257 115 -1257 200 -258 -75 -63 155 -12 -262 -421 88 94 -30 -140 88 122 -221 -89 -258 194 -262 -1257 -1257 235 -1257 -321 -1257 -1257 167 -1257 -1257 -1257 172 -1257 235 -1257 -1257 -21 -1257 191 -1257 172 -1257 -1257 -1257 -51 0 -58 60 -321 100 -1257 92 -1257 230 -1257 -321 -262 194 -258 -89 -1257 122 122 -189 -30 100 88 -1257 -262 -58 155 -30 -40 117 -1257 11 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAYCSDRRGGTCCBSGGTTCGATYCCSVGH MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 30 nsites= 61 E= 1.0e-237 0.540984 0.262295 0.081967 0.114754 0.819672 0.049180 0.049180 0.081967 0.000000 0.377049 0.131148 0.491803 0.000000 0.704918 0.262295 0.032787 0.114754 0.229508 0.442623 0.213115 0.229508 0.032787 0.442623 0.295082 0.377049 0.049180 0.459016 0.114754 0.557377 0.065574 0.344262 0.032787 0.163934 0.114754 0.639344 0.081967 0.327869 0.000000 0.672131 0.000000 0.229508 0.098361 0.000000 0.672131 0.000000 0.786885 0.032787 0.180328 0.196721 0.573770 0.180328 0.049180 0.016393 0.360656 0.377049 0.245902 0.114754 0.360656 0.459016 0.065574 0.163934 0.032787 0.754098 0.049180 0.000000 0.000000 1.000000 0.000000 0.032787 0.000000 0.000000 0.967213 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.262295 0.000000 0.737705 0.000000 1.000000 0.000000 0.000000 0.000000 0.213115 0.196721 0.131148 0.459016 0.032787 0.393443 0.000000 0.573770 0.000000 0.967213 0.000000 0.032787 0.049180 0.754098 0.032787 0.163934 0.000000 0.459016 0.459016 0.081967 0.245902 0.393443 0.360656 0.000000 0.049180 0.131148 0.573770 0.245902 0.229508 0.442623 0.000000 0.327869 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAYCSDRRGGTCCBSGGTTCGATYCCSVGH MEME-1 regular expression -------------------------------------------------------------------------------- [AC]A[TC][CG][GCT][GTA][GA][AG]G[GA][TA]CC[GCT][GC]GGTTC[GA]A[TA][TC]CC[CG][CGA][GT][CTA] -------------------------------------------------------------------------------- Time 353.23 secs. ******************************************************************************** ******************************************************************************** MOTIF WHARKCBKRYGCCTTAACCAACTKGGCCAW MEME-2 width = 30 sites = 23 llr = 512 E-value = 7.1e-069 ******************************************************************************** -------------------------------------------------------------------------------- Motif WHARKCBKRYGCCTTAACCAACTKGGCCAW MEME-2 Description -------------------------------------------------------------------------------- Simplified A 5285:21:51:::1:793:6a1:122::96 pos.