**************************************************************************************************************************************************************************************************** MOTIFSIM - Motif Similarity Detection Tool Version 2.1 **************************************************************************************************************************************************************************************************** INPUT **************************************************************************************************************************************************************************************************** Input Parameters Number of files: 2 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 # MEME-ChIP_DM721.txt 11 1 PScanChIP_DM721.txt 37 2 **************************************************************************************************************************************************************************************************** RESULTS **************************************************************************************************************************************************************************************************** ************************************************************ Combined Motifs for Top Global Significant Motif ID 4 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 4 NR1H2RXRA Reverse Complement Original Motif KCAGAG AAAGGTCAAAGGTCAAC AAAGGTCARAGGTCAAC Direction: Forward Position #: 6 Overlap #: 6 Alignment: -----KCAGAG------ AAAGGTCAAAGGTCAAC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif PPARGRXRA Original Motif Original Motif AAAGGTCARAGGTCAAC BTRGGDCARAGGKCA VDRGGKCARAGGTCAAC Direction: Forward Position #: 1 Overlap #: 15 Alignment: AAAGGTCARAGGTCAAC BTRGGDCARAGGKCA-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR2F1 Combined Motif Original Motif Reverse Complement VDRGGKCARAGGTCAAC AKGYYCAAAGRTCA VVRGBKCAAAGGTCAAC Direction: Forward Position #: 2 Overlap #: 14 Alignment: VDRGGKCARAGGTCAAC -AKGYYCAAAGRTCA-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- HNF4A Combined Motif Original Motif Original Motif VVRGBKCAAAGGTCAAC RGGBCAAAGKYCA VVGGBYMAARGBYMAAC Direction: Forward Position #: 2 Overlap #: 13 Alignment: VVRGBKCAAAGGTCAAC -RGGBCAAAGKYCA--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- MIZF Combined Motif Original Motif Reverse Complement VVGGBYMAARGBYMAAC GCGGACGTTV VVGGBYMAARGGCSRACGTTV Direction: Forward Position #: 12 Overlap #: 6 Alignment: VVGGBYMAARGBYMAAC---- -----------GCGGACGTTV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- INSM1 Combined Motif Original Motif Original Motif VVGGBYMAARGGCSRACGTTV TGYCAGGGGGCR VVKGBCARRGGGCRRACGTTV Direction: Forward Position #: 3 Overlap #: 12 Alignment: VVGGBYMAARGGCSRACGTTV --TGYCAGGGGGCR------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SP1 Combined Motif Reverse Complement Original Motif BAACGTMMGCCCMMTGVCRBB CCCCKCCCCC BAACSYCCKCCCCCTGVCRBB Direction: Forward Position #: 5 Overlap #: 10 Alignment: BAACGTMMGCCCMMTGVCRBB ----CCCCKCCCCC------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif REST Original Motif Original Motif BAACSYCCKCCCCCTGVCRBB TTCAGCACCATGGACAGCKCC TTCAGCACCATGGHMASCBCCKCCCCCTGVCRBB Direction: Forward Position #: 14 Overlap #: 8 Alignment: -------------BAACSYCCKCCCCCTGVCRBB TTCAGCACCATGGACAGCKCC------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Zfx Combined Motif Reverse Complement Original Motif VVKGBCAGGGGGYGGVGSTRHCCATGGTGCTGAA