**************************************************************************************************************************************************************************************************** MOTIFSIM - Motif Similarity Detection Tool Version 2.1 **************************************************************************************************************************************************************************************************** INPUT **************************************************************************************************************************************************************************************************** Input Parameters Number of files: 4 Number of top significant motifs: 10 Number of best matches: 10 Similarity cutoff: >= 0.75 Matching motif database: UniProbe Mus Musculus Phylogenetic tree: Yes Combined similar motifs: Yes Output file type: All Output file format: All Input files and motif counts File name Count of motifs Dataset # DREME_DM721.txt 16 1 MEME-ChIP_DM721.txt 11 2 PScanChIP_DM721.txt 37 3 RSAT_peak-motifs_DM721.txt 40 4 **************************************************************************************************************************************************************************************************** RESULTS **************************************************************************************************************************************************************************************************** ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 30 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ZEB1 RORA_1 Original Motif Reverse Complement CACCTD TGACCTDVWT TSACCTDVWT Direction: Backward Position #: 4 Overlap #: 6 Alignment: -CACCTD--- TGACCTDVWT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif REST Original Motif Original Motif TSACCTDVWT TTCAGCACCATGGACAGCKCC TTCAKSACCWDGRWCAGCKCC Direction: Forward Position #: 5 Overlap #: 10 Alignment: ----TSACCTDVWT------- TTCAGCACCATGGACAGCKCC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ccCCmCACCcc Original Motif Original Motif TTCAKSACCWDGRWCAGCKCC HBCCMCACCHH BBCMBCACCHHGRWCAGCKCC Direction: Forward Position #: 1 Overlap #: 11 Alignment: TTCAKSACCWDGRWCAGCKCC HBCCMCACCHH---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif rrAGGGGGArr Original Motif Reverse Complement BBCMBCACCHHGRWCAGCKCC VVTCCCCCTVV HHYCCCMCYHHGRWCAGCKCC Direction: Forward Position #: 1 Overlap #: 11 Alignment: BBCMBCACCHHGRWCAGCKCC VVTCCCCCTVV---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Esrrb Combined Motif Original Motif Reverse Complement HHYCCCMCYHHGRWCAGCKCC CACGTG HHYCCCACKTVGRWCAGCKCC Direction: Forward Position #: 6 Overlap #: 6 Alignment: HHYCCCMCYHHGRWCAGCKCC -----CACGTG---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Arnt Combined Motif Original Motif Reverse Complement HHYCCCACKTVGRWCAGCKCC CACGTG HHYCCCACGTGGRWCAGCKCC Direction: Forward Position #: 6 Overlap #: 6 Alignment: HHYCCCACKTVGRWCAGCKCC -----CACGTG---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 73 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssCGsCTCss ssCGsCwsCss Reverse Complement Reverse Complement BBGAGSCGVV BBGSWGSCGBB BBGGAGSCGVB Direction: Forward Position #: 2 Overlap #: 10 Alignment: -BBGAGSCGVV BBGSWGSCGBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif sssCGssGCsss Original Motif Original Motif BBGGAGSCGVB SSSCGSSGCSSS SSSCGSSGCSGSAGSCGVB Direction: Forward Position #: 9 Overlap #: 4 Alignment: --------BBGGAGSCGVB SSSCGSSGCSSS------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssCGCksCGss Combined Motif Original