******************************************************************************** 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/K562/fasta/RankLinear0.6_40/CBX8.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr1:180197073-180197153 1.0000 80 chr1:229520655-229520735 1.0000 80 chr1:212783481-212783561 1.0000 80 chr3:71773176-71773256 1.0000 80 chr9:126781724-126781804 1.0000 80 chr15:74428317-74428397 1.0000 80 chr1:200845449-200845529 1.0000 80 chr17:46227353-46227433 1.0000 80 chr6:7379203-7379283 1.0000 80 chr10:4000999-4001079 1.0000 80 chr8:67454581-67454661 1.0000 80 chr6:126071948-126072028 1.0000 80 chr7:120971580-120971660 1.0000 80 chr6:41305624-41305704 1.0000 80 chr17:42904712-42904792 1.0000 80 chr8:61566909-61566989 1.0000 80 chr10:72204528-72204608 1.0000 80 chr6:32383665-32383745 1.0000 80 chrX:13833945-13834025 1.0000 80 chr1:75601551-75601631 1.0000 80 chr2:175196948-175197028 1.0000 80 chr3:72010700-72010780 1.0000 80 chr15:83950993-83951073 1.0000 80 chr11:13340688-13340768 1.0000 80 chr9:132458350-132458430 1.0000 80 chr3:11759957-11760037 1.0000 80 chr4:140808093-140808173 1.0000 80 chr1:180208474-180208554 1.0000 80 chr7:107931452-107931532 1.0000 80 chr8:101224471-101224551 1.0000 80 chr6:151627563-151627643 1.0000 80 chr6:108478176-108478256 1.0000 80 chr22:22594103-22594183 1.0000 80 chr6:144723650-144723730 1.0000 80 chr9:135294245-135294325 1.0000 80 chr1:8088046-8088126 1.0000 80 chr13:73630726-73630806 1.0000 80 chr12:72200549-72200629 1.0000 80 chr18:3747287-3747367 1.0000 80 chr11:69454808-69454888 1.0000 80 chr3:184869472-184869552 1.0000 80 chr1:145116121-145116201 1.0000 80 chr17:29894155-29894235 1.0000 80 chr10:102998023-10299810 1.0000 80 chr1:212780722-212780802 1.0000 80 chr11:31863142-31863222 1.0000 80 chr21:35094968-35095048 1.0000 80 chr1:200845734-200845814 1.0000 80 chr20:30642855-30642935 1.0000 80 chr1:197888821-197888901 1.0000 80 chr4:99579129-99579209 1.0000 80 chr5:145435154-145435234 1.0000 80 chr5:77264027-77264107 1.0000 80 chr4:9822135-9822215 1.0000 80 chr15:57968806-57968886 1.0000 80 chr5:78405494-78405574 1.0000 80 chr4:113438103-113438183 1.0000 80 chr20:57377303-57377383 1.0000 80 chr4:3265539-3265619 1.0000 80 chr6:151043153-151043233 1.0000 80 chr2:183733394-183733474 1.0000 80 chr7:138665618-138665698 1.0000 80 chr13:111748467-11174854 1.0000 80 chr6:136855656-136855736 1.0000 80 chr10:4229216-4229296 1.0000 80 chr6:7556662-7556742 1.0000 80 chr7:107347849-107347929 1.0000 80 chr3:41235461-41235541 1.0000 80 chr15:51129746-51129826 1.0000 80 chr6:163807531-163807611 1.0000 80 chr6:30923021-30923101 1.0000 80 chrX:119131249-119131329 1.0000 80 chr7:111843394-111843474 1.0000 80 chr1:8363062-8363142 1.0000 80 chr2:120112595-120112675 1.0000 80 chr1:53871549-53871629 1.0000 80 chr9:138551257-138551337 1.0000 80 chr2:177979541-177979621 1.0000 80 chr4:187216240-187216320 1.0000 80 chr10:76717422-76717502 1.0000 80 chr1:115236127-115236207 1.0000 80 chr5:55882164-55882244 1.0000 80 chr12:10964649-10964729 1.0000 80 chr17:35294331-35294411 1.0000 80 chr16:50020830-50020910 1.0000 80 chr5:135249859-135249939 1.0000 80 chr10:404081-404161 1.0000 80 chr6:143891200-143891280 1.0000 80 chr6:149616435-149616515 1.0000 80 chr6:167173834-167173914 1.0000 80 chr1:200709822-200709902 1.0000 80 chr11:14403642-14403722 1.0000 80 chr7:27945702-27945782 1.0000 80 chr6:99285033-99285113 1.0000 80 chr6:38466680-38466760 1.0000 80 chr6:16837607-16837687 1.0000 80 chr6:159084762-159084842 1.0000 80 chr2:55116362-55116442 1.0000 80 chr6:5997635-5997715 1.0000 80 chr15:51698161-51698241 1.0000 80 chr7:20836636-20836716 1.0000 80 chr8:101146957-101147037 1.0000 80 chr5:75565245-75565325 1.0000 80 chr3:43322632-43322712 1.0000 80 chr9:133033836-133033916 1.0000 80 chr6:708001-708081 1.0000 80 chr12:54443001-54443081 1.0000 80 chr1:244012056-244012136 1.0000 80 chr5:159740287-159740367 1.0000 80 chr11:134145815-13414589 1.0000 80 chr2:175870823-175870903 1.0000 80 chr10:711001-711081 1.0000 80 chr2:175829106-175829186 1.0000 80 chr6:100040000-100040080 1.0000 80 chr8:142140032-142140112 1.0000 80 chr5:54527914-54527994 1.0000 80 chr6:109274142-109274222 1.0000 80 chr6:7552288-7552368 1.0000 80 chr17:77929323-77929403 1.0000 80 chr12:64575977-64576057 1.0000 80 chr21:43956074-43956154 1.0000 80 chr16:54187643-54187723 1.0000 80 chr17:36008748-36008828 1.0000 80 chr4:111537468-111537548 1.0000 80 chr21:43204999-43205079 1.0000 80 chr18:60828503-60828583 1.0000 80 chr6:143248812-143248892 1.0000 80 chr5:124070766-124070846 1.0000 80 chr10:50606745-50606825 1.0000 80 chr1:8077554-8077634 1.0000 80 chr2:45887732-45887812 1.0000 80 chr3:24715315-24715395 1.0000 80 chr6:143267864-143267944 1.0000 80 chr5:36606460-36606540 1.0000 80 chr1:236915388-236915468 1.0000 80 chr15:96954991-96955071 1.0000 80 chr8:28353983-28354063 1.0000 80 chr11:64290458-64290538 1.0000 80 chr17:26795531-26795611 1.0000 80 chr7:1260057-1260137 1.0000 80 chr6:143269356-143269436 1.0000 80 chr3:5292316-5292396 1.0000 80 chr5:72746243-72746323 1.0000 80 chr6:38946050-38946130 1.0000 80 chr7:105332083-105332163 1.0000 80 chr12:44267471-44267551 1.0000 80 chr15:44496595-44496675 1.0000 80 chr14:65084079-65084159 1.0000 80 chr6:56704699-56704779 1.0000 80 chr8:41965253-41965333 1.0000 80 chr1:154734083-154734163 1.0000 80 chr6:105708478-105708558 1.0000 80 chr13:100529051-10052913 1.0000 80 chr8:81489518-81489598 1.0000 80 chr1:117678114-117678194 1.0000 80 chr6:2129799-2129879 1.0000 80 chr20:60531046-60531126 1.0000 80 chr6:155366963-155367043 1.0000 80 chr22:20740122-20740202 1.0000 80 chr1:154734477-154734557 1.0000 80 chr10:4760893-4760973 1.0000 80 chr13:28062761-28062841 1.0000 80 chr7:107344131-107344211 1.0000 80 chr15:40026553-40026633 1.0000 80 chr17:59108062-59108142 1.0000 80 chr18:76757076-76757156 1.0000 80 chr2:230884415-230884495 