-specific C :41:2642:437a12:17a3:911::98:1 probability G :::54:355273:::::::1:::4781::: matrix T 541:4223:3:::883::::::941::213 bits 2.3 * * 2.1 * * 1.9 * * * 1.6 * * ** *** Relative 1.4 * * ** ** *** Entropy 1.2 *** * *** *** **** (32.1 bits) 0.9 ** * *** * *** *** ***** 0.7 * **** ** ************* ***** 0.5 ****** ** ************* ****** 0.2 ****************************** 0.0 ------------------------------ Multilevel TCAGGCCGACGCCTTAACCAACTGGGCCAA consensus AT AT GTGTCG T A C T T sequence A T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WHARKCBKRYGCCTTAACCAACTKGGCCAW MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- ------------------------------ chrXVI:810591-810867 - 3 5.57e-15 CTTGCGATTA ACAGTCGCACGCCTTAACCAACTTGGCCAT GG chrXI:74404-74831 - 63 5.57e-15 TGCGATTA ACAGTCGCACGCCTTAACCAACTTGGCCAT GGAGTCTAAT chrIII:127589-127878 - 39 5.57e-15 CTTGCGATTA ACAGTCGCACGCCTTAACCAACTTGGCCAT GGAGTCATTT chrXV:228107-228560 - 54 5.57e-15 CTTGCGATTA ACAGTCGCACGCCTTAACCAACTTGGCCAT GGAGTCTAAT chrXVI:880109-880547 + 56 7.94e-15 CCCCGCGTTA TTAGCACGGTGCCTTAACCAACTGGGCCAA GAGACCATTA chrXII:734607-734969 - 70 7.94e-15 A TTAGCACGGTGCCTTAACCAACTGGGCCAA GAGACCAAAC chrII:197266-197820 - 7 7.94e-15 CCCCGCGTTA TTAGCACGGTGCCTTAACCAACTGGGCCAA GAGACC chrXIV:569713-570141 + 28 7.94e-15 CCCCGCGTTA TTAGCACGGTGCCTTAACCAACTGGGCCAA GAGACCACTG chrXII:592349-592813 + 53 1.27e-12 TAAATCCACC TAAATCTGACGCCTTAAACCACTCGGCCAA ACTCCCATTG chrX:424266-424366 + 43 9.16e-11 CAACAGATCT TAAGTCTGCCGCCTTAGACCACTCGGCCAA CCCTCCATCT chrVII:412095-412581 + 44 1.19e-10 GTTCTGCGTG TTAAGCAGATGCCATAACCGACTAGACCAC GAAACCAGTT chrXIII:586419-586895 + 67 1.19e-10 GTTCTGCGTG TTAAGCAGATGCCATAACCGACTAGACCAC GAAA chrV:469275-469650 - 51 1.19e-10 GTTCTGCGTG TTAAGCAGATGCCATAACCGACTAGACCAC GAAACCAATT chrIV:359360-359781 - 63 2.48e-10 ATGCGCTT AAAAGCCGAACGCTCTACCAACTGAGCTAA CAAGGATGAG chrVII:115345-115723 - 10 2.48e-10 AAATGCGCTT AAAAGCCGAACGCTCTACCAACTGAGCTAA CAAGGATGA chrXV:353903-354291 + 31 3.92e-10 TCTCCACATT ACTAGTGTGGCGCCTTACCAACTTGGCCAT AGAAGCAGTA chrII:266209-266648 - 6 3.92e-10 TCTCCACATT ACTAGTGTGGCGCCTTACCAACTTGGCCAT AGAAG chrII:326574-327056 + 65 1.65e-09 CTTCGCCGTG TAAAGGCGACGTCTTGAACCACTGGACCAT TGGACC chrX:542815-542915 + 24 1.87e-09 GTGATAAATT ACAGTCTTGCGCCTTAAACCAACTTGGCTA CCGAGAGTAT chrVI:210463-210944 + 18 1.87e-09 GTGGTAAATT ACAGTCTTGCGCCTTAAACCAACTTGGCTA CCGAGAGTCG chrVI:167291-167681 - 8 1.87e-09 GTGGTAAATT ACAGTCTTGCGCCTTAAACCAACTTGGCTA CCGAGAG chrVIII:237761-238142 + 3 4.20e-09 TC TTCAGTCTGGCGCTCTCCCAACTGAGCTAA ATCCGCTTAC chrXIV:374697-375111 - 21 4.20e-09 GAAGTTTTTC TTCAGTCTGGCGCTCTCCCAACTGAGCTAA GTCCGCTTAT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WHARKCBKRYGCCTTAACCAACTKGGCCAW MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrXVI:810591-810867 5.6e-15 2_[-2]_68 chrXI:74404-74831 5.6e-15 62_[-2]_8 chrIII:127589-127878 5.6e-15 38_[-2]_32 chrXV:228107-228560 5.6e-15 53_[-2]_17 chrXVI:880109-880547 7.9e-15 55_[+2]_15 chrXII:734607-734969 7.9e-15 69_[-2]_1 chrII:197266-197820 7.9e-15 6_[-2]_64 chrXIV:569713-570141 7.9e-15 27_[+2]_43 chrXII:592349-592813 1.3e-12 52_[+2]_18 chrX:424266-424366 9.2e-11 42_[+2]_28 chrVII:412095-412581 1.2e-10 43_[+2]_27 chrXIII:586419-586895 1.2e-10 66_[+2]_4 chrV:469275-469650 1.2e-10 50_[-2]_20 chrIV:359360-359781 2.5e-10 62_[-2]_8 