BBVGCCBVGGCCTV VVDGBCHRGGSSTGGVGSTRHCCATGGTGCTGAA Direction: Forward Position #: 1 Overlap #: 14 Alignment: VVKGBCAGGGGGYGGVGSTRHCCATGGTGCTGAA BBVGCCBVGGCCTV-------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ESR1 Combined Motif Reverse Complement Original Motif TTCAGCACCATGGHMASCBCCASSCCMHGBCHVV VDBHMAGGTCACCCTGACCY TTCAGVACCHHGGDCASCBYSACCYCMHGBCHVV Direction: Forward Position #: 6 Overlap #: 20 Alignment: TTCAGCACCATGGHMASCBCCASSCCMHGBCHVV -----VDBHMAGGTCACCCTGACCY--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 5 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 5 RREB1 Reverse Complement Reverse Complement RARAT BGRRRGRGGRTGRTTYGGGG GRTTYGGGGRRGATBGRRRG Direction: Backward Position #: 10 Overlap #: 5 Alignment: ------RARAT--------- BGRRRGRGGRTGRTTYGGGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR4A2 Combined Motif Original Motif Original Motif GRTTYGGGGRRGATBGRRRG AAGGTCAC RRGRAGRTCRVGRTTYGGGG Direction: Backward Position #: 4 Overlap #: 8 Alignment: GRTTYGGGGRRGATBGRRRG ---------AAGGTCAC--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR2F1 Combined Motif Reverse Complement Original Motif CCCCMAAMCVKGAMCTKCMM TGAMCTTTGMMCYT CCCYRAMCYBTGAMCTKCMM Direction: Forward Position #: 4 Overlap #: 14 Alignment: CCCCMAAMCVKGAMCTKCMM ---TGAMCTTTGMMCYT--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR1H2RXRA Combined Motif Original Motif Reverse Complement CCCYRAMCYBTGAMCTKCMM GTTGACCTTTGACCTTT CSYTGACCTTTGACCTTYMM Direction: Forward Position #: 2 Overlap #: 17 Alignment: CCCYRAMCYBTGAMCTKCMM -GTTGACCTTTGACCTTT-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- MIZF Combined Motif Original Motif Reverse Complement CSYTGACCTTTGACCTTYMM GCGGACGTTV CSCKGACSTTHGACCTTYMM Direction: Forward Position #: 2 Overlap #: 10 Alignment: CSYTGACCTTTGACCTTYMM -GCGGACGTTV--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PPARGRXRA Combined Motif Reverse Complement Original Motif RRKAAGGTCHAASGTCYGSG BTRGGDCARAGGKCA RRBDRGGTCAAAGGTCHGSG Direction: Forward Position #: 3 Overlap #: 15 Alignment: RRKAAGGTCHAASGTCYGSG --BTRGGDCARAGGKCA--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif REST Original Motif Reverse Complement RRBDRGGTCAAAGGTCHGSG GGYGCTGTCCATGGTGCTGAA GGBDMKGTCMAWGGTSCKGRA Direction: Forward Position #: 1 Overlap #: 20 Alignment: RRBDRGGTCAAAGGTCHGSG- GGYGCTGTCCATGGTGCTGAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif RXRRAR_DR5 Original Motif Original Motif GGBDMKGTCMAWGGTSCKGRA RGKTCABVVRGAGGTCA RGBTCWBBSMVAGGTCMKGRA Direction: Forward Position #: 1 Overlap #: 17 Alignment: GGBDMKGTCMAWGGTSCKGRA RGKTCABVVRGAGGTCA---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- RORA_1 Combined Motif Reverse Complement Reverse Complement TKCRYGACCTBYSVBWGABCM TGACCTDVWT TKCRTGACCTDBDDBWGABCM Direction: Forward Position #: 5 Overlap #: 10 Alignment: TKCRYGACCTBYSVBWGABCM ----TGACCTDVWT------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF4A Reverse Complement Original Motif RGBTCWBDDBDAGGTCAKGRA RGGBCAAAGKYCA RGDBCARAGBHMRGTCAKGRA Direction: Forward Position #: 1 Overlap #: 13 Alignment: RGBTCWBDDBDAGGTCAKGRA RGGBCAAAGKYCA-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 6 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 6 REST Original Motif Original Motif CMGCRGC TTCAGCACCATGGACAGCKCC ATGGACAGCKCCCAGCASCTT Direction: Backward Position #: 13 Overlap #: 7 Alignment: --CMGCRGC------------ TTCAGCACCATGGACAGCKCC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif MIZF Original Motif