Motif Original Motif SSSCGSSGCSGSAGSCGVB VVCGCKSCGBB SSSCGSCGCBSCRGSCGVB Direction: Forward Position #: 5 Overlap #: 11 Alignment: SSSCGSSGCSGSAGSCGVB ----VVCGCKSCGBB---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssCGGsYCGss Combined Motif Original Motif Reverse Complement SSSCGSCGCBSCRGSCGVB VSCGGSCCGSB SSSCSSCGSSCCGSSCGVB Direction: Forward Position #: 5 Overlap #: 11 Alignment: SSSCGSCGCBSCRGSCGVB ----VSCGGSCCGSB---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssCGCCsCCrCCCss Combined Motif Original Motif Original Motif SSSCSSCGSSCCGSSCGVB SSCGCCSCCGCCCSS SSSCGSCGCCSCSSSCGVB Direction: Forward Position #: 2 Overlap #: 15 Alignment: SSSCSSCGSSCCGSSCGVB -SSCGCCSCCGCCCSS--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssCGssCGss Combined Motif Original Motif Reverse Complement SSSCGSCGCCSCSSSCGVB VSCGSSCGSB SSSCSSCGSSCSSSSCGVB Direction: Forward Position #: 5 Overlap #: 10 Alignment: SSSCGSCGCCSCSSSCGVB ----VSCGSSCGSB----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssCGrGCGss Combined Motif Original Motif Reverse Complement SSSCSSCGSSCSSSSCGVB VBCGCMCGSV SSSCVSCGCCCGSSSCGVB Direction: Forward Position #: 5 Overlap #: 10 Alignment: SSSCSSCGSSCSSSSCGVB ----VBCGCMCGSV----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssGMsGRGCGss Combined Motif Reverse Complement Original Motif BVCGSSSCGGGCGSVGSSS VVGCSGGGCGBB BVCGVGCSGGGCGBVGSSS Direction: Forward Position #: 4 Overlap #: 12 Alignment: BVCGSSSCGGGCGSVGSSS ---VVGCSGGGCGBB---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssCKCwsCGss Combined Motif Original Motif Reverse Complement BVCGVGCSGGGCGBVGSSS VBCGSWGCGVB BVCGVGCGGDGCGVBGSSS Direction: Forward Position #: 5 Overlap #: 11 Alignment: BVCGVGCSGGGCGBVGSSS ----VBCGSWGCGVB---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssCrCYyYCGss Combined Motif Original Motif Reverse Complement BVCGVGCGGDGCGVBGSSS BBCGGKGGMGBB BVCVVCSGGGGCGBBGSSS Direction: Forward Position #: 4 Overlap #: 12 Alignment: BVCGVGCGGDGCGVBGSSS ---BBCGGKGGMGBB---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 68 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- dwCTTTTCwy wyATTTTAww Reverse Complement Reverse Complement DHGAAAAGHD DDTAAAATHD DHKAAAAKHD Direction: Backward Position #: 1 Overlap #: 10 Alignment: DHGAAAAGHD DDTAAAATHD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAAwAAww Original Motif Original Motif DHKAAAAKHD DDTAAWAAHH DHTAAAADHD Direction: Forward Position #: 1 Overlap #: 10 Alignment: DHKAAAAKHD DDTAAWAAHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwWAAAAAwa Original Motif Original Motif DHTAAAADHD WWAAAAAAWH DWWAAAAAHH Direction: Forward Position #: 1 Overlap #: 10 Alignment: DHTAAAADHD WWAAAAAAWH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAAAwAww Reverse Complement Reverse Complement HHTTTTTWWD HHTWTTTADD HHTTTTTADD Direction: Forward Position #: 1 Overlap #: 10 Alignment: HHTTTTTWWD HHTWTTTADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wtATTTTTAww Reverse Complement Reverse Complement DDTAAAAAHH DDTAAAAATHD DDTAAAAATHD Direction: Forward Position #: 1 Overlap #: 10 Alignment: DDTAAAAAHH- DDTAAAAATHD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 18 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 18 Motif 2 Reverse Complement Reverse Complement TGTRT TGTGTGTG TGTRTGTG Direction: Backward Position #: 4 Overlap #: 5 Alignment: TGTRT--- TGTGTGTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACACACACACA Reverse Complement Original Motif CACAMACA CACACACACACA CACACACACACA Direction: Forward Position #: 1 Overlap #: 8 Alignment: