******************************************************************************** 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/sma-3.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chrX:12834953-12835033 1.0000 80 chrIII:7305747-7305827 1.0000 80 chrV:5820527-5820607 1.0000 80 chrX:15485281-15485361 1.0000 80 chrII:10312097-10312177 1.0000 80 chrII:8259772-8259852 1.0000 80 chrIII:5472892-5472972 1.0000 80 chrV:9086108-9086188 1.0000 80 chrI:13064030-13064110 1.0000 80 chrX:16266153-16266233 1.0000 80 chrII:2442388-2442468 1.0000 80 chrX:11420164-11420244 1.0000 80 chrV:14510917-14510997 1.0000 80 chrII:7628809-7628889 1.0000 80 chrII:9032101-9032181 1.0000 80 chrII:8765349-8765429 1.0000 80 chrV:12556062-12556142 1.0000 80 chrII:10294416-10294496 1.0000 80 chrV:8040820-8040900 1.0000 80 chrV:12199641-12199721 1.0000 80 chrV:3980012-3980092 1.0000 80 chrV:13389623-13389703 1.0000 80 chrX:10630207-10630287 1.0000 80 chrII:5459632-5459712 1.0000 80 chrV:3984316-3984396 1.0000 80 chrI:434689-434769 1.0000 80 chrV:11801585-11801665 1.0000 80 chrIII:7872913-7872993 1.0000 80 chrV:1447909-1447989 1.0000 80 chrII:8440948-8441028 1.0000 80 chrII:8263721-8263801 1.0000 80 chrX:13315209-13315289 1.0000 80 chrIV:10777259-10777339 1.0000 80 chrX:7242257-7242337 1.0000 80 chrI:8864173-8864253 1.0000 80 chrX:2864083-2864163 1.0000 80 chrX:9403800-9403880 1.0000 80 chrIV:12921154-12921234 1.0000 80 chrIV:9535277-9535357 1.0000 80 chrIV:762114-762194 1.0000 80 chrIV:8914356-8914436 1.0000 80 chrX:11647312-11647392 1.0000 80 chrII:12622305-12622385 1.0000 80 chrIII:650654-650734 1.0000 80 chrIII:7488408-7488488 1.0000 80 chrIII:8640490-8640570 1.0000 80 chrX:11471531-11471611 1.0000 80 chrX:14576053-14576133 1.0000 80 chrV:7836987-7837067 1.0000 80 chrII:3440427-3440507 1.0000 80 chrII:7790458-7790538 1.0000 80 chrV:11147225-11147305 1.0000 80 chrX:9086012-9086092 1.0000 80 chrV:6323092-6323172 1.0000 80 chrX:10306462-10306542 1.0000 80 chrIV:7131989-7132069 1.0000 80 chrX:15340364-15340444 1.0000 80 chrII:10515563-10515643 1.0000 80 chrII:9880979-9881059 1.0000 80 chrIII:5812760-5812840 1.0000 80 chrX:13469219-13469299 1.0000 80 chrI:8351169-8351249 1.0000 80 chrII:4918746-4918826 1.0000 80 chrV:1593833-1593913 1.0000 80 chrIII:7300347-7300427 1.0000 80 chrII:4550070-4550150 1.0000 80 chrV:6690236-6690316 1.0000 80 chrX:15079452-15079532 1.0000 80 chrI:10116955-10117035 1.0000 80 chrX:13008260-13008340 1.0000 80 chrII:12625840-12625920 1.0000 80 chrIV:13682911-13682991 1.0000 80 chrX:9547341-9547421 1.0000 80 chrV:12294211-12294291 1.0000 80 chrIII:10337655-10337735 1.0000 80 chrX:7329747-7329827 1.0000 80 chrX:7330859-7330939 1.0000 80 chrII:1143334-1143414 1.0000 80 chrV:5821655-5821735 1.0000 80 chrV:8039353-8039433 1.0000 80 chrV:4908704-4908784 1.0000 80 chrIII:12009863-12009943 1.0000 80 chrV:11016972-11017052 1.0000 80 chrV:6319537-6319617 1.0000 80 chrIV:9633980-9634060 1.0000 80 chrV:12635407-12635487 1.0000 80 chrV:5823104-5823184 1.0000 80 chrIV:4294716-4294796 1.0000 80 chrV:13787646-13787726 1.0000 80 chrII:13737057-13737137 1.0000 80 chrII:6878020-6878100 1.0000 80 chrX:6665563-6665643 1.0000 80 chrX:6201638-6201718 1.0000 80 chrIII:5471646-5471726 1.0000 80 chrV:1607979-1608059 1.0000 80 chrII:5449781-5449861 1.0000 80 chrX:17476079-17476159 1.0000 80 chrV:1447219-1447299 1.0000 80 chrX:12425564-12425644 1.0000 80 chrIII:6798199-6798279 1.0000 80 chrII:12262700-12262780 1.0000 80 chrIV:13079246-13079326 1.0000 80 chrX:2946684-2946764 1.0000 80 chrI:4328993-4329073 1.0000 80 chrI:13061198-13061278 1.0000 80 chrI:4436890-4436970 1.0000 80 chrII:11642216-11642296 1.0000 80 chrV:6505562-6505642 1.0000 80 chrIII:10007138-10007218 1.0000 80 chrIII:12849358-12849438 1.0000 80 chrIII:4096452-4096532 1.0000 80 chrV:10557181-10557261 1.0000 80 chrIII:2280707-2280787 1.0000 80 chrX:13325160-13325240 1.0000 80 chrIV:5216551-5216631 1.0000 80 chrIV:11899557-11899637 1.0000 80 chrX:14894550-14894630 1.0000 80 chrX:6741705-6741785 1.0000 80 chrX:16561052-16561132 1.0000 80 chrI:6260343-6260423 1.0000 80 chrV:3989443-3989523 1.0000 80 chrIII:4922196-4922276 1.0000 80 chrX:17138330-17138410 1.0000 80 chrIV:10976085-10976165 1.0000 80 chrI:8896260-8896340 1.0000 80 chrI:12501408-12501488 1.0000 80 chrIV:13911103-13911183 1.0000 80 chrX:7596140-7596220 1.0000 80 chrIII:7489318-7489398 1.0000 80 chrX:17374093-17374173 1.0000 80 chrV:18701623-18701703 1.0000 80 chrIV:14870022-14870102 1.0000 80 chrI:6574669-6574749 1.0000 80 chrV:11649418-11649498 1.0000 80 chrX:3492536-3492616 1.0000 80 chrX:11478936-11479016 1.0000 80 chrV:5701252-5701332 1.0000 80 chrV:12548851-12548931 1.0000 80 chrX:15704754-15704834 1.0000 80 chrII:9800436-9800516 1.0000 80 chrX:14503446-14503526 1.0000 80 chrV:6430074-6430154 1.0000 80 chrIV:13083052-13083132 1.0000 80 chrV:11859181-11859261 1.0000 80 chrV:10556474-10556554 1.0000 80 chrX:15073028-15073108 1.0000 80 chrII:9124545-9124625 1.0000 80 chrI:10577224-10577304 1.0000 80 chrIII:2681358-2681438 1.0000 80 chrX:2893084-2893164 1.0000 80 chrII:7555028-7555108 1.0000 80 chrV:9741014-9741094 1.0000 80 chrX:13113577-13113657 1.0000 80 chrV:6687737-6687817 1.0000 80 chrIII:7567874-7567954 1.0000 80 chrV:5698311-5698391 1.0000 80 chrII:11163457-11163537 1.0000 80 chrV:12554402-12554482 1.0000 80 chrI:5398064-5398144 1.0000 80 chrV:12533936-12534016 1.0000 80 chrX:4139000-4139080 1.0000 80 chrV:14660756-14660836 1.0000 80 chrX:9491631-9491711 1.0000 80 chrIV:17442657-17442737 1.0000 80 chrX:6249387-6249467 1.0000 80 chrV:11795513-11795593 1.0000 80 chrX:10772892-10772972 1.0000 80 chrIV:1859545-1859625 1.0000 80 chrII:4745420-4745500 1.0000 80 chrV:1450300-1450380 1.0000 80 chrV:11311188-11311268 1.0000 80 chrIII:10486595-10486675 1.0000 80 chrII:6324198-6324278 1.0000 80 chrX:9549042-9549122 1.0000 80 chrIV:9672650-9672730 1.0000 80 chrIII:8780643-8780723 1.0000 80 chrII:6821257-6821337 1.0000 80 chrII:4751975-4752055 1.0000 80 chrX:5117194-5117274 1.0000 80 chrX:3837823-3837903 1.0000 80 chrII:7791743-7791823 1.0000 80 chrII:8818443-8818523 1.0000 80 chrII:3555435-3555515 1.0000 80 chrII:13678755-13678835 1.0000 80 chrV:11614928-11615008 1.0000 80 chrIII:9502298-9502378 1.0000 80 chrIV:102991-103071 1.0000 80 chrX:6639141-6639221 1.0000 80 chrI:9083116-9083196 1.0000 80 chrV:6238472-6238552 1.0000 80 chrV:7415951-7416031 1.0000 80 chrII:9160361-9160441 1.0000 80 chrII:9344148-9344228 1.0000 80 chrII:10090401-10090481 1.0000 80 chrIII:13101299-13101379 1.0000 80 chrIV:10782136-10782216 1.0000 80 chrV:11148021-11148101 1.0000 80 chrI:6885335-6885415 1.0000 80 chrX:2865772-2865852 1.0000 80 chrX:14780280-14780360 1.0000 80 chrII:14673835-14673915 1.0000 80 chrX:864403-864483 1.0000 80 chrV:6012292-6012372 1.0000 80 chrIV:274293-274373 1.0000 80 chrII:14928935-14929015 1.0000 80 chrI:999197-999277 1.0000 80 chrI:9145596-9145676 1.0000 80 chrV:12554602-12554682 1.0000 80 chrX:14737092-14737172 1.0000 80 chrIV:8027517-8027597 1.0000 80 chrV:11802577-11802657 1.0000 80 chrI:4433106-4433186 1.0000 80 chrV:6431242-6431322 1.0000 80 chrX:13941479-13941559 1.0000 80 chrV:8662344-8662424 