**************************************************************************************************************************************************************************************************** MOTIFSIM - Motif Similarity Detection Tool Version 2.2 **************************************************************************************************************************************************************************************************** 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 Motif 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 and Local Significant Motif ID 14 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Esrrb Combined Motif Original Motif Reverse Complement TTCAKSACCWDGRWCAGCKCC CACGTG TTCAKCACSTDGRWCAGCKCC Direction: Forward Position #: 6 Overlap #: 6 Alignment: TTCAKSACCWDGRWCAGCKCC -----CACGTG---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Arnt Combined Motif Original Motif Reverse Complement TTCAKCACSTDGRWCAGCKCC CACGTG TTCAKCACGTGGRWCAGCKCC Direction: Forward Position #: 6 Overlap #: 6 Alignment: TTCAKCACSTDGRWCAGCKCC -----CACGTG---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR1H2RXRA Original Motif Original Motif TTCAKCACGTGGRWCAGCKCC AAAGGTCAAAGGTCAAC AAAGGTCAAAGGTCADCACGTGGRWCAGCKCC Direction: Forward Position #: 12 Overlap #: 6 Alignment: -----------TTCAKCACGTGGRWCAGCKCC AAAGGTCAAAGGTCAAC--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HIF1AARNT Reverse Complement Reverse Complement GGYGCTGWMCCACGTGDTGACCTTTGACCTTT VCACGTBV VCACGKHVCTGWMCCACGTGDTGACCTTTGACCTTT Direction: Forward Position #: 5 Overlap #: 4 Alignment: ----GGYGCTGWMCCACGTGDTGACCTTTGACCTTT VCACGTBV---------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif INSM1 Reverse Complement Original Motif AAAGGTCAAAGGTCADCACGTGGRWCAGVDRCGTGV TGYCAGGGGGCR TGYCARRGGKCAAAGGTCADCACGTGGRWCAGVDRCGTGV Direction: Forward Position #: 5 Overlap #: 8 Alignment: ----AAAGGTCAAAGGTCADCACGTGGRWCAGVDRCGTGV TGYCAGGGGGCR---------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif PPARGRXRA Original Motif Original Motif TGYCARRGGKCAAAGGTCADCACGTGGRWCAGVDRCGTGV BTRGGDCARAGGKCA BTRKGBCARRGGKCAAAGGTCADCACGTGGRWCAGVDRCGTGV Direction: Forward Position #: 4 Overlap #: 12 Alignment: ---TGYCARRGGKCAAAGGTCADCACGTGGRWCAGVDRCGTGV BTRGGDCARAGGKCA---------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif MYCMAX Reverse Complement Reverse Complement VCACGKHVCTGWMCCACGTGDTGACCTTTGRCCKKTGVCYKAB ACCACGTGSTM ASCACGTGSYTGWMCCACGTGDTGACCTTTGRCCKKTGVCYKAB Direction: Forward Position #: 2 Overlap #: 10 Alignment: -VCACGKHVCTGWMCCACGTGDTGACCTTTGRCCKKTGVCYKAB ACCACGTGSTM--------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR4A2 Original Motif Original Motif ASCACGTGSYTGWMCCACGTGDTGACCTTTGRCCKKTGVCYKAB AAGGTCAC AAGRBCACGTGSYTGWMCCACGTGDTGACCTTTGRCCKKTGVCYKAB Direction: Forward Position #: 4 Overlap #: 5 Alignment: ---ASCACGTGSYTGWMCCACGTGDTGACCTTTGRCCKKTGVCYKAB AAGGTCAC--------------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local 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-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR2F1 Reverse Complement Original Motif