CACAMACA---- CACACACACACA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 27 Reverse Complement Reverse Complement TGTGTGTGTGTG TGTGTGTGTGTKTG TGTGTGTGTGTGTG Direction: Forward Position #: 1 Overlap #: 12 Alignment: TGTGTGTGTGTG-- TGTGTGTGTGTKTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACACACACACA Original Motif Reverse Complement TGTGTGTGTGTGTG TGTGTGTGTGTG TGTGTGTGTGTGTG Direction: Forward Position #: 1 Overlap #: 12 Alignment: TGTGTGTGTGTGTG TGTGTGTGTGTG-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 25 Original Motif Reverse Complement TGTGTGTGTGTGTG TGTGTGKVTGTGTG TGTGTGTGTGTGTG Direction: Forward Position #: 1 Overlap #: 14 Alignment: TGTGTGTGTGTGTG TGTGTGKVTGTGTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaACAAAACaa Original Motif Reverse Complement TGTGTGTGTGTGTG TTGTTTTGTTT TTKKTKTGTBTGTGTG Direction: Forward Position #: 3 Overlap #: 9 Alignment: --TGTGTGTGTGTGTG TTGTTTTGTTT----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- aaCAAAAACaa Combined Motif Original Motif Reverse Complement TTKKTKTGTBTGTGTG HTGTTTTTGHH TTKGTTTKTGTGTGTG Direction: Forward Position #: 2 Overlap #: 11 Alignment: TTKKTKTGTBTGTGTG -HTGTTTTTGHH---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ryayAyAyrtGTRTrTry Original Motif Reverse Complement TTKGTTTKTGTGTGTG HDAMACACAKKTKTKTHD HDAMACACAKKTKTKKTTTKTGTGTGTG Direction: Forward Position #: 13 Overlap #: 6 Alignment: ------------TTKGTTTKTGTGTGTG HDAMACACAKKTKTKTHD---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wrTGTATACAyw Combined Motif Original Motif Reverse Complement HDAMACACAKKTKTKKTTTKTGTGTGTG DHTGTATACADH HDAMACAHATGTDTDBWDTKTGTGTGTG Direction: Forward Position #: 8 Overlap #: 12 Alignment: HDAMACACAKKTKTKKTTTKTGTGTGTG -------DHTGTATACADH--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 5 Reverse Complement Original Motif CACACACARADWBDADACATDTGTRTDH AAAASAAA MAMACAMARADWBDADACATDTGTRTDH Direction: Forward Position #: 1 Overlap #: 8 Alignment: CACACACARADWBDADACATDTGTRTDH AAAASAAA-------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 71 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wyATTTTAww wtATTTTTAww Original Motif Original Motif DHATTTTADD DHATTTTTADD DHATTTTWADD Direction: Forward Position #: 1 Overlap #: 10 Alignment: DHATTTTADD- DHATTTTTADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAAwAAww Reverse Complement Original Motif DDTWAAAATHD DDTAAWAAHH DDTAAAAATHD Direction: Forward Position #: 1 Overlap #: 10 Alignment: DDTWAAAATHD DDTAAWAAHH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAAAwAww Original Motif Original Motif DDTAAAAATHD DDTAAAWAHH DDTAAAAATHD Direction: Forward Position #: 1 Overlap #: 10 Alignment: DDTAAAAATHD DDTAAAWAHH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwWAAAAAwa Original Motif Original Motif DDTAAAAATHD WWAAAAAAWH DWWAAAAAWHD Direction: Forward Position #: 1 Overlap #: 10 Alignment: DDTAAAAATHD WWAAAAAAWH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dwCTTTTCwy Reverse Complement Original Motif DHWTTTTTWWD DHCTTTTCHH DHCTTTTYWHD Direction: Forward Position #: 1 Overlap #: 10 Alignment: DHWTTTTTWWD DHCTTTTCHH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wtTTWwAAAaw Reverse Complement Original Motif DHWKAAAAGHD HHTTTWAAADD DHTTWAAAAHD Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHWKAAAAGHD HHTTTWAAADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif twTACATAvw Reverse Complement Reverse Complement DHTTTTWAAHD DBTATGTAHH DHTWTKTAHHD Direction: Forward Position #: 1 Overlap #: 10 Alignment: DHTTTTWAAHD DBTATGTAHH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaCAAAAACaa Original Motif Reverse Complement