Reverse Complement ATGGACAGCKCCCAGCASCTT GCGGACGTTV DYGGACRKHDCCCAGCASCTT Direction: Forward Position #: 1 Overlap #: 10 Alignment: ATGGACAGCKCCCAGCASCTT GCGGACGTTV----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Zfx Original Motif Reverse Complement DYGGACRKHDCCCAGCASCTT VAGGCCBBGGCVBB VMGGMCDKBVCCCVGCASCTT Direction: Forward Position #: 1 Overlap #: 14 Alignment: DYGGACRKHDCCCAGCASCTT VAGGCCBBGGCVBB------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFAP2A Combined Motif Original Motif Original Motif VMGGMCDKBVCCCVGCASCTT GCCBBVRGS VMGSCCBBDGSCCVGCASCTT Direction: Forward Position #: 3 Overlap #: 9 Alignment: VMGGMCDKBVCCCVGCASCTT --GCCBBVRGS---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Pax5 Reverse Complement Reverse Complement AAGSTGCBGGSCHBBGGSCYV MSGKKRCGCWDCABTGBBCD MVGBTRCBSDBCVBHGBBCHV Direction: Forward Position #: 1 Overlap #: 20 Alignment: AAGSTGCBGGSCHBBGGSCYV MSGKKRCGCWDCABTGBBCD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Egr1 Combined Motif Original Motif Original Motif MVGBTRCBSDBCVBHGBBCHV HGCGTGGGCGK MVGBTGCGBGGSMGKGBBCHV Direction: Forward Position #: 5 Overlap #: 11 Alignment: MVGBTRCBSDBCVBHGBBCHV ----HGCGTGGGCGK------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Klf4 Original Motif Original Motif MVGBTGCGBGGSMGKGBBCHV DGGGYGKGGC HGGGYGBGGBGSMGKGBBCHV Direction: Forward Position #: 1 Overlap #: 10 Alignment: MVGBTGCGBGGSMGKGBBCHV DGGGYGKGGC----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif SP1 Original Motif Reverse Complement HGGGYGBGGBGSMGKGBBCHV GGGGGYGGGG DGGGKBGGGGGSMGKGBBCHV Direction: Forward Position #: 1 Overlap #: 10 Alignment: HGGGYGBGGBGSMGKGBBCHV GGGGGYGGGG----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- RREB1 Combined Motif Reverse Complement Original Motif VHGBBCRCRSCCCCCBYCCCH CCCCMAAMCAMCCMCMMMCV VMSCCMAMVCMCCCCCHCCCV Direction: Forward Position #: 2 Overlap #: 20 Alignment: VHGBBCRCRSCCCCCBYCCCH -CCCCMAAMCAMCCMCMMMCV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- INSM1 Combined Motif Reverse Complement Original Motif VGGGDGGGGGYGVRTRGGSRV TGYCAGGGGGCR VGKGBVDGGGKGHRTRGGSRV Direction: Forward Position #: 3 Overlap #: 12 Alignment: VGGGDGGGGGYGVRTRGGSRV --TGYCAGGGGGCR------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 8 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 8 REST Reverse Complement Reverse Complement TCCCAG GGYGCTGTCCATGGTGCTGAA GTGCTGAATCCCHGGGYGCTG Direction: Backward Position #: 9 Overlap #: 6 Alignment: -------TCCCAG-------- GGYGCTGTCCATGGTGCTGAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- MZF1_1-4 Combined Motif Reverse Complement Reverse Complement CAGCKCCCHGGGATTCAGCAC TCCCCV CAGYCCCCHGGGATTCAGCAC Direction: Forward Position #: 4 Overlap #: 6 Alignment: CAGCKCCCHGGGATTCAGCAC ---TCCCCV------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- RREB1 Combined Motif Original Motif Original Motif CAGYCCCCHGGGATTCAGCAC CCCCMAAMCAMCCMCMMMCV CHGGGATTCAGCACCMVHCCCCAGYCCCCHGGGAT Direction: Backward Position #: 15 Overlap #: 7 Alignment: -------------CAGYCCCCHGGGATTCAGCAC --------------CCCCMAAMCAMCCMCMMMCV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif INSM1 Reverse Complement Reverse Complement ATCCCHGGGGMCTGGGGDVYGGTGCTGAATCCCHG MGCCCCCTGMCA MRYCCCCKGRCACTGGGGDVYGGTGCTGAATCCCHG Direction: Forward Position #: 2 Overlap #: 11 Alignment: -ATCCCHGGGGMCTGGGGDVYGGTGCTGAATCCCHG MGCCCCCTGMCA------------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Zfp423 Original Motif Reverse Complement