1.0000 80 chrIII:5921463-5921543 1.0000 80 chrI:3754614-3754694 1.0000 80 chrIV:10250815-10250895 1.0000 80 chrIII:6145431-6145511 1.0000 80 chrX:17684919-17684999 1.0000 80 chrIV:9534503-9534583 1.0000 80 chrII:4548525-4548605 1.0000 80 chrV:4895915-4895995 1.0000 80 chrX:7987076-7987156 1.0000 80 chrV:18639696-18639776 1.0000 80 chrIII:5469627-5469707 1.0000 80 chrI:14953196-14953276 1.0000 80 chrV:1594765-1594845 1.0000 80 chrX:15264351-15264431 1.0000 80 chrIV:12045093-12045173 1.0000 80 chrIV:6099947-6100027 1.0000 80 chrIII:7644421-7644501 1.0000 80 chrX:3117311-3117391 1.0000 80 chrIV:4402541-4402621 1.0000 80 chrII:13680113-13680193 1.0000 80 chrIV:6657680-6657760 1.0000 80 chrII:7528387-7528467 1.0000 80 chrX:5835219-5835299 1.0000 80 chrV:11531222-11531302 1.0000 80 chrI:10406150-10406230 1.0000 80 chrX:6279736-6279816 1.0000 80 chrIII:5951737-5951817 1.0000 80 chrI:12055019-12055099 1.0000 80 chrI:11784536-11784616 1.0000 80 chrX:15626275-15626355 1.0000 80 chrX:12874943-12875023 1.0000 80 chrV:5832969-5833049 1.0000 80 chrII:8822889-8822969 1.0000 80 chrIII:7978810-7978890 1.0000 80 chrIV:9868131-9868211 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_sma-3/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/worm/fasta/RankLinear2.0_40/sma-3.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= 250 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= 20000 N= 250 sample: seed= 0 hsfrac= 0 searchsize= 20000 norand= no csites= 1000 Letter frequencies in dataset: A 0.292 C 0.207 G 0.208 T 0.294 Background letter frequencies (from file dataset with add-one prior applied): A 0.292 C 0.207 G 0.208 T 0.294 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF TSACGTSA MEME-1 width = 8 sites = 31 llr = 274 E-value = 2.5e-005 ******************************************************************************** -------------------------------------------------------------------------------- Motif TSACGTSA MEME-1 Description -------------------------------------------------------------------------------- Simplified A ::a::::7 pos.-specific C 35:a::4: probability G :5::a:63 matrix T 7::::a:: bits 2.3 ** 2.0 ** 1.8 **** 1.6 **** Relative 1.4 ****** Entropy 1.1 ******** (12.7 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TCACGTGA consensus CG CG sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TSACGTSA MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrIV:9534503-9534583 47 1.37e-05 GACGACGGGG TCACGTGA TGGAAGAAAT chrII:4745420-4745500 40 1.37e-05 CATGTTGGAA TCACGTGA AGCCCGTGAG chrV:11859181-11859261 67 1.37e-05 ATTCCATTGA TCACGTGA TATCCG chrIV:13911103-13911183 13 1.37e-05 GCCCAAATTT TCACGTGA GTGATACTTT chrII:13737057-13737137 22 1.37e-05 AGAAGGTGTT TCACGTGA ACGGCAGGCA chrI:13061198-13061278 68 2.74e-05 AGAGAAGATA TGACGTGA TTGAA chrV:11147225-11147305 6 2.74e-05 TAATA TGACGTGA GTGAAGATGT chrI:12055019-12055099 48 6.44e-05 TGGATTTAGA TGACGTCA TCTTTTTGTT chrIII:5951737-5951817 10 6.44e-05 AAAATTTTG TCACGTGG CGACTTGTTC chrIV:102991-103071 4 6.44e-05 TGA TGACGTCA CACGGTAGGG chrIV:9672650-9672730 37 6.44e-05 AAGCGTTACA TCACGTGG TCTTTCGATG chrX:15704754-15704834 44 6.44e-05 ATCATTCAAG TGACGTCA CGTGTGCACA chrIV:11899557-11899637 70 6.44e-05 AACCCATCGA TGACGTCA TTG chrV:6505562-6505642 44 6.44e-05 TTCACATGTG TCACGTGG ATAGTTTCTG chrII:1143334-1143414 23 6.44e-05 TCAACAATTA TGACGTCA TTTTCTGATT chrII:4918746-4918826 38 6.44e-05 AAATGTGTTG TGACGTCA AAACAACGAG chrII:9880979-9881059 39 6.44e-05 TATCGGGAGG TGACGTCA TCGACACTGA chrII:12622305-12622385 73 6.44e-05 AAGGATCCGG TCACGTGG chrIV:8914356-8914436 33 6.44e-05 TTGACGAGAA TGACGTCA TCGATAATTT chrII:10294416-10294496 34 6.44e-05 GAAAACTGTA TGACGTCA CGGAAGCGTC chrV:12554402-12554482 15 7.42e-05 CAGTTATCGT TGACGTGG CATTGGTCAG chrI:13064030-13064110 63 7.42e-05 CACCTTTCGG TGACGTGG CAGAACTGCC chrIV:10250815-10250895 66 9.35e-05 cagcctgaca ccacgtgA TTTTTCC chrII:12625840-12625920 47 9.35e-05 TGTTTGGTCG CCACGTGA TCTTGCAAAA chrX:15079452-15079532 28 9.35e-05 TCATGGGAAG TCACGTCG GCAGTCCTTT chrV:12554602-12554682 1 1.22e-04 . CCACGTCA TCAGGAATAA chrIII:12009863-12009943 47 1.22e-04 tgtgtgtgtg CCACGTCA TCATTTTCTT chrV:11802577-11802657 34 1.39e-04 AGCGTGGCGT CCACGTGG ATATGATAAG chrII:8259772-8259852 60 1.39e-04 ACGCTACTCG CGACGTCA TCGAATTAGA chrX:15485281-15485361 44 1.39e-04 TGAGTTTGAA CCACGTGG CAGAGTACAG chrIII:10486595-10486675 59 1.46e-04 TCTTGATTGA CGACGTGG CAACATTTAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TSACGTSA MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV:9534503-9534583 1.4e-05 46_[+1]_26 chrII:4745420-4745500 1.4e-05 39_[+1]_33 chrV:11859181-11859261 1.4e-05 66_[+1]_6 chrIV:13911103-13911183 1.4e-05 12_[+1]_60 chrII:13737057-13737137 1.4e-05 21_[+1]_51 chrI:13061198-13061278 2.7e-05 67_[+1]_5 chrV:11147225-11147305 2.7e-05 5_[+1]_67 chrI:12055019-12055099 6.4e-05 47_[+1]_25 chrIII:5951737-5951817 6.4e-05 9_[+1]_63 chrIV:102991-103071 6.4e-05 3_[+1]_69 chrIV:9672650-9672730 6.4e-05 36_[+1]_36 chrX:15704754-15704834 6.4e-05 43_[+1]_29 chrIV:11899557-11899637 6.4e-05 69_[+1]_3 chrV:6505562-6505642 6.4e-05 43_[+1]_29 chrII:1143334-1143414 6.4e-05 22_[+1]_50 chrII:4918746-4918826 6.4e-05 37_[+1]_35 chrII:9880979-9881059 6.4e-05 38_[+1]_34 chrII:12622305-12622385 6.4e-05 72_[+1] chrIV:8914356-8914436 6.4e-05 32_[+1]_40 chrII:10294416-10294496 6.4e-05 33_[+1]_39 chrV:12554402-12554482 7.4e-05 14_[+1]_58 chrI:13064030-13064110 7.4e-05 62_[+1]_10 chrIV:10250815-10250895 9.3e-05 65_[+1]_7 chrII:12625840-12625920 9.3e-05 46_[+1]_26 chrX:15079452-15079532 9.3e-05 27_[+1]_45 chrV:12554602-12554682 0.00012 [+1]_72 chrIII:12009863-12009943 0.00012 46_[+1]_26 chrV:11802577-11802657 0.00014 33_[+1]_39 chrII:8259772-8259852 0.00014 59_[+1]_13 chrX:15485281-15485361 0.00014 43_[+1]_29 chrIII:10486595-10486675 0.00015 58_[+1]_14 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TSACGTSA MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TSACGTSA width=8 seqs=31 chrIV:9534503-9534583 ( 47) TCACGTGA 1 chrII:4745420-4745500 ( 40) TCACGTGA 1 chrV:11859181-11859261 ( 67) TCACGTGA 1 chrIV:13911103-13911183 ( 13) TCACGTGA 1 chrII:13737057-13737137 ( 22) TCACGTGA 1 chrI:13061198-13061278 ( 68) TGACGTGA 1 chrV:11147225-11147305 ( 6) TGACGTGA 1 chrI:12055019-12055099 ( 48) TGACGTCA 1 chrIII:5951737-5951817 ( 10) TCACGTGG 1 chrIV:102991-103071 ( 4) TGACGTCA 1 chrIV:9672650-9672730 ( 37) TCACGTGG 1 chrX:15704754-15704834 ( 44) TGACGTCA 1 chrIV:11899557-11899637 ( 70) TGACGTCA 1 chrV:6505562-6505642 ( 44) TCACGTGG 1 chrII:1143334-1143414 ( 23) TGACGTCA 1 chrII:4918746-4918826 ( 38) TGACGTCA 1 chrII:9880979-9881059 ( 39) TGACGTCA 1 chrII:12622305-12622385 ( 73) TCACGTGG 1 chrIV:8914356-8914436 ( 33) TGACGTCA 1 chrII:10294416-10294496 ( 34) TGACGTCA 1 chrV:12554402-12554482 ( 15) TGACGTGG 1 chrI:13064030-13064110 ( 63) TGACGTGG 1 chrIV:10250815-10250895 ( 66) CCACGTGA 1 chrII:12625840-12625920 ( 47) CCACGTGA 1 chrX:15079452-15079532 ( 28) TCACGTCG 1 chrV:12554602-12554682 ( 1) CCACGTCA 1 chrIII:12009863-12009943 ( 47) CCACGTCA 1 chrV:11802577-11802657 ( 34) CCACGTGG 1 chrII:8259772-8259852 ( 60) CGACGTCA 1 chrX:15485281-15485361 ( 