1.0000 80 chr21:30488441-30488521 1.0000 80 chr13:113753661-11375374 1.0000 80 chr8:61590469-61590549 1.0000 80 chr6:161897770-161897850 1.0000 80 chr1:115154757-115154837 1.0000 80 chr5:72742399-72742479 1.0000 80 chr17:60428677-60428757 1.0000 80 chr14:36977193-36977273 1.0000 80 chr4:90063550-90063630 1.0000 80 chr5:36860078-36860158 1.0000 80 chr3:129700268-129700348 1.0000 80 chr6:159084407-159084487 1.0000 80 chr7:134385605-134385685 1.0000 80 chr15:99164428-99164508 1.0000 80 chr8:95657682-95657762 1.0000 80 chr4:25965466-25965546 1.0000 80 chr1:44651209-44651289 1.0000 80 chr4:153873269-153873349 1.0000 80 chr1:45637411-45637491 1.0000 80 chr1:245465592-245465672 1.0000 80 chr6:151574344-151574424 1.0000 80 chr13:111768636-11176871 1.0000 80 chr12:27425086-27425166 1.0000 80 chr5:122485605-122485685 1.0000 80 chr11:12012357-12012437 1.0000 80 chr17:38019606-38019686 1.0000 80 chr18:59993771-59993851 1.0000 80 chr6:76458085-76458165 1.0000 80 chr5:56082340-56082420 1.0000 80 chr8:125383361-125383441 1.0000 80 chr2:175693785-175693865 1.0000 80 chr6:41295148-41295228 1.0000 80 chr12:31483450-31483530 1.0000 80 chr13:27987942-27988022 1.0000 80 chr12:114145113-11414519 1.0000 80 chr1:200905716-200905796 1.0000 80 chr1:213670734-213670814 1.0000 80 chr12:49583786-49583866 1.0000 80 chr1:25258223-25258303 1.0000 80 chr6:106961122-106961202 1.0000 80 chr7:77076272-77076352 1.0000 80 chr7:26081710-26081790 1.0000 80 chr7:36398327-36398407 1.0000 80 chr6:6811104-6811184 1.0000 80 chr8:28286384-28286464 1.0000 80 chr16:4007069-4007149 1.0000 80 chr17:77970133-77970213 1.0000 80 chr13:73632318-73632398 1.0000 80 chr6:151569153-151569233 1.0000 80 chr6:7687944-7688024 1.0000 80 chr9:102594623-102594703 1.0000 80 chr5:122083681-122083761 1.0000 80 chr2:27402394-27402474 1.0000 80 chr7:93635225-93635305 1.0000 80 chr8:119100181-119100261 1.0000 80 chr2:200694504-200694584 1.0000 80 chr12:23129738-23129818 1.0000 80 chr6:155367241-155367321 1.0000 80 chr5:149468414-149468494 1.0000 80 chr11:1919146-1919226 1.0000 80 chr1:225934426-225934506 1.0000 80 chr16:4055787-4055867 1.0000 80 chr6:53336554-53336634 1.0000 80 chr2:28842281-28842361 1.0000 80 chr7:27242013-27242093 1.0000 80 chr6:100894174-100894254 1.0000 80 chr7:155072732-155072812 1.0000 80 chr1:236082378-236082458 1.0000 80 chr2:183668985-183669065 1.0000 80 chr10:81665517-81665597 1.0000 80 chr1:116106637-116106717 1.0000 80 chr8:61545559-61545639 1.0000 80 chr2:27400844-27400924 1.0000 80 chr2:46093219-46093299 1.0000 80 chr6:134212194-134212274 1.0000 80 chr9:14312309-14312389 1.0000 80 chr16:7645333-7645413 1.0000 80 chr6:100050661-100050741 1.0000 80 chr2:176940935-176941015 1.0000 80 chr2:55118020-55118100 1.0000 80 chr5:36248621-36248701 1.0000 80 chr17:58881931-58882011 1.0000 80 chr5:60625288-60625368 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/K562/inference_raw/MEME/RankLinear0.6_40_CBX8/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/K562/fasta/RankLinear0.6_40/CBX8.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 0.315 C 0.2 G 0.188 T 0.297 Background letter frequencies (from file dataset with add-one prior applied): A 0.315 C 0.2 G 0.188 T 0.297 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF TTYGTTTT MEME-1 width = 8 sites = 48 llr = 384 E-value = 2.3e-008 ******************************************************************************** -------------------------------------------------------------------------------- Motif TTYGTTTT MEME-1 Description -------------------------------------------------------------------------------- Simplified A 1::::::: pos.-specific C ::51::12 probability G :::9::1: matrix T 9a5:aa88 bits 2.4 2.2 1.9 1.7 * *** Relative 1.4 ** *** Entropy 1.2 ** *** * (11.5 bits) 1.0 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TTCGTTTT consensus T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTYGTTTT MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2:46093219-46093299 41 2.58e-05 tgcccagcag ttcgtttt ctttataaat chr12:23129738-23129818 25 2.58e-05 GATCTCTGTT TTCGTTTT CATTTCTTTT chr2:200694504-200694584 10 2.58e-05 TATAACTCA TTCGTTTT GTTATATTTC chr15:44496595-44496675 65 2.58e-05 ttacacAGCT TTCGTTTT CAGGAATT chr12:44267471-44267551 43 2.58e-05 ttttaatttt ttcgtttt attttatttt chr9:133033836-133033916 47 2.58e-05 tgtttttgtt ttcgtttt tcccacattc chr6:149616435-149616515 47 2.58e-05 tttttggttt ttcgtttt gttttgtttt chr2:120112595-120112675 45 2.58e-05 aaaaccataa ttcgtttt ctctgctcaa chr1:8363062-8363142 29 2.58e-05 TGTGCTTTTT TTCGTTTT GCTGTTTCAC chr13:111748467-11174854 41 2.58e-05 AACCCTTCGT TTCGTTTT ACTGCCTTCA chr7:138665618-138665698 16 2.58e-05 CGCTCGCTTG TTCGTTTT AATTATTTAT chr6:151043153-151043233 34 2.58e-05 aacaaaatta ttcgtttt actcagtaaa chr1:145116121-145116201 29 2.58e-05 AGATTGTTAT TTCGTTTT TTCCCTCCCA chr8:67454581-67454661 60 2.58e-05 TTTTATTTAT TTCGTTTT TAAATAATTT chr1:200845449-200845529 70 2.58e-05 ttgttttgtt ttcgtttt ttg chr2:176940935-176941015 60 6.41e-05 TCTCAATGCT TTTGTTTT TAAGGGTTAC chr5:122083681-122083761 39 6.41e-05 CAATATTTCG TTTGTTTT CTTCACTGAA chr21:30488441-30488521 29 6.41e-05 GTTCATGAGT TTTGTTTT TATTCGTTAT chr7:107344131-107344211 43 6.41e-05 GAGGTCTTGA TTTGTTTT CCTCCATAAT chr6:155366963-155367043 45 6.41e-05 tttttgtttg tttgtttt AGCCATAGCC chr16:54187643-54187723 34 6.41e-05 GGGAGCACAG TTTGTTTT TTAAGAGATG chr6:108478176-108478256 26 6.41e-05 GATTTATTTG TTTGTTTT CTAATCACCG chr17:46227353-46227433 16 6.41e-05 ATTTCCTAAA TTTGTTTT GAATCCAATT chr7:77076272-77076352 67 8.15e-05 TTTCATGCTA TTCGTTTC AGGGGA chr2:27402394-27402474 42 1.07e-04 CACCTTCAGA TTTGTTTC TGTTGCCCTA chr8:61590469-61590549 59 1.07e-04 ATCCTATTTC TTTGTTTC ATAATCATTG chr5:124070766-124070846 68 1.07e-04 AGAGCATTAA TTTGTTTC TAGAT chr6:100040000-100040080 59 1.07e-04 tgtcctcagg tttgtttc ctcacaattg chr17:58881931-58882011 31 1.51e-04 TATAGTGTAA TTCGTTGT GTTGTTTTGC