MRYCCCCKGRCACTGGGGDVYGGTGCTGAATCCCHG GYRYCCMTKGGYRSC GHRYCCCYKGGYRCYGGGGDVYGGTGCTGAATCCCHG Direction: Forward Position #: 2 Overlap #: 14 Alignment: -MRYCCCCKGRCACTGGGGDVYGGTGCTGAATCCCHG GYRYCCMTKGGYRSC---------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR1H2RXRA Combined Motif Original Motif Original Motif GHRYCCCYKGGYRCYGGGGDVYGGTGCTGAATCCCHG AAAGGTCAAAGGTCAAC GHRYCCCYKGGYRCYGGGGDVYGGTGCTGAATCMMAGGTCAAAGGTCAAC Direction: Forward Position #: 34 Overlap #: 4 Alignment: GHRYCCCYKGGYRCYGGGGDVYGGTGCTGAATCCCHG------------- ---------------------------------AAAGGTCAAAGGTCAAC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Tcfcp2l1 Combined Motif Original Motif Original Motif GHRYCCCYKGGYRCYGGGGDVYGGTGCTGAATCMMAGGTCAAAGGTCAAC CCAGYYHVADCCRG GHRYCCCYKGSCRSYBVVRDCYRGTGCTGAATCMMAGGTCAAAGGTCAAC Direction: Forward Position #: 11 Overlap #: 14 Alignment: GHRYCCCYKGGYRCYGGGGDVYGGTGCTGAATCMMAGGTCAAAGGTCAAC ----------CCAGYYHVADCCRG-------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Egr1 Combined Motif Original Motif Reverse Complement GHRYCCCYKGSCRSYBVVRDCYRGTGCTGAATCMMAGGTCAAAGGTCAAC YCGCCCACGCH GYCBCCCACGCHRSYBVVRDCYRGTGCTGAATCMMAGGTCAAAGGTCAAC Direction: Forward Position #: 2 Overlap #: 11 Alignment: GHRYCCCYKGSCRSYBVVRDCYRGTGCTGAATCMMAGGTCAAAGGTCAAC -YCGCCCACGCH-------------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Ar Combined Motif Original Motif Original Motif GYCBCCCACGCHRSYBVVRDCYRGTGCTGAATCMMAGGTCAAAGGTCAAC HWDAGHACRHHVTGTHCCHVMV GYCBCCCACGVHARKDACRHCBDGTVCYGVMTCMMAGGTCAAAGGTCAAC Direction: Forward Position #: 11 Overlap #: 22 Alignment: GYCBCCCACGCHRSYBVVRDCYRGTGCTGAATCMMAGGTCAAAGGTCAAC ----------HWDAGHACRHHVTGTHCCHVMV------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Zfx Original Motif Reverse Complement GYCBCCCACGVHARKDACRHCBDGTVCYGVMTCMMAGGTCAAAGGTCAAC VAGGCCBBGGCVBB VAGGCCCHSGCVVVKDACRHCBDGTVCYGVMTCMMAGGTCAAAGGTCAAC Direction: Forward Position #: 1 Overlap #: 14 Alignment: GYCBCCCACGVHARKDACRHCBDGTVCYGVMTCMMAGGTCAAAGGTCAAC VAGGCCBBGGCVBB------------------------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 2 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 2 RREB1 Original Motif Original Motif AMACA CCCCMAAMCAMCCMCMMMCV MCCMCMMMCVAMACACCCCM Direction: Backward Position #: 11 Overlap #: 5 Alignment: -----AMACA---------- CCCCMAAMCAMCCMCMMMCV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Ar Original Motif Original Motif MCCMCMMMCVAMACACCCCM HWDAGHACRHHVTGTHCCHVMV HWDAGHACRHHVTGTHCCMVCHMMCVAMACACCCCM Direction: Forward Position #: 17 Overlap #: 6 Alignment: ----------------MCCMCMMMCVAMACACCCCM HWDAGHACRHHVTGTHCCHVMV-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif PPARGRXRA Reverse Complement Reverse Complement YGGGGTGTYTBGRRDGVRGGHACAVDDKGTHCTDWH TGRCCTKTGHCCKAB TGRSSTGTBTCSKRVGVRGGHACAVDDKGTHCTDWH Direction: Forward Position #: 1 Overlap #: 15 Alignment: YGGGGTGTYTBGRRDGVRGGHACAVDDKGTHCTDWH TGRCCTKTGHCCKAB--------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ArntAhr Combined Motif Original Motif Original Motif TGRSSTGTBTCSKRVGVRGGHACAVDDKGTHCTDWH YGCGTG TBGCGTGTBTCSKRVGVRGGHACAVDDKGTHCTDWH Direction: Forward Position #: 2 Overlap #: 6 Alignment: TGRSSTGTBTCSKRVGVRGGHACAVDDKGTHCTDWH -YGCGTG----------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Original Motif Original Motif TBGCGTGTBTCSKRVGVRGGHACAVDDKGTHCTDWH DGVBCABTGDWGCGKRRCSR TBGCGTGTDHBCDVBGVDGSDWCACVDKGTHCTDWH Direction: Forward Position #: 8 Overlap #: 20 Alignment: TBGCGTGTBTCSKRVGVRGGHACAVDDKGTHCTDWH -------DGVBCABTGDWGCGKRRCSR--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR2F1 Original Motif Original Motif TBGCGTGTDHBCDVBGVDGSDWCACVDKGTHCTDWH TGAMCTTTGMMCYT TGRCSTKTGVHCHBBGVDGSDWCACVDKGTHCTDWH Direction: Forward Position #: 1 Overlap #: 14 Alignment: TBGCGTGTDHBCDVBGVDGSDWCACVDKGTHCTDWH TGAMCTTTGMMCYT---------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- INSM1 Combined Motif Original Motif Original Motif TGRCSTKTGVHCHBBGVDGSDWCACVDKGTHCTDWH TGYCAGGGGGCR TGRCSTKTGHMHGGGGDHGSDWCACVDKGTHCTDWH Direction: Forward Position #: 8 Overlap #: 12 Alignment: TGRCSTKTGVHCHBBGVDGSDWCACVDKGTHCTDWH -------TGYCAGGGGGCR----------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HIF1AARNT Original Motif Original Motif TGRCSTKTGHMHGGGGDHGSDWCACVDKGTHCTDWH VBACGTGV BGACGTGBGHMHGGGGDHGSDWCACVDKGTHCTDWH Direction: Forward Position #: 1 Overlap #: 8 Alignment: TGRCSTKTGHMHGGGGDHGSDWCACVDKGTHCTDWH VBACGTGV---------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Myc Original Motif Reverse Complement BGACGTGBGHMHGGGGDHGSDWCACVDKGTHCTDWH DCCACGTGCV DYCACGTGBGHMHGGGGDHGSDWCACVDKGTHCTDWH Direction: Forward Position #: 2 Overlap #: 9 Alignment: -BGACGTGBGHMHGGGGDHGSDWCACVDKGTHCTDWH DCCACGTGCV--------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF4A Original Motif Reverse Complement DYCACGTGBGHMHGGGGDHGSDWCACVDKGTHCTDWH TGMYCTTTGBCCK DBVHCKTKBBHCDGGGGDHGSDWCACVDKGTHCTDWH Direction: Forward Position #: 1 Overlap #: 13 Alignment: DYCACGTGBGHMHGGGGDHGSDWCACVDKGTHCTDWH TGMYCTTTGBCCK------------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 3 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 3 EWSR1-FLI1 Original Motif Original Motif AGSCWGG GGAAGGAAGGAAGGAAGG AAGGAGGMAGGGGAAGGA Direction: Backward Position #: 5 Overlap #: 7 Alignment: -------AGSCWGG---- GGAAGGAAGGAAGGAAGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- INSM1 Combined Motif Reverse Complement Reverse Complement TCCTTCCCCTRCCTCCTT MGCCCCCTGMCA TCCKYCCCCTRCCWCCTT Direction: Forward Position #: 3 Overlap #: 12 Alignment: TCCTTCCCCTRCCTCCTT --MGCCCCCTGMCA---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Tcfcp2l1 Reverse Complement Reverse Complement AAGGWGGMAGGGGMRGGA CKGGDTBDMMCTGG CWRGGWGVMASGGGMRGGA Direction: Forward Position #: 2 Overlap #: 13 Alignment: -AAGGWGGMAGGGGMRGGA CKGGDTBDMMCTGG----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif REST Original Motif Original Motif CWRGGWGVMASGGGMRGGA TTCAGCACCATGGACAGCKCC TTCAGCACCATGGACAGSKHBVMASGGGMRGGA Direction: Forward Position #: 15 Overlap #: 7 Alignment: --------------CWRGGWGVMASGGGMRGGA TTCAGCACCATGGACAGCKCC------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif SP1 Reverse Complement Original Motif TCCKYCCCSTYVBDYSCTGTCCATGGTGCTGAA CCCCKCCCCC YCCBBCCCCYYVBDYSCTGTCCATGGTGCTGAA Direction: Forward Position #: 1 Overlap #: 10 Alignment: TCCKYCCCSTYVBDYSCTGTCCATGGTGCTGAA CCCCKCCCCC----------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Zfx Original Motif Reverse Complement YCCBBCCCCYYVBDYSCTGTCCATGGTGCTGAA VAGGCCBBGGCVBB VAKSCCBCSSCBBVBDYSCTGTCCATGGTGCTGAA Direction: Forward Position #: 3 Overlap #: 12 Alignment: --YCCBBCCCCYYVBDYSCTGTCCATGGTGCTGAA VAGGCCBBGGCVBB--------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ESR1 Combined Motif Original Motif Original Motif VAKSCCBCSSCBBVBDYSCTGTCCATGGTGCTGAA VDBHMAGGTCACCCTGACCY VABSCHKSBCMBBVTGMCCTGTCCATGGTGCTGAA Direction: Forward Position #: 1 Overlap #: 20 Alignment: VAKSCCBCSSCBBVBDYSCTGTCCATGGTGCTGAA