chrVII:115345-115723 2.5e-10 9_[-2]_61 chrXV:353903-354291 3.9e-10 30_[+2]_40 chrII:266209-266648 3.9e-10 5_[-2]_65 chrII:326574-327056 1.7e-09 64_[+2]_6 chrX:542815-542915 1.9e-09 23_[+2]_47 chrVI:210463-210944 1.9e-09 17_[+2]_53 chrVI:167291-167681 1.9e-09 7_[-2]_63 chrVIII:237761-238142 4.2e-09 2_[+2]_68 chrXIV:374697-375111 4.2e-09 20_[-2]_50 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WHARKCBKRYGCCTTAACCAACTKGGCCAW MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF WHARKCBKRYGCCTTAACCAACTKGGCCAW width=30 seqs=23 chrXVI:810591-810867 ( 3) ACAGTCGCACGCCTTAACCAACTTGGCCAT 1 chrXI:74404-74831 ( 63) ACAGTCGCACGCCTTAACCAACTTGGCCAT 1 chrIII:127589-127878 ( 39) ACAGTCGCACGCCTTAACCAACTTGGCCAT 1 chrXV:228107-228560 ( 54) ACAGTCGCACGCCTTAACCAACTTGGCCAT 1 chrXVI:880109-880547 ( 56) TTAGCACGGTGCCTTAACCAACTGGGCCAA 1 chrXII:734607-734969 ( 70) TTAGCACGGTGCCTTAACCAACTGGGCCAA 1 chrII:197266-197820 ( 7) TTAGCACGGTGCCTTAACCAACTGGGCCAA 1 chrXIV:569713-570141 ( 28) TTAGCACGGTGCCTTAACCAACTGGGCCAA 1 chrXII:592349-592813 ( 53) TAAATCTGACGCCTTAAACCACTCGGCCAA 1 chrX:424266-424366 ( 43) TAAGTCTGCCGCCTTAGACCACTCGGCCAA 1 chrVII:412095-412581 ( 44) TTAAGCAGATGCCATAACCGACTAGACCAC 1 chrXIII:586419-586895 ( 67) TTAAGCAGATGCCATAACCGACTAGACCAC 1 chrV:469275-469650 ( 51) TTAAGCAGATGCCATAACCGACTAGACCAC 1 chrIV:359360-359781 ( 63) AAAAGCCGAACGCTCTACCAACTGAGCTAA 1 chrVII:115345-115723 ( 10) AAAAGCCGAACGCTCTACCAACTGAGCTAA 1 chrXV:353903-354291 ( 31) ACTAGTGTGGCGCCTTACCAACTTGGCCAT 1 chrII:266209-266648 ( 6) ACTAGTGTGGCGCCTTACCAACTTGGCCAT 1 chrII:326574-327056 ( 65) TAAAGGCGACGTCTTGAACCACTGGACCAT 1 chrX:542815-542915 ( 24) ACAGTCTTGCGCCTTAAACCAACTTGGCTA 1 chrVI:210463-210944 ( 18) ACAGTCTTGCGCCTTAAACCAACTTGGCTA 1 chrVI:167291-167681 ( 8) ACAGTCTTGCGCCTTAAACCAACTTGGCTA 1 chrVIII:237761-238142 ( 3) TTCAGTCTGGCGCTCTCCCAACTGAGCTAA 1 chrXIV:374697-375111 ( 21) TTCAGTCTGGCGCTCTCCCAACTGAGCTAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WHARKCBKRYGCCTTAACCAACTKGGCCAW MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 30 n= 42600 bayes= 11.257 E= 7.1e-069 66 -1117 -1117 78 -48 99 -1117 37 144 -118 -1117 -180 66 -1117 141 -1117 -1117 -18 115 37 -80 163 -217 -80 -122 99 41 -48 -1117 -18 141 0 66 -217 128 -1117 -180 115 -18 0 -1117 41 191 -1117 -1117 182 41 -280 -1117 235 -1117 -1117 -122 -118 -1117 137 -1117 -18 -1117 144 120 -1117 -217 -22 152 -118 -217 -1117 -22 191 -1117 -1117 -1117 235 -1117 -1117 100 41 -59 -1117 172 -1117 -1117 -1117 -122 215 -1117 -1117 -1117 -59 -1117 152 -122 -118 99 37 -80 -1117 182 -122 -80 -1117 207 -1117 -1117 215 -59 -1117 -1117 207 -1117 -80 152 -1117 -1117 -122 90 -59 -1117 0 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WHARKCBKRYGCCTTAACCAACTKGGCCAW MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 30 nsites= 23 E= 7.1e-069 0.478261 0.000000 0.000000 0.521739 0.217391 0.391304 0.000000 0.391304 0.826087 0.086957 0.000000 0.086957 0.478261 0.000000 0.521739 0.000000 0.000000 