44) CCACGTGG 1 chrIII:10486595-10486675 ( 59) CGACGTGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TSACGTSA MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.4993 E= 2.5e-005 -1160 32 -1160 134 -1160 132 122 -1160 178 -1160 -1160 -1160 -1160 228 -1160 -1160 -1160 -1160 227 -1160 -1160 -1160 -1160 177 -1160 102 148 -1160 122 -1160 63 -1160 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TSACGTSA MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 31 E= 2.5e-005 0.000000 0.258065 0.000000 0.741935 0.000000 0.516129 0.483871 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.419355 0.580645 0.000000 0.677419 0.000000 0.322581 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TSACGTSA MEME-1 regular expression -------------------------------------------------------------------------------- [TC][CG]ACGT[GC][AG] -------------------------------------------------------------------------------- Time 5.89 secs. ******************************************************************************** ******************************************************************************** MOTIF GADRRAVA MEME-2 width = 8 sites = 71 llr = 500 E-value = 1.2e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif GADRRAVA MEME-2 Description -------------------------------------------------------------------------------- Simplified A :a376a49 pos.-specific C ::::::3: probability G a:434:41 matrix T ::3::::: bits 2.3 * 2.0 * 1.8 ** * 1.6 ** * Relative 1.4 ** * * Entropy 1.1 ** * * (10.2 bits) 0.9 ** *** * 0.7 ** *** * 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GAGAAAGA consensus AGG A sequence T C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GADRRAVA MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrI:6885335-6885415 33 1.91e-05 GTACCGTACG GAGAAAGA GAAACACAGA chrX:14894550-14894630 1 1.91e-05 . GAGAAAGA GATATTGCAA chrV:10557181-10557261 23 1.91e-05 TGATAAACAA GAGAAAGA AATCAGATCC chrV:8040820-8040900 58 1.91e-05 AGATGGATCA GAGAAAGA TCTCGATCTT chrII:8259772-8259852 23 1.91e-05 AAAACGGTGG GAGAAAGA GGTTGAAGAG chrI:4433106-4433186 16 3.27e-05 GGTGCCATCA GAGAGAGA GTATGTAAAC chrII:14673835-14673915 28 3.27e-05 GAAAAGGAGT GAGAGAGA AAAGATGAAG chrX:2865772-2865852 2 3.27e-05 a gagagaga gCGTTTCCTA chrIV:12045093-12045173 70 5.17e-05 GAGAGAACAG GAGAAACA TAC chrV:14660756-14660836 58 5.17e-05 AGGGGCCCAC GAGAAACA TACACAGACG chrX:2864083-2864163 48 5.17e-05 GTCGTGTGTC GAGAAACA AATTTTTAGC chrX:13941479-13941559 14 1.06e-04 GAGGGGGGAA GAGAGACA GGAGACAATT chrIV:9672650-9672730 68 1.06e-04 CTGTATGACA GAGAAAAA TGGGA chrI:5398064-5398144 27 1.06e-04 ATAAGGAAGC GAGAAAAA GGGAAAGTAT chrV:1447909-1447989 71 1.06e-04 gaggaggatg gagaaaaa gg chrV:13389623-13389703 43 1.06e-04 GGAGAACATA GAGAAAAA TAATTTAGGT chrV:12556062-12556142 15 1.06e-04 GGGAATACAT GAGAAAAA CACGATTTCG chrI:14953196-14953276 71 1.34e-04 ATTTAGGAGA GAGGGAGA GA chrIII:10007138-10007218 67 1.34e-04 ATCAACAAGT GAGAGAAA ACCGGT chrV:3980012-3980092 19 1.34e-04 TGGAGTGAGA GAGGGAGA AGAAGGAAAA chrII:8818443-8818523 3 1.48e-04 CA GAGGAACA TCAGACACGC chrI:4436890-4436970 31 1.77e-04 ATTTGGGAAG GAGGGACA AAAATGAGCG chrIII:7300347-7300427 16 1.77e-04 ATCCAACTAC GAGGAAAA CAACAAATAT chrIII:650654-650734 59 1.77e-04 GCTGTACACA GAGGGACA CAAACACTGG chrX:12874943-12875023 58 2.17e-04 TCTAAAAAGT GAGGGAAA AGAAGTGAAA chrIII:7644421-7644501 24 2.63e-04 ATGATTCTGC GAAAGAGA CAGCACGTGG chrV:11795513-11795593 68 2.63e-04 GAGAAAATGA GATAAAGA AGAAG chrV:5698311-5698391 43 2.63e-04 TCTGTGTCTC GATAAAGA CCGGAAATGT chrI:12501408-12501488 32 2.63e-04 CGAATTCGGG GAAAGAGA TATTTTCGAA chrIII:13101299-13101379 46 3.09e-04 GTCGCGAGAC GAAAAACA TACACAGTCG chrIII:2681358-2681438 66 3.09e-04 GATTTGACGC GAAAAACA CAAAAAA chrIV:13911103-13911183 37 3.09e-04 CTTTCTAGAA GATAGAGA AAGTCTACAA chrI:13061198-13061278 12 3.09e-04 CAGGTGAAGA GATAGAGA AATAGTGTTG chrV:4908704-4908784 41 3.09e-04 AATTAGCCAT GAAAAACA TATGTCATCA chrX:13469219-13469299 30 3.09e-04 TAACAGAAGA GATAGAGA GTAGACCAGA chrII:13680113-13680193 25 4.12e-04 TATTAATAGC GAAAAAAA GATTTATGAC chrX:14737092-14737172 12 4.12e-04 CTAGTTATCA GAAGAAGA ACGATTTATC chrIII:9502298-9502378 30 4.12e-04 AAGAAAGATG GAAAAAAA ACTGGGCAGC chrII:13678755-13678835 70 4.12e-04 agacgaagat gaagaaga cga chrX:4139000-4139080 16 4.12e-04 CGCGTGGGAC GAAGAAGA CGACCACGAC chrV:6430074-6430154 40 4.12e-04 GCAAGTCAAC GAAAAAAA AACGATATTC chrV:18701623-18701703 21 4.12e-04 ATAGTTTGGA GAAGAAGA TTTAGATGTA chrX:13325160-13325240 42 4.12e-04 AAGATGAAAC GAAAAAAA AATCAAACGC chrIII:8640490-8640570 4 4.12e-04 TGT GATAAACA ATTCGATTTG chrX:15264351-15264431 3 5.29e-04 GG GAAAGAAA CAACTGCAGC chrV:6238472-6238552 48 5.29e-04 ATCAGTTGAA GAAGGAGA GGATGGGTGC chrIII:7489318-7489398 47 5.29e-04 TAGTATACAA GATGAAGA GACGCAGAGG chrIII:4922196-4922276 23 5.29e-04 TCGCTCTATT GATAAAAA TACAATTTTA chrIII:2280707-2280787 50 5.29e-04 TGTAGCAACT GATAAAAA CTGATAAAAG chrIII:4096452-4096532 42 5.29e-04 ATGGGATTCT GATGAAGA AATTCCAATT chrI:8351169-8351249 69 5.29e-04 CCATCCTAAA GATAGACA TACA chrV:7836987-7837067 40 5.29e-04 TTTTGTTGTT GATAAaaa taggaagagt chrX:10306462-10306542 34 5.88e-04 TCATGATCCC GATAGAAA GGTTTTAGGC chrV:11147225-11147305 59 5.88e-04 ACTGTAGGGC GAAGAACA AGAAAAAGGG chrV:11801585-11801665 32 5.88e-04 GGCTATTCAA GATAGAAA GTGCACTGAT chrV:4895915-4895995 15 6.48e-04 CATAATTTAT GATGAACA TGTGAAGATG chrV:11802577-11802657 51 6.48e-04 GATATGATAA GAAGGACA AAGTCCTGTT chrII:7791743-7791823 12 6.48e-04 TTCTCCATAT GAAGAAAA GTACGAGAGA chrV:1450300-1450380 68 6.48e-04 CATCTTGATA GATGAACA CATGT chrIV:17442657-17442737 12 6.48e-04 AAAAGAGACT GATGAACA GTTTTCTCAG chrV:1607979-1608059 15 6.48e-04 CAAGAATCGC GAAGAAAA AGGCCGAGGG chrX:11420164-11420244 14 6.48e-04 GAGAGTGCGA GAAGAAAA GAGAAAACAA chrX:16266153-16266233 1 7.08e-04 . GATGGACA TGTTCCCGTA chrII:12622305-12622385 14 7.27e-04 GACAGATGAT GATGGAAA TTATAGATCA chrII:12262700-12262780 58 7.50e-04 AAGTCGGTTG GAGAGAGG TTACCCGCTA chrIV:8027517-8027597 22 7.64e-04 AAACACAGAC GAGAAACG GATGATGTCA chrV:12548851-12548931 64 8.02e-04 AGGGTTTACA GAGAGACG AAAAAACGA chrX:11647312-11647392 14 8.02e-04 TTTCAATTCG GAGAAAAG TGATATTGAA chrIV:13682911-13682991 56 8.23e-04 ATCTCTCACC GAGAGAAG ATATTATTTG chrII:9032101-9032181 58 8.23e-04 CAAGTTTTAC GAGAGAAG GCATAGGCGC chrIV:5216551-5216631 6 8.81e-04 AATTA GAAAAAGG TTCGAGAAGA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GADRRAVA MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrI:6885335-6885415 1.9e-05 32_[+2]_40 chrX:14894550-14894630 1.9e-05 [+2]_72 chrV:10557181-10557261 1.9e-05 22_[+2]_50 chrV:8040820-8040900 1.9e-05 57_[+2]_15 chrII:8259772-8259852 1.9e-05 22_[+2]_50 chrI:4433106-4433186 3.3e-05 15_[+2]_57 chrII:14673835-14673915 3.3e-05 27_[+2]_45 chrX:2865772-2865852 3.3e-05 1_[+2]_71 chrIV:12045093-12045173 5.2e-05 69_[+2]_3 chrV:14660756-14660836 5.2e-05 57_[+2]_15 chrX:2864083-2864163 5.2e-05 47_[+2]_25 chrX:13941479-13941559 0.00011 13_[+2]_59 chrIV:9672650-9672730 0.00011 67_[+2]_5 chrI:5398064-5398144 0.00011 26_[+2]_46 chrV:1447909-1447989 0.00011 70_[+2]_2 chrV:13389623-13389703 0.00011 42_[+2]_30 chrV:12556062-12556142 0.00011 14_[+2]_58 chrI:14953196-14953276 0.00013 70_[+2]_2 chrIII:10007138-10007218 