GTTGACCTKTGRCCKDB TGAMCTTTGMMCYT TGAMCKTTGACCTKTGRCCKDB Direction: Forward Position #: 6 Overlap #: 9 Alignment: -----GTTGACCTKTGRCCKDB TGAMCTTTGMMCYT-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF4A Original Motif Reverse Complement TGAMCKTTGACCTKTGRCCKDB TGMYCTTTGBCCK TGAMCTTTGVCCTKTGRCCKDB Direction: Forward Position #: 1 Overlap #: 13 Alignment: TGAMCKTTGACCTKTGRCCKDB TGMYCTTTGBCCK--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif MIZF Reverse Complement Original Motif VDRGGKCARAGGBCAAAGRTCA BAACGTCCGC HWASGTCMGHGGBCAAAGRTCA Direction: Forward Position #: 1 Overlap #: 10 Alignment: VDRGGKCARAGGBCAAAGRTCA BAACGTCCGC------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif INSM1 Reverse Complement Reverse Complement TGAMCTTTGVCCDCRGACSTWD MGCCCCCTGMCA HGMCCYYTGVCMDCRGACSTWD Direction: Forward Position #: 1 Overlap #: 12 Alignment: TGAMCTTTGVCCDCRGACSTWD MGCCCCCTGMCA---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SP1 Combined Motif Reverse Complement Reverse Complement HWASGTCMGHRGBCAKKGGRCH GGGGGYGGGG HWASGTCVGBGGYSRGGGGRCH Direction: Forward Position #: 8 Overlap #: 10 Alignment: HWASGTCMGHRGBCAKKGGRCH -------GGGGGYGGGG----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif REST Original Motif Reverse Complement HWASGTCVGBGGYSRGGGGRCH GGYGCTGTCCATGGTGCTGAA GGHDMTGTCCRBGGTSVKGRRRCH Direction: Forward Position #: 3 Overlap #: 19 Alignment: --HWASGTCVGBGGYSRGGGGRCH GGYGCTGTCCATGGTGCTGAA--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 8 Combined Motif Reverse Complement Reverse Complement HGMMMCRVSACCVKGGACARHDCC TCCCAG HGTCCCAGSACCVKGGACARHDCC Direction: Forward Position #: 3 Overlap #: 6 Alignment: HGMMMCRVSACCVKGGACARHDCC --TCCCAG---------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Zfx Combined Motif Original Motif Reverse Complement HGTCCCAGSACCVKGGACARHDCC VAGGCCBBGGCVBB HGTCCCAGGMCCBKGSVCVRHDCC Direction: Forward Position #: 6 Overlap #: 14 Alignment: HGTCCCAGSACCVKGGACARHDCC -----VAGGCCBBGGCVBB----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local 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 BGRRRGRRGATGRTTYGGGG Direction: Backward Position #: 10 Overlap #: 5 Alignment: ------RARAT--------- BGRRRGRGGRTGRTTYGGGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 10 Reverse Complement Reverse Complement CCCCMAAMCATCKMCMMMCB AAAAAAACAAARRA AAAAMMMCAAAVCATCKMCMMMCB Direction: Forward Position #: 5 Overlap #: 10 Alignment: ----CCCCMAAMCATCKMCMMMCB AAAAAAACAAARRA---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR4A2 Combined Motif Original Motif Original Motif AAAAMMMCAAAVCATCKMCMMMCB AAGGTCAC AAAARVHCAMAVCATCKMCMMMCB Direction: Forward Position #: 3 Overlap #: 8 Alignment: AAAAMMMCAAAVCATCKMCMMMCB --AAGGTCAC-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR2F1 Reverse Complement Reverse Complement BGRRRGRRGATGBTYTGHVMTTTT AKGYYCAAAGRTCA AKGYBSAAAGRWSATGBTYTGHVMTTTT Direction: Forward Position #: 5 Overlap #: 10 Alignment: ----BGRRRGRRGATGBTYTGHVMTTTT AKGYYCAAAGRTCA-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif MIZF Original Motif Reverse Complement AKGYBSAAAGRWSATGBTYTGHVMTTTT GCGGACGTTV