chr17:29894155-29894235 70 1.51e-04 TGGGGTAGAT TTCGTTGT AAT chr15:74428317-74428397 15 1.51e-04 TTTTCCTGTT TTCGTTGT TTTCAAAGAC chr16:4007069-4007149 43 1.68e-04 ATCTGGGTTC TTCGTTCT TTCCTTGAAA chr13:111768636-11176871 25 1.68e-04 AATTCTAGAT TTCGTTCT CAGGTCCCTC chr17:59108062-59108142 5 2.34e-04 tgtt tTTCTTTT GATTACATTG chr6:143269356-143269436 29 2.34e-04 CAATCATCAT TTTCTTTT CAATGTATGC chr8:101146957-101147037 68 2.34e-04 ATCAAATAAC TTTCTTTT ATAAT chr3:41235461-41235541 59 2.34e-04 GGGAAAAAAT TTTCTTTT GCATCAATAA chr1:212783481-212783561 51 2.34e-04 TCCTAAACAT TTTCTTTT CCCTAATTTC chr4:111537468-111537548 7 2.59e-04 GTGGTG TTTGTTCT CGCCCACTTT chr21:35094968-35095048 46 2.59e-04 AAAATATCGT TTTGTTCT ATTTGGTAAT chr4:25965466-25965546 34 2.87e-04 gttgaaaatt atcgtttt tcttataatt chr7:93635225-93635305 4 3.57e-04 ATT ATTGTTTT TAGCTAACGT chr6:76458085-76458165 49 3.57e-04 CAATTGTTAT TTCGTTGC CTTAAAAGAA chr6:143891200-143891280 23 3.57e-04 GGTCAATTTC ATTGTTTT TCTCCTTATT chr1:8088046-8088126 50 3.57e-04 GAAATCTGGC TTCCTTTC TGATGGCTCT chr7:120971580-120971660 5 3.57e-04 AATC TTCCTTTC TAAATATGTA chr1:180197073-180197153 16 3.57e-04 ccactaggaa attgtttt ctaatttccc chr1:44651209-44651289 37 3.93e-04 ggcatgagac ttggtttt taaaagttat -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTYGTTTT MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2:46093219-46093299 2.6e-05 40_[+1]_32 chr12:23129738-23129818 2.6e-05 24_[+1]_48 chr2:200694504-200694584 2.6e-05 9_[+1]_63 chr15:44496595-44496675 2.6e-05 64_[+1]_8 chr12:44267471-44267551 2.6e-05 42_[+1]_30 chr9:133033836-133033916 2.6e-05 46_[+1]_26 chr6:149616435-149616515 2.6e-05 46_[+1]_26 chr2:120112595-120112675 2.6e-05 44_[+1]_28 chr1:8363062-8363142 2.6e-05 28_[+1]_44 chr13:111748467-11174854 2.6e-05 40_[+1]_32 chr7:138665618-138665698 2.6e-05 15_[+1]_57 chr6:151043153-151043233 2.6e-05 33_[+1]_39 chr1:145116121-145116201 2.6e-05 28_[+1]_44 chr8:67454581-67454661 2.6e-05 59_[+1]_13 chr1:200845449-200845529 2.6e-05 69_[+1]_3 chr2:176940935-176941015 6.4e-05 59_[+1]_13 chr5:122083681-122083761 6.4e-05 38_[+1]_34 chr21:30488441-30488521 6.4e-05 28_[+1]_44 chr7:107344131-107344211 6.4e-05 42_[+1]_30 chr6:155366963-155367043 6.4e-05 44_[+1]_28 chr16:54187643-54187723 6.4e-05 33_[+1]_39 chr6:108478176-108478256 6.4e-05 25_[+1]_47 chr17:46227353-46227433 6.4e-05 15_[+1]_57 chr7:77076272-77076352 8.2e-05 66_[+1]_6 chr2:27402394-27402474 0.00011 41_[+1]_31 chr8:61590469-61590549 0.00011 58_[+1]_14 chr5:124070766-124070846 0.00011 67_[+1]_5 chr6:100040000-100040080 0.00011 58_[+1]_14 chr17:58881931-58882011 0.00015 30_[+1]_42 chr17:29894155-29894235 0.00015 69_[+1]_3 chr15:74428317-74428397 0.00015 14_[+1]_58 chr16:4007069-4007149 0.00017 42_[+1]_30 chr13:111768636-11176871 0.00017 24_[+1]_48 chr17:59108062-59108142 0.00023 4_[+1]_68 chr6:143269356-143269436 0.00023 28_[+1]_44 chr8:101146957-101147037 0.00023 67_[+1]_5 chr3:41235461-41235541 0.00023 58_[+1]_14 chr1:212783481-212783561 0.00023 50_[+1]_22 chr4:111537468-111537548 0.00026 6_[+1]_66 chr21:35094968-35095048 0.00026 45_[+1]_27 chr4:25965466-25965546 0.00029 33_[+1]_39 chr7:93635225-93635305 0.00036 3_[+1]_69 chr6:76458085-76458165 0.00036 48_[+1]_24 chr6:143891200-143891280 0.00036 22_[+1]_50 chr1:8088046-8088126 0.00036 49_[+1]_23 chr7:120971580-120971660 0.00036 4_[+1]_68 chr1:180197073-180197153 0.00036 15_[+1]_57 chr1:44651209-44651289 0.00039 36_[+1]_36 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTYGTTTT MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TTYGTTTT width=8 seqs=48 chr2:46093219-46093299 ( 41) TTCGTTTT 1 chr12:23129738-23129818 ( 25) TTCGTTTT 1 chr2:200694504-200694584 ( 10) TTCGTTTT 1 chr15:44496595-44496675 ( 65) TTCGTTTT 1 chr12:44267471-44267551 ( 43) TTCGTTTT 1 chr9:133033836-133033916 ( 47) TTCGTTTT 1 chr6:149616435-149616515 ( 47) TTCGTTTT 1 chr2:120112595-120112675 ( 45) TTCGTTTT 1 chr1:8363062-8363142 ( 29) TTCGTTTT 1 chr13:111748467-11174854 ( 41) TTCGTTTT 1 chr7:138665618-138665698 ( 16) TTCGTTTT 1 chr6:151043153-151043233 ( 34) TTCGTTTT 1 chr1:145116121-145116201 ( 29) TTCGTTTT 1 chr8:67454581-67454661 ( 60) TTCGTTTT 1 chr1:200845449-200845529 ( 70) TTCGTTTT 1 chr2:176940935-176941015 ( 60) TTTGTTTT 1 chr5:122083681-122083761 ( 39) TTTGTTTT 1 chr21:30488441-30488521 ( 29) TTTGTTTT 1 chr7:107344131-107344211 ( 43) TTTGTTTT 1 chr6:155366963-155367043 ( 45) TTTGTTTT 1 chr16:54187643-54187723 ( 34) TTTGTTTT 1 chr6:108478176-108478256 ( 26) TTTGTTTT 1 chr17:46227353-46227433 ( 16) TTTGTTTT 1 chr7:77076272-77076352 ( 67) TTCGTTTC 1 chr2:27402394-27402474 ( 42) TTTGTTTC 1 chr8:61590469-61590549 ( 59) TTTGTTTC 1 chr5:124070766-124070846 ( 68) TTTGTTTC 1 chr6:100040000-100040080 ( 59) TTTGTTTC 1 chr17:58881931-58882011 ( 31) TTCGTTGT 1 chr17:29894155-29894235 ( 70) TTCGTTGT 1 chr15:74428317-74428397 ( 15) TTCGTTGT 1 chr16:4007069-4007149 ( 43) TTCGTTCT 1 chr13:111768636-11176871 ( 25) TTCGTTCT 1 chr17:59108062-59108142 ( 5) TTTCTTTT 1 chr6:143269356-143269436 ( 29) TTTCTTTT 1 chr8:101146957-101147037 ( 68) TTTCTTTT 1 chr3:41235461-41235541 ( 59) TTTCTTTT 1 chr1:212783481-212783561 ( 51) TTTCTTTT 1 chr4:111537468-111537548 ( 7) TTTGTTCT 1 chr21:35094968-35095048 ( 46) TTTGTTCT 1 chr4:25965466-25965546 ( 34) ATCGTTTT 1 chr7:93635225-93635305 ( 4) ATTGTTTT 1 chr6:76458085-76458165 ( 49) TTCGTTGC 1 chr6:143891200-143891280 ( 23) ATTGTTTT 1 chr1:8088046-8088126 ( 50) TTCCTTTC 1 chr7:120971580-120971660 ( 5) TTCCTTTC 1 chr1:180197073-180197153 ( 16) ATTGTTTT 1 chr1:44651209-44651289 ( 37) TTGGTTTT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTYGTTTT MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.66841 E= 2.3e-008 -192 -1223 -1223 162 -1223 -1223 -1223 175 -1223 138 -317 62 -1223 -46 219 -1223 -1223 -1223 -1223 175 -1223 -1223 -1223 175 -1223 -126 -117 149 -1223 -26 -1223 149 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTYGTTTT MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 48 E= 2.3e-008 0.083333 0.000000 0.000000 0.916667 0.000000 0.000000 0.000000 1.000000 0.000000 0.520833 0.020833 0.458333 0.000000 0.145833 0.854167 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.083333 0.083333 0.833333 0.000000 0.166667 0.000000 0.833333 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTYGTTTT MEME-1 regular expression -------------------------------------------------------------------------------- TT[CT]GTTTT -------------------------------------------------------------------------------- Time 5.16 secs. ******************************************************************************** ******************************************************************************** MOTIF AAAAMGAA MEME-2 width = 8 sites = 57 llr = 430 E-value = 1.5e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif AAAAMGAA MEME-2 Description -------------------------------------------------------------------------------- Simplified A 98aa42a9 pos.-specific C 11::6::1 probability G 11:::8:: matrix T :::::::: bits 2.4 2.2 1.9 1.7 * ** Relative 1.4 ** ** Entropy 1.2 ****** (10.9 bits) 1.0 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel AAAACGAA consensus A sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAMGAA MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr1:116106637-116106717 56 3.67e-05 gaaacaaatg aaaacgaa aatacaacat chr6:151569153-151569233 13 3.67e-05 GTTTGATTTC AAAACGAA ATAAACCAAA chr13:27987942-27988022 1 3.67e-05 . aaaacgaa aaaaATGGAA chr2:175693785-175693865 37 3.67e-05 AATAAAGGGC AAAACGAA CTAGTTTCAA chr17:26795531-26795611 54 3.67e-05 taaaaaaaaa aaaacgaa acatagagct chr21:43204999-43205079 33 3.67e-05 aaagaaaaga aaaacgaA ATTCCCACAG chr11:134145815-13414589 40 3.67e-05 CAATCTCCGT AAAACGAA CACCTGGCTT chr6:30923021-30923101 60 3.67e-05 ATTCAAAAAC AAAACGAA ATAAAAACAT chr10:4229216-4229296 5 3.67e-05 GAGG AAAACGAA TGCAGAGACA chr5:78405494-78405574 3 3.67e-05 AA AAAACGAA AATTCCCTAC chr5:145435154-145435234 25 3.67e-05 TTGCCACTGT AAAACGAA ATAAACACAT chr4:140808093-140808173 46 3.67e-05 GTCATTCATT AAAACGAA ATGTTGATCA chr9:132458350-132458430 6 3.67e-05 GAAAG AAAACGAA AAAAAAAAGA chrX:13833945-13834025 8 3.67e-05 TATAAAT AAAACGAA GTTTTGTCCC chr6:41305624-41305704 28 3.67e-05 ttctgacaaa aaaacgaa attcaaaaca chr12:49583786-49583866 56 9.46e-05 ACACCAAATT AAAAAGAA GAAGAGAATA chr1:200905716-200905796 13 9.46e-05 aaaattaaac aaaaagaa aaaaaagaaG chr7:105332083-105332163 32 9.46e-05 Taaaaaaaaa aaaaagaa aaaaaaaaag chr8:28353983-28354063 50 9.46e-05 GCGCAAAAAT AAAAAGAA TGATTTTAAA chr6:99285033-99285113 16 9.46e-05 GGAGGGAAGA AAAAAGAA AAATCGATAG chr17:35294331-35294411 66 9.46e-05 CCACAACGAA AAAAAGAA GGGGAAA chr7:111843394-111843474 57 9.46e-05 ATCAGTTACG AAAAAGAA TTTCCATCTC chr15:51129746-51129826 2 9.46e-05 a aaaaagaa aatcacttga chr8:101224471-101224551 14 9.46e-05 ACCATTCATG AAAAAGAA TGGAAAATAT chr10:4760893-4760973 35 1.38e-04 ATTTAAAAAT GAAACGAA TTTAAAAGTT chr6:16837607-16837687 25 1.38e-04 AATTGGGGGA AGAACGAA ATAAATCAAC chr1:229520655-229520735 11 1.38e-04 TTTTCCTATA AGAACGAA AGAAAATTTG chr4:90063550-90063630 9 1.62e-04 TCTATTCC AAAACGAC TTAGCTGGAA chr6:56704699-56704779 26 1.62e-04 GTAAGTAACC AAAACGAC CATTCCATGC chr6:163807531-163807611 36 1.62e-04 TTCCCCTTAA AAAACGAC TTTTTCTTGC chr16:4055787-4055867 3 2.47e-04 AC ACAACGAA TTATATATTT chr12:27425086-27425166 26 2.47e-04 TATAAATAAT ACAACGAA TTAAGGTCAA chr6:161897770-161897850 63 2.47e-04 TTCCGTCATT ACAACGAA ATGAGACTGT chr2:175829106-175829186 34 2.47e-04 AGAACTATTA AAAACAAA AAAGTGTAAG chr10:711001-711081 36 2.47e-04 aaaacaaaac aaaacaaa acaaaaACAG chr5:77264027-77264107 9 2.47e-04 aacaaaac aaaacaaa aaCAGCAAAT chr20:30642855-30642935 2 2.47e-04 t acaacgaa caatattgac chr12:72200549-72200629 25 2.47e-04 TTTAAGTTCC AAAACAAA AGCATTAAAC chr1:8088046-8088126 15 2.47e-04 TCTCACTTGC AAAACAAA CGAACGTTTT chr9:135294245-135294325 11 2.47e-04 TCTAAGATTT AAAACAAA ATTGATTGAG chr7:27945702-27945782 40 2.70e-04 ATATGCTAAG CAAACGAA AGAAGGCAAA chr5:135249859-135249939 13 2.70e-04 ACAGCCCTTG CAAACGAA TATTACTAAT chr2:183733394-183733474 21 2.70e-04 AAAAATTGTA CAAACGAA TTTAAAATGA chr16:4007069-4007149 73 3.39e-04 GAGGAGGAAG GAAAAGAA chr3:129700268-129700348 29 3.39e-04 ttaaggcaga agaaagaa gatcagcaaa chr22:20740122-20740202 60 3.39e-04 ctatactaca gaaaagaa gaaatataaa chr3:5292316-5292396 56 3.39e-04 TTAAATGAAA GAAAAGAA AATCAGAAAT chr6:38466680-38466760 58 3.39e-04 GTCATTTAAA AGAAAGAA GCCATAGTAA chr6:7379203-7379283 63 3.39e-04 CATAAGAAAG AGAAAGAA GGAAATAAAA chr6:151627563-151627643 50 3.61e-04 TCTCTTGTGA AAAGCGAA AGGCTGCATG chr2:200694504-200694584 56 3.98e-04 AGAACTTAGA AAAAAGAC CTCAAGTCTG chr8:67454581-67454661 7 3.98e-04 AAAGTC AAAAAGAC GTTTGTCCGA chr8:61545559-61545639 20 5.31e-04 TTGCTGAAGA AAAAAAAA ATGAAGAAAG chr10:81665517-81665597 56 5.31e-04 CGATATTCTA AAAAAAAA ACTCACTAAT chr7:20836636-20836716 3 5.31e-04 GT AAAAAAAA CTATTCTTTT chr15:99164428-99164508 69 6.96e-04 GAAATTGAGA GAAACAAA ATAT chr6:7687944-7688024 64 7.31e-04 aatgactaaa aaagagaa aagatgatc -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAMGAA MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:116106637-116106717 3.7e-05 55_[+2]_17 chr6:151569153-151569233 3.7e-05 12_[+2]_60 chr13:27987942-27988022 3.7e-05 [+2]_72 chr2:175693785-175693865 3.7e-05 36_[+2]_36 chr17:26795531-26795611 3.7e-05 53_[+2]_19 chr21:43204999-43205079 3.7e-05 32_[+2]_40 chr11:134145815-13414589 3.7e-05 39_[+2]_33 chr6:30923021-30923101 3.7e-05 59_[+2]_13 chr10:4229216-4229296 3.7e-05 4_[+2]_68 chr5:78405494-78405574 3.7e-05 2_[+2]_70 chr5:145435154-145435234 3.7e-05 24_[+2]_48 chr4:140808093-140808173 3.7e-05 45_[+2]_27 chr9:132458350-132458430 3.7e-05 5_[+2]_67 chrX:13833945-13834025 3.7e-05 7_[+2]_65 chr6:41305624-41305704 3.7e-05 27_[+2]_45 chr12:49583786-49583866 9.5e-05 55_[+2]_17 chr1:200905716-200905796 