0.00013 66_[+2]_6 chrV:3980012-3980092 0.00013 18_[+2]_54 chrII:8818443-8818523 0.00015 2_[+2]_70 chrI:4436890-4436970 0.00018 30_[+2]_42 chrIII:7300347-7300427 0.00018 15_[+2]_57 chrIII:650654-650734 0.00018 58_[+2]_14 chrX:12874943-12875023 0.00022 57_[+2]_15 chrIII:7644421-7644501 0.00026 23_[+2]_49 chrV:11795513-11795593 0.00026 67_[+2]_5 chrV:5698311-5698391 0.00026 42_[+2]_30 chrI:12501408-12501488 0.00026 31_[+2]_41 chrIII:13101299-13101379 0.00031 45_[+2]_27 chrIII:2681358-2681438 0.00031 65_[+2]_7 chrIV:13911103-13911183 0.00031 36_[+2]_36 chrI:13061198-13061278 0.00031 11_[+2]_61 chrV:4908704-4908784 0.00031 40_[+2]_32 chrX:13469219-13469299 0.00031 29_[+2]_43 chrII:13680113-13680193 0.00041 24_[+2]_48 chrX:14737092-14737172 0.00041 11_[+2]_61 chrIII:9502298-9502378 0.00041 29_[+2]_43 chrII:13678755-13678835 0.00041 69_[+2]_3 chrX:4139000-4139080 0.00041 15_[+2]_57 chrV:6430074-6430154 0.00041 39_[+2]_33 chrV:18701623-18701703 0.00041 20_[+2]_52 chrX:13325160-13325240 0.00041 41_[+2]_31 chrIII:8640490-8640570 0.00041 3_[+2]_69 chrX:15264351-15264431 0.00053 2_[+2]_70 chrV:6238472-6238552 0.00053 47_[+2]_25 chrIII:7489318-7489398 0.00053 46_[+2]_26 chrIII:4922196-4922276 0.00053 22_[+2]_50 chrIII:2280707-2280787 0.00053 49_[+2]_23 chrIII:4096452-4096532 0.00053 41_[+2]_31 chrI:8351169-8351249 0.00053 68_[+2]_4 chrV:7836987-7837067 0.00053 39_[+2]_33 chrX:10306462-10306542 0.00059 33_[+2]_39 chrV:11147225-11147305 0.00059 58_[+2]_14 chrV:11801585-11801665 0.00059 31_[+2]_41 chrV:4895915-4895995 0.00065 14_[+2]_58 chrV:11802577-11802657 0.00065 50_[+2]_22 chrII:7791743-7791823 0.00065 11_[+2]_61 chrV:1450300-1450380 0.00065 67_[+2]_5 chrIV:17442657-17442737 0.00065 11_[+2]_61 chrV:1607979-1608059 0.00065 14_[+2]_58 chrX:11420164-11420244 0.00065 13_[+2]_59 chrX:16266153-16266233 0.00071 [+2]_72 chrII:12622305-12622385 0.00073 13_[+2]_59 chrII:12262700-12262780 0.00075 57_[+2]_15 chrIV:8027517-8027597 0.00076 21_[+2]_51 chrV:12548851-12548931 0.0008 63_[+2]_9 chrX:11647312-11647392 0.0008 13_[+2]_59 chrIV:13682911-13682991 0.00082 55_[+2]_17 chrII:9032101-9032181 0.00082 57_[+2]_15 chrIV:5216551-5216631 0.00088 5_[+2]_67 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GADRRAVA MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GADRRAVA width=8 seqs=71 chrI:6885335-6885415 ( 33) GAGAAAGA 1 chrX:14894550-14894630 ( 1) GAGAAAGA 1 chrV:10557181-10557261 ( 23) GAGAAAGA 1 chrV:8040820-8040900 ( 58) GAGAAAGA 1 chrII:8259772-8259852 ( 23) GAGAAAGA 1 chrI:4433106-4433186 ( 16) GAGAGAGA 1 chrII:14673835-14673915 ( 28) GAGAGAGA 1 chrX:2865772-2865852 ( 2) GAGAGAGA 1 chrIV:12045093-12045173 ( 70) GAGAAACA 1 chrV:14660756-14660836 ( 58) GAGAAACA 1 chrX:2864083-2864163 ( 48) GAGAAACA 1 chrX:13941479-13941559 ( 14) GAGAGACA 1 chrIV:9672650-9672730 ( 68) GAGAAAAA 1 chrI:5398064-5398144 ( 27) GAGAAAAA 1 chrV:1447909-1447989 ( 71) GAGAAAAA 1 chrV:13389623-13389703 ( 43) GAGAAAAA 1 chrV:12556062-12556142 ( 15) GAGAAAAA 1 chrI:14953196-14953276 ( 71) GAGGGAGA 1 chrIII:10007138-10007218 ( 67) GAGAGAAA 1 chrV:3980012-3980092 ( 19) GAGGGAGA 1 chrII:8818443-8818523 ( 3) GAGGAACA 1 chrI:4436890-4436970 ( 31) GAGGGACA 1 chrIII:7300347-7300427 ( 16) GAGGAAAA 1 chrIII:650654-650734 ( 59) GAGGGACA 1 chrX:12874943-12875023 ( 58) GAGGGAAA 1 chrIII:7644421-7644501 ( 24) GAAAGAGA 1 chrV:11795513-11795593 ( 68) GATAAAGA 1 chrV:5698311-5698391 ( 43) GATAAAGA 1 chrI:12501408-12501488 ( 32) GAAAGAGA 1 chrIII:13101299-13101379 ( 46) GAAAAACA 1 chrIII:2681358-2681438 ( 66) GAAAAACA 1 chrIV:13911103-13911183 ( 37) GATAGAGA 1 chrI:13061198-13061278 ( 12) GATAGAGA 1 chrV:4908704-4908784 ( 41) GAAAAACA 1 chrX:13469219-13469299 ( 30) GATAGAGA 1 chrII:13680113-13680193 ( 25) GAAAAAAA 1 chrX:14737092-14737172 ( 12) GAAGAAGA 1 chrIII:9502298-9502378 ( 30) GAAAAAAA 1 chrII:13678755-13678835 ( 70) GAAGAAGA 1 chrX:4139000-4139080 ( 16) GAAGAAGA 1 chrV:6430074-6430154 ( 40) GAAAAAAA 1 chrV:18701623-18701703 ( 21) GAAGAAGA 1 chrX:13325160-13325240 ( 42) GAAAAAAA 1 chrIII:8640490-8640570 ( 4) GATAAACA 1 chrX:15264351-15264431 ( 3) GAAAGAAA 1 chrV:6238472-6238552 ( 48) GAAGGAGA 1 chrIII:7489318-7489398 ( 47) GATGAAGA 1 chrIII:4922196-4922276 ( 23) GATAAAAA 1 chrIII:2280707-2280787 ( 50) GATAAAAA 1 chrIII:4096452-4096532 ( 42) GATGAAGA 1 chrI:8351169-8351249 ( 69) GATAGACA 1 chrV:7836987-7837067 ( 40) GATAAAAA 1 chrX:10306462-10306542 ( 34) GATAGAAA 1 chrV:11147225-11147305 ( 59) GAAGAACA 1 chrV:11801585-11801665 ( 32) GATAGAAA 1 chrV:4895915-4895995 ( 15) GATGAACA 1 chrV:11802577-11802657 ( 51) GAAGGACA 1 chrII:7791743-7791823 ( 12) GAAGAAAA 1 chrV:1450300-1450380 ( 68) GATGAACA 1 chrIV:17442657-17442737 ( 12) GATGAACA 1 chrV:1607979-1608059 ( 15) GAAGAAAA 1 chrX:11420164-11420244 ( 14) GAAGAAAA 1 chrX:16266153-16266233 ( 1) GATGGACA 1 chrII:12622305-12622385 ( 14) GATGGAAA 1 chrII:12262700-12262780 ( 58) GAGAGAGG 1 chrIV:8027517-8027597 ( 22) GAGAAACG 1 chrV:12548851-12548931 ( 64) GAGAGACG 1 chrX:11647312-11647392 ( 14) GAGAAAAG 1 chrIV:13682911-13682991 ( 56) GAGAGAAG 1 chrII:9032101-9032181 ( 58) GAGAGAAG 1 chrIV:5216551-5216631 ( 6) GAAAAAGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GADRRAVA MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 8.83776 E= 1.2e-001 -1279 -1279 227 -1279 178 -1279 -1279 -1279 2 -1279 107 -14 118 -1279 70 -1279 109 -1279 87 -1279 178 -1279 -1279 -1279 27 45 82 -1279 163 -1279 -108 -1279 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GADRRAVA MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 71 E= 1.2e-001 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.295775 0.000000 0.436620 0.267606 0.661972 0.000000 0.338028 0.000000 0.619718 0.000000 0.380282 0.000000 1.000000 0.000000 0.000000 0.000000 0.352113 0.281690 0.366197 0.000000 0.901408 0.000000 0.098592 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GADRRAVA MEME-2 regular expression -------------------------------------------------------------------------------- GA[GAT][AG][AG]A[GAC]A -------------------------------------------------------------------------------- Time 9.82 secs. ******************************************************************************** ******************************************************************************** MOTIF TBYTTCTC MEME-3 width = 8 sites = 59 llr = 427 E-value = 1.2e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif TBYTTCTC MEME-3 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C 1471:6:a probability G :3:3:2:: matrix T 9436a2a: bits 2.3 * 2.0 * 1.8 * ** 1.6 * ** Relative 1.4 * * ** Entropy 1.1 * * * ** (10.5 bits) 0.9 * * **** 0.7 * ****** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TTCTTCTC consensus CTG T sequence G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TBYTTCTC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:15264351-15264431 33 1.37e-05 CAACACACCT TCCTTCTC TTGTCAATCC chrV:3989443-3989523 9 1.37e-05 CCTTGTCG TCCTTCTC GCCTGCTTCA chrIII:12009863-12009943 3 1.37e-05 TC TCCTTCTC CTGCCAATTC chrV:8039353-8039433 51 1.37e-05 CTCTCTTTTT TCCTTCTC ACTTTCTTTT chrIV:4402541-4402621 30 4.70e-05 TGTCACTACG TTCTTCTC CTTATTCTTC