GCGGABGTTVAAAGRWSATGBTYTGHVMTTTT Direction: Forward Position #: 5 Overlap #: 6 Alignment: ----AKGYBSAAAGRWSATGBTYTGHVMTTTT GCGGACGTTV---------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR1H2RXRA Reverse Complement Original Motif AAAARVHCAMAVCATSWMCTTTVAACBTCCGC AAAGGTCAAAGGTCAAC AAAGGTMAAAGGTCAAHVCATSWMCTTTVAACBTCCGC Direction: Forward Position #: 7 Overlap #: 11 Alignment: ------AAAARVHCAMAVCATSWMCTTTVAACBTCCGC AAAGGTCAAAGGTCAAC--------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PPARGRXRA Combined Motif Reverse Complement Original Motif GCGGABGTTVAAAGRWSATGBHTTGACCTTTRACCTTT BTRGGDCARAGGKCA GCGGABGTTVVDRGGDCAWRGBTYRACCTTTRACCTTT Direction: Forward Position #: 11 Overlap #: 15 Alignment: GCGGABGTTVAAAGRWSATGBHTTGACCTTTRACCTTT ----------BTRGGDCARAGGKCA------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif REST Original Motif Original Motif GCGGABGTTVVDRGGDCAWRGBTYRACCTTTRACCTTT TTCAGCACCATGGACAGCKCC TTCAGCACCDYGGACRKHVVHRGGDCAWRGBTYRACCTTTRACCTTT Direction: Forward Position #: 10 Overlap #: 12 Alignment: ---------GCGGABGTTVVDRGGDCAWRGBTYRACCTTTRACCTTT TTCAGCACCATGGACAGCKCC-------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- RXRRAR_DR5 Combined Motif Original Motif Original Motif TTCAGCACCDYGGACRKHVVHRGGDCAWRGBTYRACCTTTRACCTTT RGKTCABVVRGAGGTCA TTCAGCACCDYGGACRGBTCADGGDSAKRKSWYRACCTTTRACCTTT Direction: Forward Position #: 16 Overlap #: 17 Alignment: TTCAGCACCDYGGACRKHVVHRGGDCAWRGBTYRACCTTTRACCTTT ---------------RGKTCABVVRGAGGTCA--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif RORA_1 Reverse Complement Original Motif AAAGGTMAAAGGTMMWSRMYTSDCCDTGAVCKGTCCKHGGTGCTGAA AWVDAGGTCA AWMAAGGTCAAAGGTMMWSRMYTSDCCDTGAVCKGTCCKHGGTGCTGAA Direction: Forward Position #: 3 Overlap #: 8 Alignment: --AAAGGTMAAAGGTMMWSRMYTSDCCDTGAVCKGTCCKHGGTGCTGAA AWVDAGGTCA--------------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local 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 Egr1 Original Motif Original Motif YGCGTG HGCGTGGGCGK YGCGTGGGCGK Direction: Forward Position #: 1 Overlap #: 6 Alignment: YGCGTG----- HGCGTGGGCGK ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HIF1AARNT Original Motif Original Motif YGCGTGGGCGK VBACGTGV VBRCGTGGGCGK Direction: Forward Position #: 2 Overlap #: 7 Alignment: -YGCGTGGGCGK VBACGTGV---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 11 Original Motif Reverse Complement VBRCGTGGGCGK TGTGTGTGTGTKTG TGTGYGTGKGYGTG Direction: Forward Position #: 2 Overlap #: 12 Alignment: -VBRCGTGGGCGK- TGTGTGTGTGTKTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Esrrb Reverse Complement Reverse Complement CACMCRCACMCACA CACGTG CACGYRCACMCACA Direction: Forward Position #: 1 Overlap #: 6 Alignment: CACMCRCACMCACA CACGTG-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Arnt Original Motif Reverse Complement CACGYRCACMCACA CACGTG CACGTGCACMCACA Direction: Forward Position #: 1 Overlap #: 6 Alignment: CACGYRCACMCACA CACGTG-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 9 Original Motif Original Motif CACGTGCACMCACA CACACAVRCACACA CACRYRCACACACA Direction: Forward Position #: 1 Overlap #: 14 Alignment: CACGTGCACMCACA