9.5e-05 12_[+2]_60 chr7:105332083-105332163 9.5e-05 31_[+2]_41 chr8:28353983-28354063 9.5e-05 49_[+2]_23 chr6:99285033-99285113 9.5e-05 15_[+2]_57 chr17:35294331-35294411 9.5e-05 65_[+2]_7 chr7:111843394-111843474 9.5e-05 56_[+2]_16 chr15:51129746-51129826 9.5e-05 1_[+2]_71 chr8:101224471-101224551 9.5e-05 13_[+2]_59 chr10:4760893-4760973 0.00014 34_[+2]_38 chr6:16837607-16837687 0.00014 24_[+2]_48 chr1:229520655-229520735 0.00014 10_[+2]_62 chr4:90063550-90063630 0.00016 8_[+2]_64 chr6:56704699-56704779 0.00016 25_[+2]_47 chr6:163807531-163807611 0.00016 35_[+2]_37 chr16:4055787-4055867 0.00025 2_[+2]_70 chr12:27425086-27425166 0.00025 25_[+2]_47 chr6:161897770-161897850 0.00025 62_[+2]_10 chr2:175829106-175829186 0.00025 33_[+2]_39 chr10:711001-711081 0.00025 35_[+2]_37 chr5:77264027-77264107 0.00025 8_[+2]_64 chr20:30642855-30642935 0.00025 1_[+2]_71 chr12:72200549-72200629 0.00025 24_[+2]_48 chr1:8088046-8088126 0.00025 14_[+2]_58 chr9:135294245-135294325 0.00025 10_[+2]_62 chr7:27945702-27945782 0.00027 39_[+2]_33 chr5:135249859-135249939 0.00027 12_[+2]_60 chr2:183733394-183733474 0.00027 20_[+2]_52 chr16:4007069-4007149 0.00034 72_[+2] chr3:129700268-129700348 0.00034 28_[+2]_44 chr22:20740122-20740202 0.00034 59_[+2]_13 chr3:5292316-5292396 0.00034 55_[+2]_17 chr6:38466680-38466760 0.00034 57_[+2]_15 chr6:7379203-7379283 0.00034 62_[+2]_10 chr6:151627563-151627643 0.00036 49_[+2]_23 chr2:200694504-200694584 0.0004 55_[+2]_17 chr8:67454581-67454661 0.0004 6_[+2]_66 chr8:61545559-61545639 0.00053 19_[+2]_53 chr10:81665517-81665597 0.00053 55_[+2]_17 chr7:20836636-20836716 0.00053 2_[+2]_70 chr15:99164428-99164508 0.0007 68_[+2]_4 chr6:7687944-7688024 0.00073 63_[+2]_9 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAMGAA MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF AAAAMGAA width=8 seqs=57 chr1:116106637-116106717 ( 56) AAAACGAA 1 chr6:151569153-151569233 ( 13) AAAACGAA 1 chr13:27987942-27988022 ( 1) AAAACGAA 1 chr2:175693785-175693865 ( 37) AAAACGAA 1 chr17:26795531-26795611 ( 54) AAAACGAA 1 chr21:43204999-43205079 ( 33) AAAACGAA 1 chr11:134145815-13414589 ( 40) AAAACGAA 1 chr6:30923021-30923101 ( 60) AAAACGAA 1 chr10:4229216-4229296 ( 5) AAAACGAA 1 chr5:78405494-78405574 ( 3) AAAACGAA 1 chr5:145435154-145435234 ( 25) AAAACGAA 1 chr4:140808093-140808173 ( 46) AAAACGAA 1 chr9:132458350-132458430 ( 6) AAAACGAA 1 chrX:13833945-13834025 ( 8) AAAACGAA 1 chr6:41305624-41305704 ( 28) AAAACGAA 1 chr12:49583786-49583866 ( 56) AAAAAGAA 1 chr1:200905716-200905796 ( 13) AAAAAGAA 1 chr7:105332083-105332163 ( 32) AAAAAGAA 1 chr8:28353983-28354063 ( 50) AAAAAGAA 1 chr6:99285033-99285113 ( 16) AAAAAGAA 1 chr17:35294331-35294411 ( 66) AAAAAGAA 1 chr7:111843394-111843474 ( 57) AAAAAGAA 1 chr15:51129746-51129826 ( 2) AAAAAGAA 1 chr8:101224471-101224551 ( 14) AAAAAGAA 1 chr10:4760893-4760973 ( 35) GAAACGAA 1 chr6:16837607-16837687 ( 25) AGAACGAA 1 chr1:229520655-229520735 ( 11) AGAACGAA 1 chr4:90063550-90063630 ( 9) AAAACGAC 1 chr6:56704699-56704779 ( 26) AAAACGAC 1 chr6:163807531-163807611 ( 36) AAAACGAC 1 chr16:4055787-4055867 ( 3) ACAACGAA 1 chr12:27425086-27425166 ( 26) ACAACGAA 1 chr6:161897770-161897850 ( 63) ACAACGAA 1 chr2:175829106-175829186 ( 34) AAAACAAA 1 chr10:711001-711081 ( 36) AAAACAAA 1 chr5:77264027-77264107 ( 9) AAAACAAA 1 chr20:30642855-30642935 ( 2) ACAACGAA 1 chr12:72200549-72200629 ( 25) AAAACAAA 1 chr1:8088046-8088126 ( 15) AAAACAAA 1 chr9:135294245-135294325 ( 11) AAAACAAA 1 chr7:27945702-27945782 ( 40) CAAACGAA 1 chr5:135249859-135249939 ( 13) CAAACGAA 1 chr2:183733394-183733474 ( 21) CAAACGAA 1 chr16:4007069-4007149 ( 73) GAAAAGAA 1 chr3:129700268-129700348 ( 29) AGAAAGAA 1 chr22:20740122-20740202 ( 60) GAAAAGAA 1 chr3:5292316-5292396 ( 56) GAAAAGAA 1 chr6:38466680-38466760 ( 58) AGAAAGAA 1 chr6:7379203-7379283 ( 63) AGAAAGAA 1 chr6:151627563-151627643 ( 50) AAAGCGAA 1 chr2:200694504-200694584 ( 56) AAAAAGAC 1 chr8:67454581-67454661 ( 7) AAAAAGAC 1 chr8:61545559-61545639 ( 20) AAAAAAAA 1 chr10:81665517-81665597 ( 56) AAAAAAAA 1 chr7:20836636-20836716 ( 3) AAAAAAAA 1 chr15:99164428-99164508 ( 69) GAAACAAA 1 chr6:7687944-7688024 ( 64) AAAGAGAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAMGAA MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 9.55676 E= 1.5e-004 145 -193 -110 -1248 142 -151 -110 -1248 167 -1248 -1248 -1248 162 -1248 -242 -1248 23 166 -1248 -1248 -84 -1248 213 -1248 167 -1248 -1248 -1248 153 -119 -1248 -1248 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAMGAA MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 57 E= 1.5e-004 0.859649 0.052632 0.087719 0.000000 0.842105 0.070175 0.087719 0.000000 1.000000 0.000000 0.000000 0.000000 0.964912 0.000000 0.035088 0.000000 0.368421 0.631579 0.000000 0.000000 0.175439 0.000000 0.824561 0.000000 1.000000 0.000000 0.000000 0.000000 0.912281 0.087719 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif AAAAMGAA MEME-2 regular expression -------------------------------------------------------------------------------- AAAA[CA]GAA -------------------------------------------------------------------------------- Time 9.01 secs. ******************************************************************************** ******************************************************************************** MOTIF GGGGAGGG MEME-3 width = 8 sites = 9 llr = 95 E-value = 2.5e+002 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGGGAGGG MEME-3 Description -------------------------------------------------------------------------------- Simplified A ::::a:11 pos.