chrV:5701252-5701332 14 4.70e-05 TTATCTTTTC TGCTTCTC TTTTTTTCGG chrI:6574669-6574749 43 4.70e-05 tttcttcttc ttcttctc attttccttt chrI:8896260-8896340 42 4.70e-05 TTTCTGCGTT TTCTTCTC TTTATTTAGT chrII:1143334-1143414 64 4.70e-05 TCTACATAGA TTCTTCTC AAAAATGAA chrV:12294211-12294291 29 4.70e-05 TTGTGTTCGT TGCTTCTC TCTTTTTTAC chrII:10312097-10312177 20 4.70e-05 AATTCGTCAC TTCTTCTC AAATTCAGCG chrIV:10250815-10250895 10 8.02e-05 agttgtctc tgcgtctc aattcccgca chrI:999197-999277 13 8.02e-05 AAAGTGCGTC TGCGTCTC CCAGAGCGCC chrIV:14870022-14870102 28 8.02e-05 TTTGTTTGTC TGCGTCTC CACAGTGCTT chrV:6323092-6323172 64 8.02e-05 AATGTCCTTC TGCGTCTC TTGATTACC chrV:11147225-11147305 25 8.02e-05 TGAAGATGTC TTCGTCTC CGCCTTAATA chrV:4895915-4895995 37 9.97e-05 AAGATGAACT TCTTTCTC TGAGTACAAC chrX:13113577-13113657 66 9.97e-05 CAAATTGTTA TCTTTCTC TAAAATG chrIII:10337655-10337735 16 9.97e-05 TAATGATTCA TCTTTCTC GCCTCTTCTG chrIII:6145431-6145511 52 1.70e-04 ACAATCTAGC TCCCTCTC AATCAGTCCA chrI:3754614-3754694 6 1.70e-04 CTCTT TTTTTCTC AACACGAGCC chrIII:5921463-5921543 57 1.70e-04 CTTTTGACTC TTTTTCTC CCTTGATAAG chrII:9800436-9800516 20 1.70e-04 CTCACTCGGG TGTTTCTC GGCGCAACAA chrIII:2280707-2280787 29 1.70e-04 AATTTTTCAT TGTTTCTC ACGTGTAGCA chrX:7330859-7330939 64 1.70e-04 TTATTTTTTT TGTTTCTC TTTGTTCTC chrX:15340364-15340444 44 1.70e-04 AACTCCTACT TTTTTCTC ATATCTTTCC chrV:3980012-3980092 54 1.70e-04 ATGATGTCAT TGTTTCTC GCCAAAAAGA chrIII:5951737-5951817 70 1.90e-04 TTTTTTCATG TCCTTTTC AGT chrII:9160361-9160441 13 1.90e-04 CTCTTACATT TCCTTTTC TTCTGCAAAC chrIV:9633980-9634060 35 1.90e-04 GTTGACACCC TCCTTTTC CTGCATCATC chrIII:7978810-7978890 47 2.37e-04 CGCCTTTATT TTCTTGTC TAACCATCTG chrV:11614928-11615008 21 2.37e-04 ATAACGTCAC TTCTTGTC GTGATTTGTG chrV:1447219-1447299 68 2.37e-04 ATTCTCGTCC TTCTTGTC GCTAT chrII:12625840-12625920 72 2.37e-04 AAACCGTATT TTCTTGTC A chrX:6279736-6279816 28 2.61e-04 ACACCCTCGA TGCCTCTC ACCTTTGCCA chrI:9083116-9083196 22 2.61e-04 TTTGTCCATT TTCCTCTC AATTTACCAT chrV:11531222-11531302 5 3.18e-04 AACC TCCGTGTC TGTGTCTGTT chrX:13941479-13941559 65 3.18e-04 TAGGAATGCG TCCGTGTC TTTGAATA chrV:4908704-4908784 9 3.18e-04 CTTTGTAT TTCTTTTC ATTACTTGCT chrII:5459632-5459712 16 3.18e-04 AGTTCATCAT TTCTTTTC GGATCCCTCG chrV:14510917-14510997 73 3.18e-04 ATCGGGTGCC TCCGTGTC chrV:5698311-5698391 35 3.51e-04 AAGGCTCCTC TGTGTCTC GATAAAGACC chrII:11642216-11642296 69 3.51e-04 AGATTTTCTC TGTGTCTC CACG chrV:11802577-11802657 4 3.88e-04 ATC TTCGTGTC GTAGAAGTAG chrII:4548525-4548605 33 4.51e-04 CAAAAATCTT TTCGTTTC AAGCAAAACA chrX:7596140-7596220 54 4.51e-04 TTTTATTACT TTCGTTTC CAACGGAAAT chrX:6201638-6201718 51 4.51e-04 TAAACACGTG CCCTTCTC CGTGACTTTA chrII:9032101-9032181 19 4.51e-04 CGGATAGTAG TCTTTGTC CTATGTCCGT chrIV:11899557-11899637 1 4.65e-04 . tctctctc tTCATTTCTC chrIII:5472892-5472972 36 4.65e-04 TTTTTTTGTA TCTCTCTC TGGCGCCGTA chrIII:5812760-5812840 39 5.73e-04 CATTGTCCAC CTCTTCTC GTATCATTCC chrII:13680113-13680193 3 7.08e-04 TC TCCCTTTC ACTCTATTAA chrIV:6099947-6100027 60 7.08e-04 ATTAGAAACC TGTTTTTC ACGCAGTCAA chrV:11311188-11311268 60 7.08e-04 CAAGTCCTCA TTTTTTTC CATTGTGTTC chrX:4139000-4139080 46 7.08e-04 GTACAATGAT TCTGTGTC GTTGACAGAA chrX:13469219-13469299 69 7.08e-04 TCCTTCAAAC TTTTTTTC AACA chrX:16561052-16561132 12 8.34e-04 ATGTCAATGA CTCGTCTC ATGGTATGAA chrII:6878020-6878100 69 8.34e-04 AATTGTTCAT TGCCTTTC GAAA chrV:12199641-12199721 19 8.96e-04 ACTTTTTTAT CCTTTCTC TACACGCGTG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TBYTTCTC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:15264351-15264431 1.4e-05 32_[+3]_40 chrV:3989443-3989523 1.4e-05 8_[+3]_64 chrIII:12009863-12009943 1.4e-05 2_[+3]_70 chrV:8039353-8039433 1.4e-05 50_[+3]_22 chrIV:4402541-4402621 4.7e-05 29_[+3]_43 chrV:5701252-5701332 4.7e-05 13_[+3]_59 chrI:6574669-6574749 4.7e-05 42_[+3]_30 chrI:8896260-8896340 4.7e-05 41_[+3]_31 chrII:1143334-1143414 4.7e-05 63_[+3]_9 chrV:12294211-12294291 4.7e-05 28_[+3]_44 chrII:10312097-10312177 4.7e-05 19_[+3]_53 chrIV:10250815-10250895 8e-05 9_[+3]_63 chrI:999197-999277 8e-05 12_[+3]_60 chrIV:14870022-14870102 8e-05 27_[+3]_45 chrV:6323092-6323172 8e-05 63_[+3]_9 chrV:11147225-11147305 8e-05 24_[+3]_48 chrV:4895915-4895995 0.0001 36_[+3]_36 chrX:13113577-13113657 0.0001 65_[+3]_7 chrIII:10337655-10337735 0.0001 15_[+3]_57 chrIII:6145431-6145511 0.00017 51_[+3]_21 chrI:3754614-3754694 0.00017 5_[+3]_67 chrIII:5921463-5921543 0.00017 56_[+3]_16 chrII:9800436-9800516 0.00017 19_[+3]_53 chrIII:2280707-2280787 0.00017 28_[+3]_44 chrX:7330859-7330939 0.00017 63_[+3]_9 chrX:15340364-15340444 0.00017 43_[+3]_29 chrV:3980012-3980092 0.00017 53_[+3]_19 chrIII:5951737-5951817 0.00019 69_[+3]_3 chrII:9160361-9160441 0.00019 12_[+3]_60 chrIV:9633980-9634060 0.00019 34_[+3]_38 chrIII:7978810-7978890 0.00024 46_[+3]_26 chrV:11614928-11615008 0.00024 20_[+3]_52 chrV:1447219-1447299 0.00024 67_[+3]_5 chrII:12625840-12625920 0.00024 71_[+3]_1 chrX:6279736-6279816 0.00026 27_[+3]_45 chrI:9083116-9083196 0.00026 21_[+3]_51 chrV:11531222-11531302 0.00032 4_[+3]_68 chrX:13941479-13941559 0.00032 64_[+3]_8 chrV:4908704-4908784 0.00032 8_[+3]_64 chrII:5459632-5459712 0.00032 15_[+3]_57 chrV:14510917-14510997 0.00032 72_[+3] chrV:5698311-5698391 0.00035 34_[+3]_38 chrII:11642216-11642296 0.00035 68_[+3]_4 chrV:11802577-11802657 0.00039 3_[+3]_69 chrII:4548525-4548605 0.00045 32_[+3]_40 chrX:7596140-7596220 0.00045 53_[+3]_19 chrX:6201638-6201718 0.00045 50_[+3]_22 chrII:9032101-9032181 0.00045 18_[+3]_54 chrIV:11899557-11899637 0.00046 [+3]_72 chrIII:5472892-5472972 0.00046 35_[+3]_37 chrIII:5812760-5812840 0.00057 38_[+3]_34 chrII:13680113-13680193 0.00071 2_[+3]_70 chrIV:6099947-6100027 0.00071 59_[+3]_13 chrV:11311188-11311268 0.00071 59_[+3]_13 chrX:4139000-4139080 0.00071 45_[+3]_27 chrX:13469219-13469299 0.00071 68_[+3]_4 chrX:16561052-16561132 0.00083 11_[+3]_61 chrII:6878020-6878100 0.00083 68_[+3]_4 chrV:12199641-12199721 0.0009 18_[+3]_54 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TBYTTCTC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TBYTTCTC width=8 seqs=59 chrX:15264351-15264431 ( 33) TCCTTCTC 1 chrV:3989443-3989523 ( 9) TCCTTCTC 1 chrIII:12009863-12009943 ( 3) TCCTTCTC 1 chrV:8039353-8039433 ( 51) TCCTTCTC 1 chrIV:4402541-4402621 ( 30) TTCTTCTC 1 chrV:5701252-5701332 ( 14) TGCTTCTC 1 chrI:6574669-6574749 ( 43) TTCTTCTC 1 chrI:8896260-8896340 ( 42) TTCTTCTC 1 chrII:1143334-1143414 ( 64) TTCTTCTC 1 chrV:12294211-12294291 ( 29) TGCTTCTC 1 chrII:10312097-10312177 ( 20) TTCTTCTC 1 chrIV:10250815-10250895 ( 10) TGCGTCTC 1 chrI:999197-999277 ( 13) TGCGTCTC 1 chrIV:14870022-14870102 ( 28) TGCGTCTC 1 chrV:6323092-6323172 ( 64) TGCGTCTC 1 chrV:11147225-11147305 ( 25) TTCGTCTC 1 chrV:4895915-4895995 ( 37) TCTTTCTC 1 chrX:13113577-13113657 ( 66) TCTTTCTC 1 chrIII:10337655-10337735 ( 16) TCTTTCTC 1 chrIII:6145431-6145511 ( 52) TCCCTCTC 1 chrI:3754614-3754694 ( 6) TTTTTCTC 1 chrIII:5921463-5921543 ( 57) TTTTTCTC 1 chrII:9800436-9800516 ( 20) TGTTTCTC 1 chrIII:2280707-2280787 ( 29) TGTTTCTC 1 chrX:7330859-7330939 ( 64) TGTTTCTC 1 chrX:15340364-15340444 ( 44) TTTTTCTC 1 chrV:3980012-3980092 ( 54) TGTTTCTC 1 