CACACAVRCACACA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif MYCMAX Original Motif Reverse Complement CACRYRCACACACA ACCACGTGSTM ACCACGTGSWCACACA Direction: Forward Position #: 3 Overlap #: 9 Alignment: --CACRYRCACACACA ACCACGTGSTM----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Mycn Original Motif Reverse Complement ACCACGTGSWCACACA GCCACGTGSD VCCACGTGSDCACACA Direction: Forward Position #: 1 Overlap #: 10 Alignment: ACCACGTGSWCACACA GCCACGTGSD------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Myc Original Motif Reverse Complement VCCACGTGSDCACACA DCCACGTGCV DCCACGTGSDCACACA Direction: Forward Position #: 1 Overlap #: 10 Alignment: VCCACGTGSDCACACA DCCACGTGCV------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif RREB1 Original Motif Original Motif DCCACGTGSDCACACA CCCCMAAMCAMCCMCMMMCV CCVCCAMVYRCCCMCACACV Direction: Forward Position #: 3 Overlap #: 16 Alignment: --DCCACGTGSDCACACA-- CCCCMAAMCAMCCMCMMMCV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local 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 TTCAGCASCATGGACAGCKCC Direction: Backward Position #: 13 Overlap #: 7 Alignment: --CMGCRGC------------ TTCAGCACCATGGACAGCKCC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif MIZF Original Motif Original Motif TTCAGCASCATGGACAGCKCC BAACGTCCGC BAACGTCMGCASCATGGACAGCKCC Direction: Forward Position #: 5 Overlap #: 6 Alignment: ----TTCAGCASCATGGACAGCKCC BAACGTCCGC--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Zfx Reverse Complement Original Motif GGYGCTGTCCATGSTGCRGACGTTV BBVGCCBVGGCCTV BBGGCSCTGKCCTDGSTGCRGACGTTV Direction: Forward Position #: 3 Overlap #: 12 Alignment: --GGYGCTGTCCATGSTGCRGACGTTV BBVGCCBVGGCCTV------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFAP2A Combined Motif Reverse Complement Original Motif BAACGTCMGCASCDAGGYCAGSGCCBB GCCBBVRGS BAACGTCMGCMSCVDGGYCAGSGCCBB Direction: Forward Position #: 9 Overlap #: 9 Alignment: BAACGTCMGCASCDAGGYCAGSGCCBB --------GCCBBVRGS---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 7 Reverse Complement Reverse Complement BBGGCSCTGKCCDVGSRGCRGACGTTV GGGGMGGG GGGGVGGGCSCTGKCCDVGSRGCRGACGTTV Direction: Forward Position #: 5 Overlap #: 4 Alignment: ----BBGGCSCTGKCCDVGSRGCRGACGTTV GGGGMGGG----------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Original Motif Reverse Complement GGGGVGGGCSCTGKCCDVGSRGCRGACGTTV MSGKKRCGCWDCABTGBBCD GGGGMSGGBVCDSKBCDVBGVGCRGACGTTV Direction: Forward Position #: 5 Overlap #: 20 Alignment: GGGGVGGGCSCTGKCCDVGSRGCRGACGTTV ----MSGKKRCGCWDCABTGBBCD------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Egr1 Original Motif Original Motif GGGGMSGGBVCDSKBCDVBGVGCRGACGTTV HGCGTGGGCGK HGCGKGGGSGKBVCDSKBCDVBGVGCRGACGTTV Direction: Forward Position #: 4 Overlap #: 8 Alignment: ---GGGGMSGGBVCDSKBCDVBGVGCRGACGTTV HGCGTGGGCGK----------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Klf4 Combined Motif Reverse Complement Original Motif BAACGTCMGCVCVVDGBRSHGBVYCSCCCYCGCH DGGGYGKGGC BAACGTCMGCVCDGGGBGGGGBVYCSCCCYCGCH Direction: Forward Position #: 13 Overlap #: 10 Alignment: BAACGTCMGCVCVVDGBRSHGBVYCSCCCYCGCH ------------DGGGYGKGGC------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SP1 