0.173913 0.434783 0.391304 0.173913 0.608696 0.043478 0.173913 0.130435 0.391304 0.260870 0.217391 0.000000 0.173913 0.521739 0.304348 0.478261 0.043478 0.478261 0.000000 0.086957 0.434783 0.173913 0.304348 0.000000 0.260870 0.739130 0.000000 0.000000 0.695652 0.260870 0.043478 0.000000 1.000000 0.000000 0.000000 0.130435 0.086957 0.000000 0.782609 0.000000 0.173913 0.000000 0.826087 0.695652 0.000000 0.043478 0.260870 0.869565 0.086957 0.043478 0.000000 0.260870 0.739130 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.608696 0.260870 0.130435 0.000000 1.000000 0.000000 0.000000 0.000000 0.130435 0.869565 0.000000 0.000000 0.000000 0.130435 0.000000 0.869565 0.130435 0.086957 0.391304 0.391304 0.173913 0.000000 0.695652 0.130435 0.173913 0.000000 0.826087 0.000000 0.000000 0.869565 0.130435 0.000000 0.000000 0.826087 0.000000 0.173913 0.869565 0.000000 0.000000 0.130435 0.565217 0.130435 0.000000 0.304348 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WHARKCBKRYGCCTTAACCAACTKGGCCAW MEME-2 regular expression -------------------------------------------------------------------------------- [TA][CTA]A[GA][GT]C[CGT][GT][AG][CT][GC][CG]CTT[AT]A[CA]C[AC]ACT[GT]GGCCA[AT] -------------------------------------------------------------------------------- Time 677.84 secs. ******************************************************************************** ******************************************************************************** MOTIF AAARCSKRAWGTGATARCCRYTACACTATA MEME-3 width = 30 sites = 10 llr = 346 E-value = 8.4e-053 ******************************************************************************** -------------------------------------------------------------------------------- Motif AAARCSKRAWGTGATARCCRYTACACTATA MEME-3 Description -------------------------------------------------------------------------------- Simplified A a9a5:::4a4:::a:a4::4::a:a::a:a pos.-specific C ::::a4:::::::::::aa:4::a:a::1: probability G :1:5:646::a:a:::6::6:::::::::: matrix T ::::::6::6:a::a:::::6a::::a:9: bits 2.3 * * * ** * * 2.1 * * * ** * * 1.9 * * * ** * * 1.6 * * * * ****** ** ******* * Relative 1.4 *** ** * ****** ** ********* Entropy 1.2 *** ** ** ********** ********* (50.0 bits) 0.9 ********* ******************** 0.7 ****************************** 0.5 ****************************** 0.2 ****************************** 0.0 ------------------------------ Multilevel AAAACGTGATGTGATAGCCGTTACACTATA consensus G CGA A A AC sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAARCSKRAWGTGATARCCRYTACACTATA MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Strand Start P-value Site ------------- ------ ----- --------- ------------------------------ chrX:115807-115907 + 18 4.28e-18 CTCCACGGTG AAAGCGTGATGTGATAGCCGTTACACTATA TCGGATTATA chrXI:140655-141487 + 34 4.28e-18 CTCCACGGTG AAAGCGTGATGTGATAGCCGTTACACTATA TCGGATTACA chrXVI:209993-210474 + 46 4.28e-18 CTCCACGGTG AAAGCGTGATGTGATAGCCGTTACACTATA TCGGACAATA