chrIII:5951737-5951817 ( 70) TCCTTTTC 1 chrII:9160361-9160441 ( 13) TCCTTTTC 1 chrIV:9633980-9634060 ( 35) TCCTTTTC 1 chrIII:7978810-7978890 ( 47) TTCTTGTC 1 chrV:11614928-11615008 ( 21) TTCTTGTC 1 chrV:1447219-1447299 ( 68) TTCTTGTC 1 chrII:12625840-12625920 ( 72) TTCTTGTC 1 chrX:6279736-6279816 ( 28) TGCCTCTC 1 chrI:9083116-9083196 ( 22) TTCCTCTC 1 chrV:11531222-11531302 ( 5) TCCGTGTC 1 chrX:13941479-13941559 ( 65) TCCGTGTC 1 chrV:4908704-4908784 ( 9) TTCTTTTC 1 chrII:5459632-5459712 ( 16) TTCTTTTC 1 chrV:14510917-14510997 ( 73) TCCGTGTC 1 chrV:5698311-5698391 ( 35) TGTGTCTC 1 chrII:11642216-11642296 ( 69) TGTGTCTC 1 chrV:11802577-11802657 ( 4) TTCGTGTC 1 chrII:4548525-4548605 ( 33) TTCGTTTC 1 chrX:7596140-7596220 ( 54) TTCGTTTC 1 chrX:6201638-6201718 ( 51) CCCTTCTC 1 chrII:9032101-9032181 ( 19) TCTTTGTC 1 chrIV:11899557-11899637 ( 1) TCTCTCTC 1 chrIII:5472892-5472972 ( 36) TCTCTCTC 1 chrIII:5812760-5812840 ( 39) CTCTTCTC 1 chrII:13680113-13680193 ( 3) TCCCTTTC 1 chrIV:6099947-6100027 ( 60) TGTTTTTC 1 chrV:11311188-11311268 ( 60) TTTTTTTC 1 chrX:4139000-4139080 ( 46) TCTGTGTC 1 chrX:13469219-13469299 ( 69) TTTTTTTC 1 chrX:16561052-16561132 ( 12) CTCGTCTC 1 chrII:6878020-6878100 ( 69) TGCCTTTC 1 chrV:12199641-12199721 ( 19) CCTTTCTC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TBYTTCTC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 8.92768 E= 1.2e+002 -1253 -161 -1253 166 -1253 78 29 41 -1253 168 -1253 21 -1253 -80 29 109 -1253 -1253 -1253 177 -1253 160 -29 -53 -1253 -1253 -1253 177 -1253 228 -1253 -1253 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TBYTTCTC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 59 E= 1.2e+002 0.000000 0.067797 0.000000 0.932203 0.000000 0.355932 0.254237 0.389831 0.000000 0.661017 0.000000 0.338983 0.000000 0.118644 0.254237 0.627119 0.000000 0.000000 0.000000 1.000000 0.000000 0.627119 0.169492 0.203390 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TBYTTCTC MEME-3 regular expression -------------------------------------------------------------------------------- T[TCG][CT][TG]T[CT]TC -------------------------------------------------------------------------------- Time 13.77 secs. ******************************************************************************** ******************************************************************************** MOTIF GSCGSCGC MEME-4 width = 8 sites = 19 llr = 174 E-value = 2.4e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif GSCGSCGC MEME-4 Description -------------------------------------------------------------------------------- Simplified A :::2::2: pos.-specific C :49:5a:7 probability G a6185:8: matrix T :::::::3 bits 2.3 * * 2.0 * * 1.8 * * * 1.6 * ** * Relative 1.4 ******** Entropy 1.1 ******** (13.2 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GGCGCCGC consensus C G AT sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSCGSCGC MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrII:2442388-2442468 60 3.44e-06 ttctcATTTT GGCGCCGC GCCTTCTATC chrII:9344148-9344228 67 6.89e-06 CACTTTTCTT GGCGGCGC CATGTC chrI:8864173-8864253 2 6.89e-06 T GGCGGCGC CCCGTGGTCT chrIII:8780643-8780723 39 1.03e-05 CACCGTCTTC GCCGCCGC GCCATGTCTA chrIII:7978810-7978890 32 1.37e-05 CTTGGCGAGT GCCGGCGC CTTTATTTTC chrIII:5472892-5472972 45 1.86e-05 ATCTCTCTCT GGCGCCGT AGCCGCCAGA chrX:2864083-2864163 32 2.35e-05 TGAAACACAA GGCGGCGT CGTGTGTCGA chrIII:5469627-5469707 45 3.32e-05 AAATGTGAAC GCCGCCGT CGACCGATTT chrV:12548851-12548931 26 3.32e-05 AACTGTTTTT GGCGCCAC GACGACGATT chrIII:6798199-6798279 35 3.32e-05 CTTGGTTCTC GCCGCCGT ACCCGTCGGT chrII:9032101-9032181 71 3.32e-05 AGAAGGCATA GGCGCCAC TC chrII:10090401-10090481 41 4.29e-05 GCGCCAGGTT GGCGGCAC CCAAAAACGG chrIII:4096452-4096532 1 4.29e-05 . GCCGGCGT GTGAACAATT chrII:7790458-7790538 41 4.29e-05 GGAGCGAAAG GGCGGCAC agagagagag chrX:12834953-12835033 35 5.74e-05 CAGACATGAT GGCACCGC CGGAAGAATT chrII:14928935-14929015 58 6.57e-05 TTCCCTCGCG GGGGCCGC CCGCATCTTT chrIII:10486595-10486675 28 7.40e-05 CTTCGTACCA GCCACCGC CATATCTTTT chrV:3989443-3989523 32 7.88e-05 CTTCATGGCT GCCAGCGC CCAGTGGGGA chrI:999197-999277 46 8.57e-05 GGTAAGGAAC GCGGGCGC CCGCAAGGAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSCGSCGC MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrII:2442388-2442468 3.4e-06 59_[+4]_13 chrII:9344148-9344228 6.9e-06 66_[+4]_6 chrI:8864173-8864253 6.9e-06 1_[+4]_71 chrIII:8780643-8780723 1e-05 38_[+4]_34 chrIII:7978810-7978890 1.4e-05 31_[+4]_41 chrIII:5472892-5472972 1.9e-05 44_[+4]_28 chrX:2864083-2864163 2.4e-05 31_[+4]_41 chrIII:5469627-5469707 3.3e-05 44_[+4]_28 chrV:12548851-12548931 3.3e-05 25_[+4]_47 chrIII:6798199-6798279 3.3e-05 34_[+4]_38 chrII:9032101-9032181 3.3e-05 70_[+4]_2 chrII:10090401-10090481 4.3e-05 40_[+4]_32 chrIII:4096452-4096532 4.3e-05 [+4]_72 chrII:7790458-7790538 4.3e-05 40_[+4]_32 chrX:12834953-12835033 5.7e-05 34_[+4]_38 chrII:14928935-14929015 6.6e-05 57_[+4]_15 chrIII:10486595-10486675 7.4e-05 27_[+4]_45 chrV:3989443-3989523 7.9e-05 31_[+4]_41 chrI:999197-999277 8.6e-05 45_[+4]_27 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSCGSCGC MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GSCGSCGC width=8 seqs=19 chrII:2442388-2442468 ( 60) GGCGCCGC 1 chrII:9344148-9344228 ( 67) GGCGGCGC 1 chrI:8864173-8864253 ( 2) GGCGGCGC 1 chrIII:8780643-8780723 ( 39) GCCGCCGC 1 chrIII:7978810-7978890 ( 32) GCCGGCGC 1 chrIII:5472892-5472972 ( 45) GGCGCCGT 1 chrX:2864083-2864163 ( 32) GGCGGCGT 1 chrIII:5469627-5469707 ( 45) GCCGCCGT 1 chrV:12548851-12548931 ( 26) GGCGCCAC 1 chrIII:6798199-6798279 ( 35) GCCGCCGT 1 chrII:9032101-9032181 ( 71) GGCGCCAC 1 chrII:10090401-10090481 ( 41) GGCGGCAC 1 chrIII:4096452-4096532 ( 1) GCCGGCGT 1 chrII:7790458-7790538 ( 41) GGCGGCAC 1 chrX:12834953-12835033 ( 35) GGCACCGC 1 chrII:14928935-14929015 ( 58) GGGGCCGC 1 chrIII:10486595-10486675 ( 28) GCCACCGC 1 chrV:3989443-3989523 ( 32) GCCAGCGC 1 chrI:999197-999277 ( 46) GCGGGCGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSCGSCGC MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.8043 E= 2.4e+002 -1089 -1089 227 -1089 -1089 103 148 -1089 -1089 211 -98 -1089 -88 -1089 202 -1089 -1089 135 119 -1089 -1089 227 -1089 -1089 -47 -1089 192 -1089 -1089 183 -1089 -16 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSCGSCGC MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 19 E= 2.4e+002 0.000000 0.000000 1.000000 0.000000 0.000000 0.421053 0.578947 0.000000 0.000000 0.894737 0.105263 0.000000 0.157895 0.000000 0.842105 0.000000 0.000000 0.526316 0.473684 0.000000 0.000000 1.000000 0.000000 0.000000 0.210526 0.000000 0.789474 0.000000 0.000000 0.736842 0.000000 0.263158 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GSCGSCGC MEME-4 regular expression -------------------------------------------------------------------------------- G[GC]CG[CG]C[GA][CT] -------------------------------------------------------------------------------- Time 17.48 secs. ******************************************************************************** ******************************************************************************** MOTIF TCGBCRAA MEME-5 width = 8 sites = 15 llr = 142 E-value = 4.0e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif TCGBCRAA MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::::5aa pos.