-specific C ::1::::: probability G 9a99:a89 matrix T 1::1::1: bits 2.4 * * 2.2 * * 1.9 **** * * 1.7 ****** * Relative 1.4 ****** * Entropy 1.2 ******** (15.2 bits) 1.0 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GGGGAGGG consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGAGGG MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3:5292316-5292396 24 2.61e-06 TGAGTGGCTT GGGGAGGG AAAAAAATGT chr15:96954991-96955071 59 2.61e-06 TTGAAGAGAT GGGGAGGG AGAAATTGTA chr17:29894155-29894235 12 2.61e-06 GAGCCGGAGC GGGGAGGG GGCTGCTGCC chr10:102998023-10299810 56 5.40e-06 GGGGCGAGGA GGCGAGGG CAGCCTTCCC chr9:102594623-102594703 2 9.53e-06 A GGGGAGTG GAACAAGTAG chr14:36977193-36977273 61 1.39e-05 GTTGATATCT GGGGAGAG AAGGAATCTC chr6:30923021-30923101 9 2.22e-05 CTCTGCCC TGGGAGGG ATGCAGAAAC chr9:132458350-132458430 30 2.22e-05 AAGAAAGGTG GGGTAGGG AGTCACAGAA chr4:113438103-113438183 45 2.65e-05 CATTTGGTTA GGGGAGGA GAATGGCGTG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGAGGG MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3:5292316-5292396 2.6e-06 23_[+3]_49 chr15:96954991-96955071 2.6e-06 58_[+3]_14 chr17:29894155-29894235 2.6e-06 11_[+3]_61 chr10:102998023-10299810 5.4e-06 55_[+3]_17 chr9:102594623-102594703 9.5e-06 1_[+3]_71 chr14:36977193-36977273 1.4e-05 60_[+3]_12 chr6:30923021-30923101 2.2e-05 8_[+3]_64 chr9:132458350-132458430 2.2e-05 29_[+3]_43 chr4:113438103-113438183 2.7e-05 44_[+3]_28 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGAGGG MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGGGAGGG width=8 seqs=9 chr3:5292316-5292396 ( 24) GGGGAGGG 1 chr15:96954991-96955071 ( 59) GGGGAGGG 1 chr17:29894155-29894235 ( 12) GGGGAGGG 1 chr10:102998023-10299810 ( 56) GGCGAGGG 1 chr9:102594623-102594703 ( 2) GGGGAGTG 1 chr14:36977193-36977273 ( 61) GGGGAGAG 1 chr6:30923021-30923101 ( 9) TGGGAGGG 1 chr9:132458350-132458430 ( 30) GGGTAGGG 1 chr4:113438103-113438183 ( 45) GGGGAGGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGAGGG MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 12.3898 E= 2.5e+002 -982 -982 224 -142 -982 -982 241 -982 -982 -85 224 -982 -982 -982 224 -142 167 -982 -982 -982 -982 -982 241 -982 -150 -982 205 -142 -150 -982 224 -982 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGAGGG MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 9 E= 2.5e+002 0.000000 0.000000 0.888889 0.111111 0.000000 0.000000 1.000000 0.000000 0.000000 0.111111 0.888889 0.000000 0.000000 0.000000 0.888889 0.111111 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.111111 0.000000 0.777778 0.111111 0.111111 0.000000 0.888889 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGGGAGGG MEME-3 regular expression -------------------------------------------------------------------------------- GGGGAGGG -------------------------------------------------------------------------------- Time 12.78 secs. ******************************************************************************** ******************************************************************************** MOTIF ACTGGCTG MEME-4 width = 8 sites = 5 llr = 59 E-value = 1.3e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif ACTGGCTG MEME-4 Description -------------------------------------------------------------------------------- Simplified A a::::::: pos.-specific C :a:::a:: probability G :::aa::a matrix T ::a:::a: bits 2.4 * *** * 2.2 * *** * 1.9 * *** * 1.7 ******** Relative 1.4 ******** Entropy 1.2 ******** (17.1 bits) 1.0 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel ACTGGCTG consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACTGGCTG MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr9:14312309-14312389 42 7.39e-06 CACGCCCAAG ACTGGCTG ACACTTCTTT chr1:225934426-225934506 30 7.39e-06 CCCCACAGGG ACTGGCTG AAAGGCAGCC chr3:24715315-24715395 66 7.39e-06 TAATGGAGAG ACTGGCTG gaaaaac chr1:145116121-145116201 65 7.39e-06 TAAAAACAGC ACTGGCTG GGGCATTC chr6:7379203-7379283 5 7.39e-06 GTCA ACTGGCTG AATTAGTGCA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACTGGCTG MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr9:14312309-14312389 7.4e-06 41_[+4]_31 chr1:225934426-225934506 7.4e-06 29_[+4]_43 chr3:24715315-24715395 7.4e-06 65_[+4]_7 chr1:145116121-145116201 7.4e-06 64_[+4]_8 chr6:7379203-7379283 7.4e-06 4_[+4]_68 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACTGGCTG MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF ACTGGCTG width=8 seqs=5 chr9:14312309-14312389 ( 42) ACTGGCTG 1 chr1:225934426-225934506 ( 30) ACTGGCTG 1 chr3:24715315-24715395 ( 66) ACTGGCTG 1 chr1:145116121-145116201 ( 65) ACTGGCTG 1 chr6:7379203-7379283 ( 5) ACTGGCTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACTGGCTG MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 11.2675 E= 1.3e+003 167 -897 -897 -897 -897 232 -897 -897 -897 -897 -897 175 -897 -897 241 -897 -897 -897 241 -897 -897 232 -897 -897 -897 -897 -897 175 -897 -897 241 -897 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACTGGCTG MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 5 E= 1.3e+003 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ACTGGCTG MEME-4 regular expression -------------------------------------------------------------------------------- ACTGGCTG -------------------------------------------------------------------------------- Time 16.45 secs. ******************************************************************************** ******************************************************************************** MOTIF CGGGGCTG MEME-5 width = 8 sites = 3 llr = 38 E-value = 2.6e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif CGGGGCTG MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C a::::a:: probability G :aaaa::a matrix T ::::::a: bits 2.4 ****** * 2.2 ****** * 1.9 ****** * 1.7 ******** Relative 1.4 ******** Entropy 1.2 ******** (18.5 bits) 1.0 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CGGGGCTG consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGGGCTG MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr16:4055787-4055867 27 2.79e-06 ATTTTTGGCT CGGGGCTG TCTTTCACGA chr4:99579129-99579209 71 2.79e-06 CAAGCGCCTG CGGGGCTG CG chr11:31863142-31863222 15 2.79e-06 AGCAGCCAAG CGGGGCTG GCAGCAGAAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGGGCTG MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr16:4055787-4055867 2.8e-06 26_[+5]_46 chr4:99579129-99579209 2.8e-06 70_[+5]_2 chr11:31863142-31863222 2.8e-06 14_[+5]_58 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGGGCTG MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CGGGGCTG width=8 seqs=3 chr16:4055787-4055867 ( 27) CGGGGCTG 1 chr4:99579129-99579209 ( 71) CGGGGCTG 1 chr11:31863142-31863222 ( 15) CGGGGCTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGGGCTG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18250 bayes= 12.2293 E= 2.6e+003 -823 232 -823 -823 -823 -823 241 -823 -823 -823 241 -823 -823 -823 241 -823 -823 -823 241 -823 -823 232 -823 -823 -823 -823 -823 175 -823 -823 241 -823 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGGGCTG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 3 E= 2.6e+003 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CGGGGCTG MEME-5 regular expression -------------------------------------------------------------------------------- CGGGGCTG -------------------------------------------------------------------------------- Time 20.09 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr1:180197073-180197153 3.36e-01 80 chr1:229520655-229520735 1.36e-01 80 chr1:212783481-212783561 5.60e-01 80 chr3:71773176-71773256 7.91e-01 80 chr9:126781724-126781804 6.13e-01 80 chr15:74428317-74428397 5.93e-03 42_[+5(9.20e-05)]_30 chr1:200845449-200845529 1.38e-01 58_[+1(6.41e-05)]_3_[+1(2.58e-05)]_\ 3 chr17:46227353-46227433 1.12e-01 15_[+1(6.41e-05)]_57 chr6:7379203-7379283 2.02e-03 4_[+4(7.39e-06)]_68 chr10:4000999-4001079 4.45e-01 80 chr8:67454581-67454661 1.94e-03 59_[+1(2.58e-05)]_13 chr6:126071948-126072028 2.60e-01 80 chr7:120971580-120971660 5.79e-01 80 chr6:41305624-41305704 1.40e-01 27_[+2(3.67e-05)]_45 chr17:42904712-42904792 4.52e-01 80 chr8:61566909-61566989 3.36e-01 80 chr10:72204528-72204608 6.00e-01 80 chr6:32383665-32383745 2.15e-01 80 chrX:13833945-13834025 2.43e-03 7_[+2(3.67e-05)]_65 chr1:75601551-75601631 4.73e-01 80 chr2:175196948-175197028 1.71e-01 80 chr3:72010700-72010780 2.49e-01 80 chr15:83950993-83951073 9.39e-01 80 chr11:13340688-13340768 9.03e-01 80 chr9:132458350-132458430 1.03e-03 5_[+2(3.67e-05)]_3_[+2(9.46e-05)]_5_\ [+3(2.22e-05)]_43 chr3:11759957-11760037 7.16e-01 80 chr4:140808093-140808173 7.84e-02 45_[+2(3.67e-05)]_27 chr1:180208474-180208554 3.43e-01 80 chr7:107931452-107931532 3.32e-01 80 chr8:101224471-101224551 3.62e-01 13_[+2(9.46e-05)]_59 chr6:151627563-151627643 8.80e-02 80 chr6:108478176-108478256 2.24e-01 25_[+1(6.41e-05)]_47 chr22:22594103-22594183 5.86e-02 80 chr6:144723650-144723730 4.45e-01 80 chr9:135294245-135294325 3.84e-02 80 chr1:8088046-8088126 1.46e-02 80 chr13:73630726-73630806 7.23e-01 80 chr12:72200549-72200629 1.08e-01 80 chr18:3747287-3747367 7.84e-01 80 chr11:69454808-69454888 4.94e-01 80 chr3:184869472-184869552 9.29e-01 80 chr1:145116121-145116201 4.73e-05 28_[+1(2.58e-05)]_28_[+4(7.39e-06)]_\ 8 chr17:29894155-29894235 9.89e-06 11_[+3(2.61e-06)]_61 chr10:102998023-10299810 1.56e-02 32_[+3(8.29e-05)]_7_[+3(4.91e-05)]_\ [+3(5.40e-06)]_17 chr1:212780722-212780802 4.98e-02 80 chr11:31863142-31863222 1.30e-03 14_[+5(2.79e-06)]_58 chr21:35094968-35095048 2.98e-01 80 chr1:200845734-200845814 5.72e-01 80 chr20:30642855-30642935 4.81e-02 80 chr1:197888821-197888901 1.49e-02 80 chr4:99579129-99579209 2.44e-03 70_[+5(2.79e-06)]_2 chr5:145435154-145435234 2.02e-01 24_[+2(3.67e-05)]_48 chr5:77264027-77264107 3.98e-01 80 chr4:9822135-9822215 6.83e-01 80 chr15:57968806-57968886 7.14e-01 80 chr5:78405494-78405574 2.83e-02 2_[+2(3.67e-05)]_70 chr4:113438103-113438183 1.45e-02 44_[+3(2.65e-05)]_28 chr20:57377303-57377383 1.54e-01 80 chr4:3265539-3265619 9.16e-02 80 chr6:151043153-151043233 6.35e-02 33_[+1(2.58e-05)]_39 chr2:183733394-183733474 5.96e-01 80 chr7:138665618-138665698 7.82e-02 15_[+1(2.58e-05)]_57 chr13:111748467-11174854 9.92e-02 40_[+1(2.58e-05)]_32 chr6:136855656-136855736 3.27e-01 80 chr10:4229216-4229296 3.88e-03 4_[+2(3.67e-05)]_11_[+5(9.20e-05)]_\ 49 chr6:7556662-7556742 2.66e-02 80 chr7:107347849-107347929 3.46e-01 80 chr3:41235461-41235541 1.75e-01 80 chr15:51129746-51129826 9.45e-02 1_[+2(9.46e-05)]_71 chr6:163807531-163807611 7.43e-02 80 chr6:30923021-30923101 5.33e-04 8_[+3(2.22e-05)]_43_[+2(3.67e-05)]_\ 13 chrX:119131249-119131329 3.34e-01 80 chr7:111843394-111843474 2.22e-02 56_[+2(9.46e-05)]_16 chr1:8363062-8363142 1.01e-01 28_[+1(2.58e-05)]_44 chr2:120112595-120112675 7.90e-02 44_[+1(2.58e-05)]_28 chr1:53871549-53871629 3.20e-01 80 chr9:138551257-138551337 7.44e-01 80 chr2:177979541-177979621 9.84e-01 80 chr4:187216240-187216320 4.57e-01 80 chr10:76717422-76717502 7.28e-01 80 chr1:115236127-115236207 3.19e-01 80 chr5:55882164-55882244 4.18e-01 80 chr12:10964649-10964729 4.93e-01 80 chr17:35294331-35294411 4.28e-02 65_[+2(9.46e-05)]_7 chr16:50020830-50020910 4.63e-01 80 chr5:135249859-135249939 2.67e-01 80 chr10:404081-404161 5.14e-01 80 chr6:143891200-143891280 6.35e-01 80 chr6:149616435-149616515 1.86e-01 46_[+1(2.58e-05)]_2_[+1(6.41e-05)]_\ 16 chr6:167173834-167173914 8.58e-01 80 chr1:200709822-200709902 9.38e-01 80 chr11:14403642-14403722 7.59e-01 80 chr7:27945702-27945782 3.60e-01 80 chr6:99285033-99285113 6.68e-03 15_[+2(9.46e-05)]_57 chr6:38466680-38466760 6.46e-01 80 chr6:16837607-16837687 1.46e-02 80 chr6:159084762-159084842 4.70e-02 80 chr2:55116362-55116442 4.03e-01 80 chr6:5997635-5997715 7.91e-02 80 chr15:51698161-51698241 7.31e-01 80 chr7:20836636-20836716 1.48e-01 80 chr8:101146957-101147037 4.68e-02 80 chr5:75565245-75565325 4.54e-02 80 chr3:43322632-43322712 9.07e-02 80 chr9:133033836-133033916 9.27e-02 28_[+1(6.41e-05)]_10_[+1(2.58e-05)]_\ 26 chr6:708001-708081 4.16e-01 80 chr12:54443001-54443081 1.35e-01 80 chr1:244012056-244012136 3.31e-01 