DHTWTKTAHHD HTGTTTTTGHH HHKTTTTWGHH Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHTWTKTAHHD HTGTTTTTGHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaACAAAACaa Reverse Complement Original Motif HHCWAAAAYHH AAACAAAACAA HHAMAAAACHH Direction: Forward Position #: 1 Overlap #: 11 Alignment: HHCWAAAAYHH AAACAAAACAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AAAAAAAAAAA Reverse Complement Reverse Complement HHGTTTTRTHH TTTTTTTTTTT TTKTTTTTTTT Direction: Forward Position #: 1 Overlap #: 11 Alignment: HHGTTTTRTHH TTTTTTTTTTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 76 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwWAAAAAwa wtATTTTTAww Reverse Complement Original Motif HWTTTTTTWW DHATTTTTADD DHATTTTTWWD Direction: Backward Position #: 1 Overlap #: 10 Alignment: -HWTTTTTTWW DHATTTTTADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAAwAAww Reverse Complement Original Motif DWWAAAAATHD DDTAAWAAHH DDTAAAAATHD Direction: Forward Position #: 1 Overlap #: 10 Alignment: DWWAAAAATHD DDTAAWAAHH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAAAwAww Original Motif Original Motif DDTAAAAATHD DDTAAAWAHH DDTAAAAAHHD Direction: Forward Position #: 1 Overlap #: 10 Alignment: DDTAAAAATHD DDTAAAWAHH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AAAAAAAAAAA Original Motif Original Motif DDTAAAAAHHD AAAAAAAAAAA AAWAAAAAAAA Direction: Forward Position #: 1 Overlap #: 11 Alignment: DDTAAAAAHHD AAAAAAAAAAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaCAAAAACaa Original Motif Original Motif AAWAAAAAAAA HHCAAAAACAH AAMAAAAAMAA Direction: Forward Position #: 1 Overlap #: 11 Alignment: AAWAAAAAAAA HHCAAAAACAH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wyATTTTAww Reverse Complement Original Motif TTRTTTTTRTT DHATTTTADD DHATTTTWDDT Direction: Forward Position #: 1 Overlap #: 10 Alignment: TTRTTTTTRTT DHATTTTADD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaACAAAACaa Original Motif Reverse Complement DHATTTTWDDT TTGTTTTGTTT HHRTTTTGTTT Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHATTTTWDDT TTGTTTTGTTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wtTTWwAAAaw Reverse Complement Original Motif AAACAAAAMHH HHTTTWAAADD HHWTWAAAAHD Direction: Forward Position #: 1 Overlap #: 11 Alignment: AAACAAAAMHH HHTTTWAAADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dwCTTTTCwy Reverse Complement Original Motif DHTTTTWAWHH DHCTTTTCHH DHYTTTTCWHH Direction: Forward Position #: 1 Overlap #: 10 Alignment: DHTTTTWAWHH DHCTTTTCHH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 26 Reverse Complement Reverse Complement HHWGAAAAKHD AAAAAAACAAARRA AAAAAAACAAADRAAAAKHD Direction: Forward Position #: 10 Overlap #: 5 Alignment: ---------HHWGAAAAKHD AAAAAAACAAARRA------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 83 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwTAAAwAww wwTAAwAAww Original Motif Original Motif DDTAAAWAHH DDTAAWAAHH DDTAAAAAHH Direction: Backward Position #: 1 Overlap #: 10 Alignment: DDTAAAWAHH DDTAAWAAHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wtATTTTTAww Original Motif Reverse Complement DDTAAAAAHH DDTAAAAATHD DDTAAAAATHD Direction: Forward Position #: 1 Overlap #: 10 Alignment: DDTAAAAAHH- DDTAAAAATHD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwWAAAAAwa Original Motif Original Motif DDTAAAAATHD WWAAAAAAWH DWWAAAAATHD Direction: Forward Position #: 1 Overlap #: 10 Alignment: DDTAAAAATHD WWAAAAAAWH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif twTACATAvw Original Motif Original Motif DWWAAAAATHD HHTACATAVD DHTAMAWAHHD Direction: Forward Position #: 1 Overlap #: 10 Alignment: DWWAAAAATHD HHTACATAVD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wyATTTTAww Original Motif Reverse Complement DHTAMAWAHHD DDTAAAATHD DHTAAAAWHDD Direction: Forward Position #: 1 Overlap #: 10 Alignment: DHTAMAWAHHD DDTAAAATHD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaCAAAAACaa Original Motif Original Motif DHTAAAAWHDD HHCAAAAACAH HHYAAAAACHH Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHTAAAAWHDD HHCAAAAACAH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wtTTWwAAAaw Original Motif Original Motif HHYAAAAACHH HHTTTWAAADD HHTWWAAAMHD Direction: Forward Position #: 1 Overlap #: 11 Alignment: HHYAAAAACHH HHTTTWAAADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAATTAATTAww Original Motif Original Motif HHTWWAAAMHD HDTAATTAATTAHD HDTAATTAATTAWWAAMHD Direction: Forward Position #: 9 Overlap #: 6 Alignment: --------HHTWWAAAMHD HDTAATTAATTAHD----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dwCTTTTCwy Reverse Complement Original Motif DHYTTWWTAATTAATTADH DHCTTTTCHH DHCTTTTYAHTTAATTADH Direction: Forward Position #: 1 Overlap #: 10 Alignment: DHYTTWWTAATTAATTADH DHCTTTTCHH--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- AAAAAAAAAAA Combined Motif Original Motif Reverse Complement DHCTTTTYAHTTAATTADH TTTTTTTTTTT DHCTTTTTTTTTWWTTADH Direction: Forward Position #: 4 Overlap #: 11 Alignment: DHCTTTTYAHTTAATTADH ---TTTTTTTTTTT----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 81 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwTAAwAAww wwTAAAwAww Reverse Complement Reverse Complement HHTTWTTADD HHTWTTTADD HHTTTTTADD Direction: Forward Position #: 1 Overlap #: 10 Alignment: HHTTWTTADD HHTWTTTADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wtATTTTTAww Reverse Complement Reverse Complement DDTAAAAAHH DDTAAAAATHD DDTAAAAATHD Direction: Forward Position #: 1 Overlap #: 10 Alignment: DDTAAAAAHH- DDTAAAAATHD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwWAAAAAwa Original Motif Original Motif DDTAAAAATHD WWAAAAAAWH DWWAAAAATHD Direction: Forward Position #: 1 Overlap #: 10 Alignment: DDTAAAAATHD WWAAAAAAWH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wyATTTTAww Original Motif Reverse Complement DWWAAAAATHD DDTAAAATHD DDTAAAAWHHD Direction: Forward Position #: 1 Overlap #: 10 Alignment: DWWAAAAATHD DDTAAAATHD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wtTTWwAAAaw Reverse Complement Reverse Complement DHHWTTTTADD DDTTTWAAAHH DDTTTTWWAHD Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHHWTTTTADD DDTTTWAAAHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaCAAAAACaa Reverse Complement Original Motif DHTWWAAAADD HHCAAAAACAH HHYAAAAAMHH Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHTWWAAAADD HHCAAAAACAH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dwCTTTTCwy Original Motif Reverse Complement HHYAAAAAMHH DHGAAAAGHD DHBAAAARHDH Direction: Forward Position #: 1 Overlap #: 10 Alignment: HHYAAAAAMHH DHGAAAAGHD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif twTACATAvw Original Motif Original Motif DHBAAAARHDH HHTACATAVD DHTAMAWAHDH Direction: Forward Position #: 1 Overlap #: 10 Alignment: DHBAAAARHDH HHTACATAVD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAATTAATTAww Original Motif Reverse Complement DHTAMAWAHDH DHTAATTAATTADH DHTAAWTAATTADH Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHTAMAWAHDH--- DHTAATTAATTADH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- AAAAAAAAAAA Combined Motif Original Motif Original Motif DHTAAWTAATTADH AAAAAAAAAAA DAWAAAWAAAWADH Direction: Forward Position #: 2 Overlap #: 11 Alignment: DHTAAWTAATTADH -AAAAAAAAAAA-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 90 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssCGsCwsCss ssCrCYyYCGss Reverse Complement Reverse Complement BBGSWGSCGBB BBCGGKGGMGBB BBCGSDGGCGBB Direction: Forward Position #: 2 Overlap #: 11 Alignment: -BBGSWGSCGBB BBCGGKGGMGBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ccCCmCACCcc Reverse Complement Original Motif BBCGCCDSCGBB HBCCMCACCHH VBCSCCACCBBB Direction: Forward Position #: 1 Overlap #: 11 Alignment: BBCGCCDSCGBB HBCCMCACCHH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- sssCGssGCsss Combined Motif Reverse Complement Original Motif BBBGGTGGSGBV SSSCGSSGCSSS BBSSGBGGCGBB Direction: Forward Position #: 1 Overlap #: 12 Alignment: BBBGGTGGSGBV SSSCGSSGCSSS ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ssCGCCsCCrCCCss Reverse Complement Original Motif BBCGCCVCSSBB SSCGCCSCCGCCCSS SSCGCCSCCGCCCSCCVCSSBB Direction: Forward Position #: 11 Overlap #: 5 Alignment: ----------BBCGCCVCSSBB SSCGCCSCCGCCCSS------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 86 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- aaCAAAAACaa aaACAAAACaa Reverse Complement Reverse Complement HTGTTTTTGHH TTGTTTTGTTT TTGTTTTKKTT Direction: Backward Position #: 1 Overlap #: 11 Alignment: HTGTTTTTGHH TTGTTTTGTTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wtATTTTTAww Original Motif Original Motif TTGTTTTKKTT DHATTTTTADD HHRTTTTTRDH Direction: Forward Position #: 1 Overlap #: 11 Alignment: TTGTTTTKKTT DHATTTTTADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif AAAAAAAAAAA Reverse Complement Original Motif HDKAAAAAKHH AAAAAAAAAAA AAAAAAAADAA Direction: Forward Position #: 1 Overlap #: 11 Alignment: HDKAAAAAKHH AAAAAAAAAAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yayAyAyACATrya Reverse Complement Reverse Complement TTDTTTTTTTT DHKATGTKTKTGTD THKWTKTTTKTGTD Direction: Forward Position #: 1 Overlap #: 11 Alignment: TTDTTTTTTTT--- DHKATGTKTKTGTD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACACACACACA Original Motif Reverse Complement THKWTKTTTKTGTD TGTGTGTGTGTG TBTKTGTKTGTGTD Direction: Forward Position #: 1 Overlap #: 12 Alignment: THKWTKTTTKTGTD TGTGTGTGTGTG-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif tyTCTkTkTCyy Original Motif Original Motif TBTKTGTKTGTGTD BBTCTKTKTCHB TBTCTKTKTSTBTD Direction: Forward Position #: 1 Overlap #: 12 Alignment: TBTKTGTKTGTGTD BBTCTKTKTCHB-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif CACACACACACA Original Motif Reverse Complement TBTCTKTKTSTBTD TGTGTGTGTGTG TGTSTGTGTGTGTD Direction: Forward Position #: 1 Overlap #: 12 Alignment: TBTCTKTKTSTBTD TGTGTGTGTGTG-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 27 Reverse Complement Original Motif HACACACACASACA CAYACACACACACA CACACACACACACA Direction: Forward Position #: 1 Overlap #: 14 Alignment: HACACACACASACA CAYACACACACACA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif RREB1 Original Motif Original Motif CACACACACACACA CCCCMAAMCAMCCMCMMMCV CCCCMAAMCAMCCMCMCMCACACACACACA Direction: Forward Position #: 17 Overlap #: 4 Alignment: ----------------CACACACACACACA CCCCMAAMCAMCCMCMMMCV---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 26 Reverse Complement Original Motif TGTGTGTGTGTGYGRGRGGRTGRTTYGGGG TKKTTTGTTTTTTT TTKTKTGTKTKTKTGRGRGGRTGRTTYGGGG Direction: Forward Position #: 2 Overlap #: 13 Alignment: -TGTGTGTGTGTGYGRGRGGRTGRTTYGGGG TKKTTTGTTTTTTT----------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Results created by MOTIFSIM on 11-20-2016 23:29:46 Runtime: 1002.53 seconds MOTIFSIM is written by Ngoc Tam L. Tran