-specific C :a:4a::: probability G ::a3:5:: matrix T a::3:::: bits 2.3 ** * 2.0 ** * 1.8 *** * ** 1.6 *** * ** Relative 1.4 *** * ** Entropy 1.1 *** * ** (13.7 bits) 0.9 *** **** 0.7 *** **** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TCGCCAAA consensus T G sequence G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGBCRAA MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:6639141-6639221 59 9.62e-06 TTCGCGCTAT TCGCCGAA GAGATAACAC chrV:11311188-11311268 8 9.62e-06 CCATCCT TCGCCGAA TGTCTTGTAT chrII:7555028-7555108 45 9.62e-06 CGATGATCAC TCGCCGAA AAGAGGTTCA chrIV:11899557-11899637 28 9.62e-06 CCTCACTTCC TCGCCGAA TCATACAGAG chrII:9880979-9881059 4 2.31e-05 AGT TCGCCAAA CTTTTCATTC chrIII:7872913-7872993 21 2.31e-05 CATCATGTGT TCGCCAAA CAATTGGCTC chrI:9083116-9083196 73 3.28e-05 TTTTCTATTT TCGGCGAA chrV:3984316-3984396 29 3.28e-05 CATCGGTTGA TCGGCGAA AAGGAAATTG chrX:11420164-11420244 66 3.28e-05 CCCCGTGAAT TCGGCGAA CTTCGCT chrII:8818443-8818523 71 6.00e-05 TGGTGATGGA TCGGCAAA CT chrX:6201638-6201718 23 7.92e-05 ATTAATGCTC TCGTCAAA AATGGAGAAA chrIV:7131989-7132069 43 7.92e-05 TCGTGACACT TCGTCAAA TTGACCGATT chrIII:650654-650734 32 7.92e-05 TTGACTATAT TCGTCAAA CATAGAATCG chrI:434689-434769 50 7.92e-05 ATCTATTTGT TCGTCAAA TTTGGTGCAA chrV:9086108-9086188 40 7.92e-05 ACGAACTTTT TCGTCAAA CGAATATTTA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGBCRAA MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:6639141-6639221 9.6e-06 58_[+5]_14 chrV:11311188-11311268 9.6e-06 7_[+5]_65 chrII:7555028-7555108 9.6e-06 44_[+5]_28 chrIV:11899557-11899637 9.6e-06 27_[+5]_45 chrII:9880979-9881059 2.3e-05 3_[+5]_69 chrIII:7872913-7872993 2.3e-05 20_[+5]_52 chrI:9083116-9083196 3.3e-05 72_[+5] chrV:3984316-3984396 3.3e-05 28_[+5]_44 chrX:11420164-11420244 3.3e-05 65_[+5]_7 chrII:8818443-8818523 6e-05 70_[+5]_2 chrX:6201638-6201718 7.9e-05 22_[+5]_50 chrIV:7131989-7132069 7.9e-05 42_[+5]_30 chrIII:650654-650734 7.9e-05 31_[+5]_41 chrI:434689-434769 7.9e-05 49_[+5]_23 chrV:9086108-9086188 7.9e-05 39_[+5]_33 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGBCRAA MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TCGBCRAA width=8 seqs=15 chrX:6639141-6639221 ( 59) TCGCCGAA 1 chrV:11311188-11311268 ( 8) TCGCCGAA 1 chrII:7555028-7555108 ( 45) TCGCCGAA 1 chrIV:11899557-11899637 ( 28) TCGCCGAA 1 chrII:9880979-9881059 ( 4) TCGCCAAA 1 chrIII:7872913-7872993 ( 21) TCGCCAAA 1 chrI:9083116-9083196 ( 73) TCGGCGAA 1 chrV:3984316-3984396 ( 29) TCGGCGAA 1 chrX:11420164-11420244 ( 66) TCGGCGAA 1 chrII:8818443-8818523 ( 71) TCGGCAAA 1 chrX:6201638-6201718 ( 23) TCGTCAAA 1 chrIV:7131989-7132069 ( 43) TCGTCAAA 1 chrIII:650654-650734 ( 32) TCGTCAAA 1 chrI:434689-434769 ( 50) TCGTCAAA 1 chrV:9086108-9086188 ( 40) TCGTCAAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGBCRAA MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 10.9222 E= 4.0e+003 -1055 -1055 -1055 177 -1055 227 -1055 -1055 -1055 -1055 227 -1055 -1055 95 36 18 -1055 227 -1055 -1055 87 -1055 117 -1055 178 -1055 -1055 -1055 178 -1055 -1055 -1055 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGBCRAA MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 15 E= 4.0e+003 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.400000 0.266667 0.333333 0.000000 1.000000 0.000000 0.000000 0.533333 0.000000 0.466667 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TCGBCRAA MEME-5 regular expression -------------------------------------------------------------------------------- TCG[CTG]C[AG]AA -------------------------------------------------------------------------------- Time 21.07 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:12834953-12835033 4.86e-02 34_[+4(5.74e-05)]_38 chrIII:7305747-7305827 1.69e-01 80 chrV:5820527-5820607 3.56e-01 80 chrX:15485281-15485361 5.47e-02 80 chrII:10312097-10312177 1.34e-01 19_[+3(4.70e-05)]_53 chrII:8259772-8259852 8.53e-04 22_[+2(1.91e-05)]_50 chrIII:5472892-5472972 1.74e-03 44_[+4(1.86e-05)]_28 chrV:9086108-9086188 3.50e-02 39_[+5(7.92e-05)]_33 chrI:13064030-13064110 5.56e-03 62_[+1(7.42e-05)]_10 chrX:16266153-16266233 2.06e-01 80 chrII:2442388-2442468 3.58e-04 16_[+3(8.02e-05)]_35_[+4(3.44e-06)]_\ 13 chrX:11420164-11420244 8.57e-04 65_[+5(3.28e-05)]_7 chrV:14510917-14510997 2.37e-02 80 chrII:7628809-7628889 1.90e-01 80 chrII:9032101-9032181 8.02e-04 70_[+4(3.32e-05)]_2 chrII:8765349-8765429 1.40e-01 80 chrV:12556062-12556142 4.82e-02 80 chrII:10294416-10294496 5.38e-02 33_[+1(6.44e-05)]_39 chrV:8040820-8040900 6.12e-02 57_[+2(1.91e-05)]_15 chrV:12199641-12199721 1.11e-01 80 chrV:3980012-3980092 1.25e-04 59_[+5(2.31e-05)]_13 chrV:13389623-13389703 1.26e-01 80 chrX:10630207-10630287 4.79e-01 80 chrII:5459632-5459712 1.71e-01 80 chrV:3984316-3984396 1.49e-02 28_[+5(3.28e-05)]_44 chrI:434689-434769 9.68e-02 49_[+5(7.92e-05)]_23 chrV:11801585-11801665 3.58e-01 80 chrIII:7872913-7872993 1.78e-02 20_[+5(2.31e-05)]_52 chrV:1447909-1447989 7.20e-02 80 chrII:8440948-8441028 6.29e-01 80 chrII:8263721-8263801 3.30e-01 80 chrX:13315209-13315289 4.97e-01 80 chrIV:10777259-10777339 6.28e-01 80 chrX:7242257-7242337 6.96e-01 80 chrI:8864173-8864253 7.93e-03 1_[+4(6.89e-06)]_71 chrX:2864083-2864163 4.46e-05 31_[+4(2.35e-05)]_8_[+2(5.17e-05)]_\ 25 chrX:9403800-9403880 1.45e-01 80 chrIV:12921154-12921234 7.77e-01 80 chrIV:9535277-9535357 3.81e-01 80 chrIV:762114-762194 5.39e-01 80 chrIV:8914356-8914436 6.58e-02 32_[+1(6.44e-05)]_40 chrX:11647312-11647392 2.51e-01 80 chrII:12622305-12622385 4.09e-02 72_[+1(6.44e-05)] chrIII:650654-650734 3.11e-02 31_[+5(7.92e-05)]_41 chrIII:7488408-7488488 2.58e-02 80 chrIII:8640490-8640570 2.65e-01 80 chrX:11471531-11471611 3.46e-01 80 chrX:14576053-14576133 9.19e-01 80 chrV:7836987-7837067 1.18e-01 80 chrII:3440427-3440507 9.13e-01 80 chrII:7790458-7790538 7.90e-04 40_[+4(4.29e-05)]_1_[+2(3.27e-05)]_\ 23 chrV:11147225-11147305 3.19e-04 5_[+1(2.74e-05)]_11_[+3(8.02e-05)]_\ 48 chrX:9086012-9086092 6.19e-01 80 chrV:6323092-6323172 1.10e-01 63_[+3(8.02e-05)]_9 chrX:10306462-10306542 8.18e-03 80 chrIV:7131989-7132069 2.24e-02 42_[+5(7.92e-05)]_30 chrX:15340364-15340444 2.20e-01 80 chrII:10515563-10515643 8.38e-01 80 chrII:9880979-9881059 7.39e-04 3_[+5(2.31e-05)]_27_[+1(6.44e-05)]_\ 34 chrIII:5812760-5812840 6.30e-01 80 chrX:13469219-13469299 1.46e-01 80 chrI:8351169-8351249 5.20e-01 80 chrII:4918746-4918826 2.57e-02 37_[+1(6.44e-05)]_35 chrV:1593833-1593913 9.26e-03 80 chrIII:7300347-7300427 2.24e-01 80 chrII:4550070-4550150 3.42e-01 80 chrV:6690236-6690316 4.35e-02 80 chrX:15079452-15079532 7.54e-02 27_[+1(9.35e-05)]_45 chrI:10116955-10117035 6.26e-01 80 chrX:13008260-13008340 2.20e-01 80 chrII:12625840-12625920 1.76e-03 46_[+1(9.35e-05)]_26 chrIV:13682911-13682991 4.05e-01 80 chrX:9547341-9547421 2.78e-01 80 chrV:12294211-12294291 1.37e-01 28_[+3(4.70e-05)]_44 chrIII:10337655-10337735 1.05e-01 15_[+3(9.97e-05)]_57 chrX:7329747-7329827 7.49e-01 80 chrX:7330859-7330939 1.83e-02 80 chrII:1143334-1143414 2.94e-03 