80 chr5:159740287-159740367 1.47e-01 80 chr11:134145815-13414589 1.02e-02 39_[+2(3.67e-05)]_33 chr2:175870823-175870903 9.62e-01 80 chr10:711001-711081 3.07e-01 80 chr2:175829106-175829186 1.69e-01 80 chr6:100040000-100040080 2.16e-01 80 chr8:142140032-142140112 6.64e-01 80 chr5:54527914-54527994 1.06e-01 80 chr6:109274142-109274222 9.80e-01 80 chr6:7552288-7552368 7.70e-01 80 chr17:77929323-77929403 7.76e-01 80 chr12:64575977-64576057 5.53e-01 80 chr21:43956074-43956154 5.83e-01 80 chr16:54187643-54187723 8.82e-03 33_[+1(6.41e-05)]_39 chr17:36008748-36008828 4.16e-02 80 chr4:111537468-111537548 4.94e-03 80 chr21:43204999-43205079 1.57e-01 20_[+2(9.46e-05)]_4_[+2(3.67e-05)]_\ 40 chr18:60828503-60828583 1.24e-01 80 chr6:143248812-143248892 6.77e-01 80 chr5:124070766-124070846 1.16e-01 80 chr10:50606745-50606825 8.73e-01 80 chr1:8077554-8077634 9.68e-01 80 chr2:45887732-45887812 7.82e-01 80 chr3:24715315-24715395 4.70e-03 65_[+4(7.39e-06)]_7 chr6:143267864-143267944 1.19e-01 80 chr5:36606460-36606540 5.69e-01 80 chr1:236915388-236915468 1.35e-01 80 chr15:96954991-96955071 5.43e-03 58_[+3(2.61e-06)]_14 chr8:28353983-28354063 2.43e-01 49_[+2(9.46e-05)]_23 chr11:64290458-64290538 5.17e-01 80 chr17:26795531-26795611 3.15e-02 53_[+2(3.67e-05)]_19 chr7:1260057-1260137 6.29e-01 80 chr6:143269356-143269436 4.34e-01 80 chr3:5292316-5292396 2.45e-04 23_[+3(2.61e-06)]_49 chr5:72746243-72746323 3.08e-01 80 chr6:38946050-38946130 3.67e-01 80 chr7:105332083-105332163 1.70e-01 31_[+2(9.46e-05)]_41 chr12:44267471-44267551 2.17e-01 42_[+1(2.58e-05)]_30 chr15:44496595-44496675 3.94e-02 64_[+1(2.58e-05)]_8 chr14:65084079-65084159 3.87e-01 80 chr6:56704699-56704779 3.21e-01 80 chr8:41965253-41965333 9.90e-01 80 chr1:154734083-154734163 4.04e-01 80 chr6:105708478-105708558 3.81e-01 80 chr13:100529051-10052913 8.35e-01 80 chr8:81489518-81489598 1.99e-01 80 chr1:117678114-117678194 4.50e-01 80 chr6:2129799-2129879 2.31e-01 80 chr20:60531046-60531126 8.06e-01 80 chr6:155366963-155367043 1.53e-01 44_[+1(6.41e-05)]_28 chr22:20740122-20740202 6.31e-01 80 chr1:154734477-154734557 6.18e-01 80 chr10:4760893-4760973 4.53e-01 80 chr13:28062761-28062841 3.45e-01 80 chr7:107344131-107344211 2.54e-01 42_[+1(6.41e-05)]_30 chr15:40026553-40026633 4.70e-01 80 chr17:59108062-59108142 2.70e-01 80 chr18:76757076-76757156 2.47e-01 80 chr2:230884415-230884495 6.14e-01 80 chr21:30488441-30488521 1.57e-02 28_[+1(6.41e-05)]_44 chr13:113753661-11375374 1.06e-01 80 chr8:61590469-61590549 3.72e-01 80 chr6:161897770-161897850 7.13e-02 80 chr1:115154757-115154837 9.23e-01 80 chr5:72742399-72742479 4.45e-01 80 chr17:60428677-60428757 6.77e-01 80 chr14:36977193-36977273 1.50e-02 60_[+3(1.39e-05)]_12 chr4:90063550-90063630 5.17e-02 80 chr5:36860078-36860158 9.96e-01 80 chr3:129700268-129700348 8.79e-02 80 chr6:159084407-159084487 2.06e-01 80 chr7:134385605-134385685 7.62e-01 80 chr15:99164428-99164508 5.53e-01 80 chr8:95657682-95657762 4.17e-01 80 chr4:25965466-25965546 1.94e-01 80 chr1:44651209-44651289 3.32e-01 80 chr4:153873269-153873349 8.61e-01 80 chr1:45637411-45637491 9.92e-01 80 chr1:245465592-245465672 3.09e-02 39_[+3(8.29e-05)]_33 chr6:151574344-151574424 7.89e-01 80 chr13:111768636-11176871 2.34e-01 80 chr12:27425086-27425166 8.01e-02 80 chr5:122485605-122485685 9.95e-01 80 chr11:12012357-12012437 9.63e-01 80 chr17:38019606-38019686 8.65e-01 80 chr18:59993771-59993851 2.17e-01 80 chr6:76458085-76458165 2.44e-01 80 chr5:56082340-56082420 9.63e-01 80 chr8:125383361-125383441 4.58e-01 80 chr2:175693785-175693865 1.70e-01 36_[+2(3.67e-05)]_36 chr6:41295148-41295228 1.29e-01 80 chr12:31483450-31483530 2.84e-01 80 chr13:27987942-27988022 1.39e-01 [+2(3.67e-05)]_72 chr12:114145113-11414519 9.89e-01 80 chr1:200905716-200905796 3.33e-02 12_[+2(9.46e-05)]_1_[+2(9.46e-05)]_\ 51 chr1:213670734-213670814 9.94e-01 80 chr12:49583786-49583866 2.21e-01 55_[+2(9.46e-05)]_17 chr1:25258223-25258303 2.26e-01 80 chr6:106961122-106961202 9.85e-01 80 chr7:77076272-77076352 1.73e-01 66_[+1(8.15e-05)]_6 chr7:26081710-26081790 1.79e-01 80 chr7:36398327-36398407 1.74e-01 80 chr6:6811104-6811184 7.57e-02 80 chr8:28286384-28286464 9.84e-01 80 chr16:4007069-4007149 5.73e-03 80 chr17:77970133-77970213 1.63e-01 80 chr13:73632318-73632398 4.21e-01 80 chr6:151569153-151569233 1.81e-03 12_[+2(3.67e-05)]_60 chr6:7687944-7688024 7.46e-01 80 chr9:102594623-102594703 1.14e-02 1_[+3(9.53e-06)]_71 chr5:122083681-122083761 2.53e-01 38_[+1(6.41e-05)]_34 chr2:27402394-27402474 1.32e-01 80 chr7:93635225-93635305 3.87e-02 80 chr8:119100181-119100261 4.43e-01 80 chr2:200694504-200694584 2.09e-02 9_[+1(2.58e-05)]_63 chr12:23129738-23129818 1.16e-01 24_[+1(2.58e-05)]_48 chr6:155367241-155367321 1.92e-01 80 chr5:149468414-149468494 9.89e-01 80 chr11:1919146-1919226 4.06e-01 80 chr1:225934426-225934506 1.50e-03 29_[+4(7.39e-06)]_43 chr16:4055787-4055867 1.82e-05 26_[+5(2.79e-06)]_46 chr6:53336554-53336634 5.11e-01 80 chr2:28842281-28842361 1.20e-02 80 chr7:27242013-27242093 1.84e-01 80 chr6:100894174-100894254 6.80e-01 80 chr7:155072732-155072812 6.89e-01 80 chr1:236082378-236082458 5.64e-01 80 chr2:183668985-183669065 1.74e-01 80 chr10:81665517-81665597 3.88e-01 80 chr1:116106637-116106717 1.69e-01 55_[+2(3.67e-05)]_17 chr8:61545559-61545639 4.02e-01 80 chr2:27400844-27400924 9.96e-01 80 chr2:46093219-46093299 4.24e-02 40_[+1(2.58e-05)]_32 chr6:134212194-134212274 5.04e-01 80 chr9:14312309-14312389 5.47e-02 41_[+4(7.39e-06)]_31 chr16:7645333-7645413 3.15e-01 80 chr6:100050661-100050741 6.87e-01 80 chr2:176940935-176941015 5.57e-02 59_[+1(6.41e-05)]_13 chr2:55118020-55118100 9.40e-01 80 chr5:36248621-36248701 5.92e-01 80 chr17:58881931-58882011 1.57e-01 80 chr5:60625288-60625368 3.19e-01 80 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c22n09.farnam.hpc.yale.internal ********************************************************************************