chrII:644988-645430 - 13 4.28e-18 CTCCACGGTG AAAGCGTGATGTGATAGCCGTTACACTATA TCGGATAATA chrV:487100-487595 + 71 4.28e-18 CTCCACGGTG AAAGCGTGATGTGATAGCCGTTACACTATA chrVIII:134112-134568 - 36 1.04e-15 TGTCCGGATC AAAACCGAAAGTGATAACCACTACACTATA GGACCGGAAC chrIV:644995-645360 + 63 1.04e-15 TGTCCGGATC AAAACCGAAAGTGATAACCACTACACTATA GGACCGTA chrIV:802585-802988 + 32 1.04e-15 TGTCCGGATC AAAACCGAAAGTGATAACCACTACACTATA GGACCGACAA chrV:130838-131405 + 48 1.04e-15 TGTTCGGATC AAAACCGAAAGTGATAACCACTACACTATA AAACCTCTTA chrIX:197356-197803 - 68 1.23e-15 GTG AGAACGTGATGTGATAGCCGTTACACTACA TCGGATTTGA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAARCSKRAWGTGATARCCRYTACACTATA MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:115807-115907 4.3e-18 17_[+3]_53 chrXI:140655-141487 4.3e-18 33_[+3]_37 chrXVI:209993-210474 4.3e-18 45_[+3]_25 chrII:644988-645430 4.3e-18 12_[-3]_58 chrV:487100-487595 4.3e-18 70_[+3] chrVIII:134112-134568 1e-15 35_[-3]_35 chrIV:644995-645360 1e-15 62_[+3]_8 chrIV:802585-802988 1e-15 31_[+3]_39 chrV:130838-131405 1e-15 47_[+3]_23 chrIX:197356-197803 1.2e-15 67_[-3]_3 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAARCSKRAWGTGATARCCRYTACACTATA MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF AAARCSKRAWGTGATARCCRYTACACTATA width=30 seqs=10 chrX:115807-115907 ( 18) AAAGCGTGATGTGATAGCCGTTACACTATA 1 chrXI:140655-141487 ( 34) AAAGCGTGATGTGATAGCCGTTACACTATA 1 chrXVI:209993-210474 ( 46) AAAGCGTGATGTGATAGCCGTTACACTATA 1 chrII:644988-645430 ( 13) AAAGCGTGATGTGATAGCCGTTACACTATA 1 chrV:487100-487595 ( 71) AAAGCGTGATGTGATAGCCGTTACACTATA 1 chrVIII:134112-134568 ( 36) AAAACCGAAAGTGATAACCACTACACTATA 1 chrIV:644995-645360 ( 63) AAAACCGAAAGTGATAACCACTACACTATA 1 chrIV:802585-802988 ( 32) AAAACCGAAAGTGATAACCACTACACTATA 1 chrV:130838-131405 ( 48) AAAACCGAAAGTGATAACCACTACACTATA 1 chrIX:197356-197803 ( 68) AGAACGTGATGTGATAGCCGTTACACTACA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAARCSKRAWGTGATARCCRYTACACTATA MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 30 n= 42600 bayes= 10.591 E= 8.4e-053 172 -997 -997 -997 157 -997 -97 -997 172 -997 -997 -997 72 -997 135 -997 -997 235 -997 -997 -997 102 161 -997 -997 -997 102 98 40 -997 161 -997 172 -997 -997 -997 40 -997 -997 98 -997 -997 235 -997 -997 -997 -997 172 -997 -997 235 -997 172 -997 -997 -997 -997 -997 -997 172 172 -997 -997 -997 40 -997 161 -997 -997 235 -997 -997 -997 235 -997 -997 40 -997 161 -997 -997 102 -997 98 -997 -997 -997 172 172 -997 -997 -997 -997 235 -997 -997 172 -997 -997 -997 -997 235 -997 -997 -997 -997 -997 172 172 -997 -997 -997 -997 -97 -997 157 172 -997 -997 -997 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAARCSKRAWGTGATARCCRYTACACTATA MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 30 nsites= 10 E= 8.4e-053 1.000000 0.000000 0.000000 0.000000 0.900000 0.000000 0.100000 0.000000 1.