VDBHMAGGTCACCCTGACCY--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- RORA_1 Combined Motif Original Motif Original Motif VABSCHKSBCMBBVTGMCCTGTCCATGGTGCTGAA AWVDAGGTCA VADVHAGGTCABBVTGMCCTGTCCATGGTGCTGAA Direction: Forward Position #: 2 Overlap #: 10 Alignment: VABSCHKSBCMBBVTGMCCTGTCCATGGTGCTGAA -AWVDAGGTCA------------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Klf4 Reverse Complement Reverse Complement TTCAGCACCATGGACAGGYCAVBBTGACCTDVDTV GCCYCMCCCD KYCHSMMCCWTGGACAGGYCAVBBTGACCTDVDTV Direction: Forward Position #: 1 Overlap #: 10 Alignment: TTCAGCACCATGGACAGGYCAVBBTGACCTDVDTV GCCYCMCCCD------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- MYCMAX Combined Motif Reverse Complement Original Motif VADVHAGGTCABBVTGMCCTGTCCAWGGRRSHGKY RASCACGTGGT VDDSCASGTSRYBVTGMCCTGTCCAWGGRRSHGKY Direction: Forward Position #: 2 Overlap #: 11 Alignment: VADVHAGGTCABBVTGMCCTGTCCAWGGRRSHGKY -RASCACGTGGT----------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 1 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 1 EWSR1-FLI1 Original Motif Original Motif RGGAAR GGAAGGAAGGAAGGAAGG GGAAGGAAGGAAGGAAGG Direction: Forward Position #: 12 Overlap #: 6 Alignment: -----------RGGAAR- GGAAGGAAGGAAGGAAGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- MIZF Combined Motif Original Motif Original Motif GGAAGGAAGGAAGGAAGG BAACGTCCGC GGAAGGAAGGAAGGAASGTCCGC Direction: Forward Position #: 14 Overlap #: 5 Alignment: GGAAGGAAGGAAGGAAGG----- -------------BAACGTCCGC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- MZF1_5-13 Combined Motif Original Motif Reverse Complement GGAAGGAAGGAAGGAASGTCCGC BTHCCCCTYB GGAAGGAAGGAAGGAABKTCCSCTYB Direction: Forward Position #: 17 Overlap #: 7 Alignment: GGAAGGAAGGAAGGAASGTCCGC--- ----------------BTHCCCCTYB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NFKB1 Combined Motif Reverse Complement Original Motif BKAGSGGAYBTTCCTTCCTTCCTTCC GGGGRTTCCCC BKAGGGGAYBYYCCTTCCTTCCTTCC Direction: Forward Position #: 4 Overlap #: 11 Alignment: BKAGSGGAYBTTCCTTCCTTCCTTCC ---GGGGRTTCCCC------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PPARGRXRA Combined Motif Reverse Complement Reverse Complement GGAAGGAAGGAAGGKMVMTCCCCTYB TGRCCTKTGHCCKAB GGAAGGAAGGAAGGKMVMTSMCCTTTGHCCKAB Direction: Forward Position #: 19 Overlap #: 8 Alignment: GGAAGGAAGGAAGGKMVMTCCCCTYB------- ------------------TGRCCTKTGHCCKAB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif REST Reverse Complement Original Motif BTRGGDCAAAGGRSAYBYYCCTTCCTTCCTTCC TTCAGCACCATGGACAGCKCC TBYAGSACMAWGGASAGBBCCCTTCCTTCCTTCC Direction: Forward Position #: 2 Overlap #: 20 Alignment: -BTRGGDCAAAGGRSAYBYYCCTTCCTTCCTTCC TTCAGCACCATGGACAGCKCC------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif INSM1 Original Motif Original Motif TBYAGSACMAWGGASAGBBCCCTTCCTTCCTTCC TGYCAGGGGGCR TKYCAGGGSVMRGGASAGBBCCCTTCCTTCCTTCC Direction: Forward Position #: 2 Overlap #: 11 Alignment: -TBYAGSACMAWGGASAGBBCCCTTCCTTCCTTCC TGYCAGGGGGCR----------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- RREB1 Combined Motif Reverse Complement Original Motif GGAAGGAAGGAAGGGVBCTSTCCKRVSCCCTGMYA CCCCMAAMCAMCCMCMMMCV GGAAGGAAGGAAGGGVBCTSTCCKRCCCCMWVMCAMCCMCMMMCV Direction: Forward Position #: 26 Overlap #: 10 Alignment: GGAAGGAAGGAAGGGVBCTSTCCKRVSCCCTGMYA---------- -------------------------CCCCMAAMCAMCCMCMMMCV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Ar Reverse Complement Reverse Complement BGRRRGRGGRTGYBWRGGGGMRGGASAGBBCCCTTCCTTCCTTCC VRVDGGHACAVDDKGTHCTDWH VRVBGGDASRGGRTGTBYKDDBGMRGGASAGBBCCCTTCCTTCCTTCC