22_[+1(6.44e-05)]_33_[+3(4.70e-05)]_\ 9 chrV:5821655-5821735 4.81e-01 80 chrV:8039353-8039433 1.26e-01 50_[+3(1.37e-05)]_22 chrV:4908704-4908784 7.10e-02 80 chrIII:12009863-12009943 1.34e-03 2_[+3(1.37e-05)]_70 chrV:11016972-11017052 8.24e-01 80 chrV:6319537-6319617 5.22e-01 80 chrIV:9633980-9634060 3.86e-01 80 chrV:12635407-12635487 4.23e-01 80 chrV:5823104-5823184 3.20e-01 80 chrIV:4294716-4294796 1.86e-01 80 chrV:13787646-13787726 6.60e-01 80 chrII:13737057-13737137 1.78e-02 21_[+1(1.37e-05)]_51 chrII:6878020-6878100 6.59e-01 80 chrX:6665563-6665643 4.96e-01 80 chrX:6201638-6201718 1.85e-03 22_[+5(7.92e-05)]_50 chrIII:5471646-5471726 2.96e-01 80 chrV:1607979-1608059 2.76e-01 80 chrII:5449781-5449861 1.11e-01 80 chrX:17476079-17476159 2.51e-02 6_[+5(9.28e-05)]_66 chrV:1447219-1447299 1.56e-01 80 chrX:12425564-12425644 8.43e-01 80 chrIII:6798199-6798279 3.30e-03 34_[+4(3.32e-05)]_38 chrII:12262700-12262780 3.55e-01 80 chrIV:13079246-13079326 2.22e-01 80 chrX:2946684-2946764 2.23e-01 80 chrI:4328993-4329073 5.00e-01 80 chrI:13061198-13061278 1.09e-02 67_[+1(2.74e-05)]_5 chrI:4436890-4436970 1.91e-01 80 chrII:11642216-11642296 9.06e-02 80 chrV:6505562-6505642 1.67e-02 43_[+1(6.44e-05)]_29 chrIII:10007138-10007218 1.32e-01 80 chrIII:12849358-12849438 1.05e-01 80 chrIII:4096452-4096532 3.35e-02 [+4(4.29e-05)]_72 chrV:10557181-10557261 3.26e-02 22_[+2(1.91e-05)]_50 chrIII:2280707-2280787 5.38e-03 80 chrX:13325160-13325240 3.17e-01 80 chrIV:5216551-5216631 4.97e-01 80 chrIV:11899557-11899637 1.98e-04 27_[+5(9.62e-06)]_34_[+1(6.44e-05)]_\ 3 chrX:14894550-14894630 6.01e-02 [+2(1.91e-05)]_72 chrX:6741705-6741785 1.44e-01 80 chrX:16561052-16561132 1.34e-01 80 chrI:6260343-6260423 5.10e-01 80 chrV:3989443-3989523 2.02e-03 8_[+3(1.37e-05)]_15_[+4(7.88e-05)]_\ 41 chrIII:4922196-4922276 2.91e-01 80 chrX:17138330-17138410 6.45e-01 80 chrIV:10976085-10976165 1.02e-01 63_[+2(3.27e-05)]_9 chrI:8896260-8896340 2.63e-01 41_[+3(4.70e-05)]_31 chrI:12501408-12501488 1.53e-01 80 chrIV:13911103-13911183 7.80e-03 12_[+1(1.37e-05)]_60 chrX:7596140-7596220 2.78e-01 80 chrIII:7489318-7489398 5.62e-01 80 chrX:17374093-17374173 1.56e-01 80 chrV:18701623-18701703 3.37e-01 80 chrIV:14870022-14870102 1.04e-01 27_[+3(8.02e-05)]_45 chrI:6574669-6574749 1.36e-01 42_[+3(4.70e-05)]_30 chrV:11649418-11649498 2.04e-01 80 chrX:3492536-3492616 3.51e-01 80 chrX:11478936-11479016 7.57e-01 80 chrV:5701252-5701332 1.47e-01 13_[+3(4.70e-05)]_59 chrV:12548851-12548931 9.22e-03 25_[+4(3.32e-05)]_47 chrX:15704754-15704834 1.22e-01 43_[+1(6.44e-05)]_29 chrII:9800436-9800516 1.22e-02 80 chrX:14503446-14503526 1.39e-01 80 chrV:6430074-6430154 8.94e-02 80 chrIV:13083052-13083132 8.44e-01 80 chrV:11859181-11859261 6.13e-02 66_[+1(1.37e-05)]_6 chrV:10556474-10556554 5.22e-01 80 chrX:15073028-15073108 1.84e-01 80 chrII:9124545-9124625 8.69e-01 80 chrI:10577224-10577304 6.95e-02 80 chrIII:2681358-2681438 9.99e-02 80 chrX:2893084-2893164 8.35e-01 80 chrII:7555028-7555108 6.24e-03 44_[+5(9.62e-06)]_28 chrV:9741014-9741094 1.81e-01 80 chrX:13113577-13113657 2.77e-01 65_[+3(9.97e-05)]_7 chrV:6687737-6687817 3.07e-01 80 chrIII:7567874-7567954 7.84e-01 80 chrV:5698311-5698391 2.45e-02 80 chrII:11163457-11163537 7.29e-01 80 chrV:12554402-12554482 7.39e-02 14_[+1(7.42e-05)]_58 chrI:5398064-5398144 3.93e-02 80 chrV:12533936-12534016 8.28e-01 80 chrX:4139000-4139080 2.75e-02 80 chrV:14660756-14660836 1.11e-02 57_[+2(5.17e-05)]_15 chrX:9491631-9491711 5.83e-01 80 chrIV:17442657-17442737 1.31e-01 80 chrX:6249387-6249467 4.81e-02 80 chrV:11795513-11795593 5.86e-02 80 chrX:10772892-10772972 6.92e-01 80 chrIV:1859545-1859625 4.98e-02 80 chrII:4745420-4745500 7.78e-02 39_[+1(1.37e-05)]_33 chrV:1450300-1450380 3.66e-01 80 chrV:11311188-11311268 2.33e-03 7_[+5(9.62e-06)]_65 chrIII:10486595-10486675 9.50e-04 27_[+4(7.40e-05)]_45 chrII:6324198-6324278 3.17e-01 80 chrX:9549042-9549122 6.17e-01 80 chrIV:9672650-9672730 9.72e-03 36_[+1(6.44e-05)]_36 chrIII:8780643-8780723 1.03e-02 38_[+4(1.03e-05)]_34 chrII:6821257-6821337 5.96e-01 80 chrII:4751975-4752055 9.64e-01 80 chrX:5117194-5117274 1.45e-01 80 chrX:3837823-3837903 2.37e-01 80 chrII:7791743-7791823 4.52e-01 80 chrII:8818443-8818523 1.34e-03 70_[+5(6.00e-05)]_2 chrII:3555435-3555515 2.67e-01 80 chrII:13678755-13678835 4.32e-02 80 chrV:11614928-11615008 6.45e-02 80 chrIII:9502298-9502378 2.41e-01 80 chrIV:102991-103071 9.53e-02 3_[+1(6.44e-05)]_69 chrX:6639141-6639221 1.37e-02 58_[+5(9.62e-06)]_14 chrI:9083116-9083196 2.05e-02 72_[+5(3.28e-05)] chrV:6238472-6238552 1.67e-01 80 chrV:7415951-7416031 1.17e-01 80 chrII:9160361-9160441 8.39e-02 80 chrII:9344148-9344228 1.79e-02 66_[+4(6.89e-06)]_6 chrII:10090401-10090481 9.74e-02 40_[+4(4.29e-05)]_32 chrIII:13101299-13101379 5.52e-02 80 chrIV:10782136-10782216 2.70e-01 80 chrV:11148021-11148101 9.18e-01 80 chrI:6885335-6885415 2.21e-02 32_[+2(1.91e-05)]_40 chrX:2865772-2865852 5.58e-02 1_[+2(3.27e-05)]_71 chrX:14780280-14780360 3.05e-01 80 chrII:14673835-14673915 7.25e-02 27_[+2(3.27e-05)]_45 chrX:864403-864483 8.60e-01 80 chrV:6012292-6012372 7.32e-01 80 chrIV:274293-274373 2.31e-01 80 chrII:14928935-14929015 4.77e-02 57_[+4(6.57e-05)]_15 chrI:999197-999277 7.71e-03 12_[+3(8.02e-05)]_25_[+4(8.57e-05)]_\ 27 chrI:9145596-9145676 8.82e-01 80 chrV:12554602-12554682 3.27e-01 80 chrX:14737092-14737172 4.21e-01 80 chrIV:8027517-8027597 4.04e-01 80 chrV:11802577-11802657 5.56e-04 80 chrI:4433106-4433186 2.03e-02 15_[+2(3.27e-05)]_57 chrV:6431242-6431322 8.23e-01 80 chrX:13941479-13941559 4.93e-03 80 chrV:8662344-8662424 5.45e-01 80 chrIII:5921463-5921543 5.55e-02 80 chrI:3754614-3754694 4.46e-01 80 chrIV:10250815-10250895 6.60e-03 9_[+3(8.02e-05)]_48_[+1(9.35e-05)]_\ 7 chrIII:6145431-6145511 1.05e-01 80 chrX:17684919-17684999 4.93e-01 80 chrIV:9534503-9534583 1.18e-02 46_[+1(1.37e-05)]_26 chrII:4548525-4548605 1.21e-01 80 chrV:4895915-4895995 2.53e-02 36_[+3(9.97e-05)]_36 chrX:7987076-7987156 3.77e-01 80 chrV:18639696-18639776 8.66e-01 80 chrIII:5469627-5469707 5.98e-02 44_[+4(3.32e-05)]_28 chrI:14953196-14953276 2.20e-01 44_[+2(5.17e-05)]_28 chrV:1594765-1594845 2.33e-01 80 chrX:15264351-15264431 2.63e-03 32_[+3(1.37e-05)]_40 chrIV:12045093-12045173 2.48e-01 69_[+2(5.17e-05)]_3 chrIV:6099947-6100027 2.09e-01 80 chrIII:7644421-7644501 1.11e-02 80 chrX:3117311-3117391 8.61e-01 80 chrIV:4402541-4402621 1.61e-02 29_[+3(4.70e-05)]_43 chrII:13680113-13680193 9.54e-02 80 chrIV:6657680-6657760 7.58e-01 80 chrII:7528387-7528467 6.03e-01 80 chrX:5835219-5835299 4.88e-01 80 chrV:11531222-11531302 4.37e-01 80 chrI:10406150-10406230 1.94e-01 80 chrX:6279736-6279816 9.11e-03 80 chrIII:5951737-5951817 1.41e-02 9_[+1(6.44e-05)]_63 chrI:12055019-12055099 5.80e-02 47_[+1(6.44e-05)]_25 chrI:11784536-11784616 1.00e-01 80 chrX:15626275-15626355 8.06e-01 80 chrX:12874943-12875023 3.01e-02 80 chrV:5832969-5833049 1.93e-01 80 chrII:8822889-8822969 2.85e-01 80 chrIII:7978810-7978890 1.90e-03 31_[+4(1.37e-05)]_41 chrIV:9868131-9868211 6.06e-01 80 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c22n12.farnam.hpc.yale.internal ********************************************************************************