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.500000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.400000 0.600000 0.000000 0.000000 0.000000 0.400000 0.600000 0.400000 0.000000 0.600000 0.000000 1.000000 0.000000 0.000000 0.000000 0.400000 0.000000 0.000000 0.600000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.400000 0.000000 0.600000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.400000 0.000000 0.600000 0.000000 0.000000 0.400000 0.000000 0.600000 0.000000 0.000000 0.000000 1.000000 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 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.100000 0.000000 0.900000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAARCSKRAWGTGATARCCRYTACACTATA MEME-3 regular expression -------------------------------------------------------------------------------- AAA[AG]C[GC][TG][GA]A[TA]GTGATA[GA]CC[GA][TC]TACACTATA -------------------------------------------------------------------------------- Time 999.36 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrII:347425-347921 4.90e-04 36_[-1(4.84e-08)]_34 chrVIII:294000-294451 3.78e-01 100 chrXV:92075-94735 3.62e-01 100 chrVII:115345-115723 3.05e-14 9_[-2(2.48e-10)]_23_[+1(1.74e-10)]_\ 8 chrXI:333943-335006 1.40e-01 100 chrI:138980-139345 2.52e-02 49_[-3(9.17e-05)]_21 chrIV:1269877-1271071 3.17e-01 100 chrXVI:831893-832316 2.67e-02 100 chrXIII:747778-748136 6.50e-01 100 chrVII:531430-531791 8.14e-02 100 chrVII:371200-371507 1.90e-01 100 chrXI:490766-491334 4.64e-07 3_[+1(7.16e-10)]_67 chrIV:549951-551593 7.99e-01 100 chrIII:15144-16911 2.59e-01 100 chrXVI:481436-481973 5.31e-01 100 chrIV:946162-946621 1.39e-05 22_[+1(1.65e-09)]_48 chrXII:36648-37366 6.30e-01 100 chrIX:254255-254589 8.30e-01 100 chrXIV:569713-570141 2.03e-10 27_[+2(7.94e-15)]_43 chrIV:768243-769018 5.29e-01 100 chrXII:449251-450514 8.06e-01 100 chrIX:231242-232433 9.74e-01 100 chrII:226989-227340 2.72e-01 100 chrXI:534110-534296 8.71e-01 100 chrXVI:279907-280325 3.97e-01 100 chrI:182328-183177 1.52e-01 100 chrXV:770063-770566 9.52e-02 100 chrXII:201659-202739 4.43e-02 100 chrVII:856527-857586 5.81e-01 100 chrXV:854004-854809 2.94e-01 100 chrXIII:219092-221201 9.85e-01 100 chrV:61028-62145 7.83e-01 100 chrXVI:627317-627803 8.82e-02 100 chrII:391019-392246 9.98e-01 100 chrI:189994-191693 1.27e-01 100 chrXV:700793-701140 5.80e-01 100 chrIV:619714-620207 1.28e-05 65_[-1(7.16e-10)]_5 chrXIII:807850-808538 9.12e-01 100 chrVI:167291-167681 2.49e-11 7_[-2(1.87e-09)]_15_[+1(1.65e-09)]_\ 18 chrXII:780682-781840 8.14e-01 100 chrVIII:174232-175802 8.45e-01 100 chrX:540652-540752 5.98e-01 100 chrVII:254149-254752 4.63e-01 100 chrVIII:381411-383303 8.23e-01 100 chrXII:932110-932541 4.54e-01 100 chrXIII:290594-291140 6.27e-09 18_[+1(2.36e-13)]_52 chrXIV:239942-240496 9.87e-01 100 chrXIV:738623-740068 9.46e-01 100 chrVII:328403-329061 9.29e-01 100 chrXVI:794525-796155 2.02e-01 100 chrXIII:131656-132069 8.68e-07 19_[-1(2.65e-10)]_51 chrIV:1305405-1306200 8.41e-01 100 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