Direction: Forward Position #: 4 Overlap #: 19 Alignment: ---BGRRRGRGGRTGYBWRGGGGMRGGASAGBBCCCTTCCTTCCTTCC VRVDGGHACAVDDKGTHCTDWH-------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- E2F1 Combined Motif Original Motif Original Motif VRVBGGDASRGGRTGTBYKDDBGMRGGASAGBBCCCTTCCTTCCTTCC TTTSGCGC VRVBGGDASRGGRTGTBYKDDBGMRGGASAGBBCCCTTCCTTCYTTCSCGC Direction: Forward Position #: 44 Overlap #: 5 Alignment: VRVBGGDASRGGRTGTBYKDDBGMRGGASAGBBCCCTTCCTTCCTTCC--- -------------------------------------------TTTSGCGC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Zfp423 Combined Motif Reverse Complement Original Motif GCGSGAAMGAAGGAAGGGVBCTSTCCKRCBHHYKVACAMCCKSTDCCVVMV GSMMCCYARGGKKKC VVMVVSMMCMYMVGGKKBCGCGSGAAMGAAGGAAGGGVBCTSTCCKRCBHH Direction: Backward Position #: 5 Overlap #: 15 Alignment: GCGSGAAMGAAGGAAGGGVBCTSTCCKRCBHHYKVACAMCCKSTDCCVVMV --------------------------------GSMMCCYARGGKKKC---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 7 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 7 SP1 Original Motif Original Motif CCCRCCCC CCCCKCCCCC CCCCDCCCCC Direction: Backward Position #: 2 Overlap #: 8 Alignment: -CCCRCCCC- CCCCKCCCCC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Klf4 Original Motif Reverse Complement CCCCDCCCCC GCCYCMCCCD SCCCCCCCCH Direction: Forward Position #: 1 Overlap #: 10 Alignment: CCCCDCCCCC GCCYCMCCCD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Egr1 Reverse Complement Original Motif DGGGGGGGGS HGCGTGGGCGK DGSGKGGGSGK Direction: Forward Position #: 1 Overlap #: 10 Alignment: DGGGGGGGGS- HGCGTGGGCGK ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif RREB1 Original Motif Reverse Complement DGSGKGGGSGK BGRRRGRGGRTGRTTYGGGG BGGGKGGGGGTGRTTYGGGG Direction: Forward Position #: 1 Overlap #: 11 Alignment: DGSGKGGGSGK--------- BGRRRGRGGRTGRTTYGGGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NFKB1 Combined Motif Original Motif Original Motif BGGGKGGGGGTGRTTYGGGG GGGGRTTCCCC GGGGGGGGRTKBYYYBGGGK Direction: Backward Position #: 5 Overlap #: 11 Alignment: BGGGKGGGGGTGRTTYGGGG -----GGGGRTTCCCC---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif INSM1 Original Motif Original Motif GGGGGGGGRTKBYYYBGGGK TGYCAGGGGGCR TGBSRGGGGGYGBYYYBGGGK Direction: Forward Position #: 2 Overlap #: 11 Alignment: -GGGGGGGGRTKBYYYBGGGK TGYCAGGGGGCR--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- EWSR1-FLI1 Combined Motif Reverse Complement Reverse Complement YCCCVKKKBCMCCCCCKSBCA CCTTCCTTCCTTCCTTCC YCCCVKKKBCMCCCCCTTCCWTCCTTCCTTCC Direction: Forward Position #: 15 Overlap #: 7 Alignment: YCCCVKKKBCMCCCCCKSBCA----------- --------------CCTTCCTTCCTTCCTTCC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif PLAG1 Original Motif Reverse Complement YCCCVKKKBCMCCCCCTTCCWTCCTTCCTTCC CCCCCTTGGGCCCC CCCCCKKGGSCCCCCCTTCCWTCCTTCCTTCC Direction: Forward Position #: 1 Overlap #: 14 Alignment: YCCCVKKKBCMCCCCCTTCCWTCCTTCCTTCC CCCCCTTGGGCCCC------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Zfx Original Motif Reverse Complement CCCCCKKGGSCCCCCCTTCCWTCCTTCCTTCC VAGGCCBBGGCVBB CMSSCCBBGSCCCCCCTTCCWTCCTTCCTTCC Direction: Forward Position #: 1 Overlap #: 14 Alignment: CCCCCKKGGSCCCCCCTTCCWTCCTTCCTTCC VAGGCCBBGGCVBB------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Reverse Complement Original Motif GGAAGGAAGGAWGGAAGGGGGGSCBVGGSSYG DGVBCABTGDWGCGKRRCSR GGAAGGARGGMWGKVAGGSGKRVCBRGGSSYG Direction: Forward Position #: 7 Overlap #: 20 Alignment: GGAAGGAAGGAWGGAAGGGGGGSCBVGGSSYG ------DGVBCABTGDWGCGKRRCSR------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 26 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ArntAhr Motif 11 Original Motif Reverse Complement YGCGTG TGTGTGTGTGTKTG TGTGTGTGYGTGTG Direction: Forward Position #: 7 Overlap #: 6 Alignment: ------YGCGTG-- TGTGTGTGTGTKTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 9 Original Motif Reverse Complement TGTGTGTGYGTGTG TGTGTGKVTGTGTG TGTGTGTGTGTGTG Direction: Forward Position #: 1 Overlap #: 14 Alignment: TGTGTGTGYGTGTG TGTGTGKVTGTGTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 7 Reverse Complement Original Motif CACACACACACACA CCCRCCCC CMCACMCMCACACA Direction: Forward Position #: 1 Overlap #: 8 Alignment: CACACACACACACA CCCRCCCC------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 3 Combined Motif Reverse Complement Original Motif TGTGTGRGRGTGYG AGSCWGG TGTGTGRGAGBSTGG Direction: Forward Position #: 9 Overlap #: 6 Alignment: TGTGTGRGRGTGYG- --------AGSCWGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 2 Original Motif Reverse Complement TGTGTGRGAGBSTGG TGTRT TGTGTGRGAGBSTGG Direction: Forward Position #: 1 Overlap #: 5 Alignment: TGTGTGRGAGBSTGG TGTRT---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 6 Combined Motif Reverse Complement Original Motif CCASBCTCMCACACA CMGCRGC CCMGCMKCMCACACA Direction: Forward Position #: 2 Overlap #: 7 Alignment: CCASBCTCMCACACA -CMGCRGC------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 8 Combined Motif Reverse Complement Original Motif TGTGTGRGYRGCYGG CTGGGA TGTGTGRGYRGCYGGGA Direction: Forward Position #: 12 Overlap #: 4 Alignment: TGTGTGRGYRGCYGG-- -----------CTGGGA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 4 Reverse Complement Reverse Complement TCCCMGCMKCMCACACA KCAGAG TCMSAGCMKCMCACACA Direction: Forward Position #: 1 Overlap #: 6 Alignment: TCCCMGCMKCMCACACA KCAGAG----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ************************************************************ Combined Motifs for Top Global Significant Motif ID 33 and Its Best Matches *********************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- HIF1AARNT Motif 9 Reverse Complement Original Motif VCACGTBV CACACAVRCACACA ARCACRYACCACAC Direction: Backward Position #: 2 Overlap #: 8 Alignment: -----VCACGTBV- CACACAVRCACACA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 11 Original Motif Original Motif ARCACRYACCACAC CAYACACACACACA CAYACAMACACACACCACAC Direction: Forward Position #: 7 Overlap #: 8 Alignment: ------ARCACRYACCACAC CAYACACACACACA------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 7 Combined Motif Reverse Complement Reverse Complement GTGTGGTGTGTGTYTGTKTG GGGGMGGG GTGKGGHGKGTGTYTGTKTG Direction: Forward Position #: 3 Overlap #: 8 Alignment: GTGTGGTGTGTGTYTGTKTG --GGGGMGGG---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 3 Combined Motif Original Motif Original Motif GTGKGGHGKGTGTYTGTKTG AGSCWGG GTGDGGCDGGTGTYTGTKTG Direction: Forward Position #: 4 Overlap #: 7 Alignment: GTGKGGHGKGTGTYTGTKTG ---AGSCWGG---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 2 Combined Motif Reverse Complement Original Motif CAYACAMACACCHGCCDCAC AMACA CACACAMACACCHGCCDCAC Direction: Forward Position #: 2 Overlap #: 5 Alignment: CAYACAMACACCHGCCDCAC -AMACA-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Results created by MOTIFSIM on 11-20-2016 13:44:02 Runtime: 673.485 seconds MOTIFSIM is written by Ngoc Tam L. 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