Combined Motif Original Motif Original Motif BAACGTCMGCVCDGGGBGGGGBVYCSCCCYCGCH CCCCKCCCCC BAACGTCMGCVCDGGGBGGGGBCCCCBCCCCSCH Direction: Forward Position #: 23 Overlap #: 10 Alignment: BAACGTCMGCVCDGGGBGGGGBVYCSCCCYCGCH ----------------------CCCCKCCCCC-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- RREB1 Combined Motif Original Motif Original Motif BAACGTCMGCVCDGGGBGGGGBCCCCBCCCCSCH CCCCMAAMCAMCCMCMMMCV BAACGTCMGCVCDGGGCSVCRMMCCAVCCCCVCMCV Direction: Forward Position #: 17 Overlap #: 18 Alignment: BAACGTCMGCVCDGGGBGGGGBCCCCBCCCCSCH-- ----------------CCCCMAAMCAMCCMCMMMCV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local 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 Motif 11 Original Motif Original Motif AMACA CAYACACACACACA CAYACACACACACA Direction: Forward Position #: 6 Overlap #: 5 Alignment: -----AMACA---- CAYACACACACACA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 9 Original Motif Original Motif CAYACACACACACA CACACAVRCACACA CACACACACACACA Direction: Forward Position #: 1 Overlap #: 14 Alignment: CAYACACACACACA CACACAVRCACACA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif RREB1 Original Motif Original Motif CACACACACACACA CCCCMAAMCAMCCMCMMMCV CCCCMAAMCAMCCMCACACACACACACA Direction: Forward Position #: 15 Overlap #: 6 Alignment: --------------CACACACACACACA CCCCMAAMCAMCCMCMMMCV-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 10 Reverse Complement Original Motif TGTGTGTGTGTGTGRGGRTGRTTYGGGG TKKTTTGTTTTTTT TTGTKTGTBTKTKTGRGGRTGRTTYGGGG Direction: Forward Position #: 2 Overlap #: 13 Alignment: -TGTGTGTGTGTGTGRGGRTGRTTYGGGG TKKTTTGTTTTTTT--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Ar Original Motif Reverse Complement TTGTKTGTBTKTKTGRGGRTGRTTYGGGG VRVDGGHACAVDDKGTHCTDWH VRVDGGHACAVDDKGTHCTTDTKTGTBTKTKTGRGGRTGRTTYGGGG Direction: Forward Position #: 19 Overlap #: 4 Alignment: ------------------TTGTKTGTBTKTKTGRGGRTGRTTYGGGG VRVDGGHACAVDDKGTHCTDWH------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PPARGRXRA Combined Motif Original Motif Reverse Complement VRVDGGHACAVDDKGTHCTTDTKTGTBTKTKTGRGGRTGRTTYGGGG TGRCCTKTGHCCKAB VRVDGGHACAVDDTGDYCTTTBBYSTDBKTKTGRGGRTGRTTYGGGG Direction: Forward Position #: 14 Overlap #: 15 Alignment: VRVDGGHACAVDDKGTHCTTDTKTGTBTKTKTGRGGRTGRTTYGGGG -------------TGRCCTKTGHCCKAB------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ArntAhr Reverse Complement Reverse Complement CCCCMAAMCAMCCMCARAYVDASMVVAAAGKDCAHHVTGTHCCHVMV CACGCM CMCSCMAAMCAMCCMCARAYVDASMVVAAAGKDCAHHVTGTHCCHVMV Direction: Forward Position #: 2 Overlap #: 5 Alignment: -CCCCMAAMCAMCCMCARAYVDASMVVAAAGKDCAHHVTGTHCCHVMV CACGCM------------------------------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Original Motif Original Motif CMCSCMAAMCAMCCMCARAYVDASMVVAAAGKDCAHHVTGTHCCHVMV DGVBCABTGDWGCGKRRCSR CMCSCMAAMCAMCCMCARAYVDASMVVAAAGDRCDHHVTGWWSCVDVVCSR Direction: Forward Position #: 32 Overlap #: 17 Alignment: CMCSCMAAMCAMCCMCARAYVDASMVVAAAGKDCAHHVTGTHCCHVMV--- -------------------------------DGVBCABTGDWGCGKRRCSR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR2F1 Reverse Complement Original Motif MSGVBDVGSWWCAVHDDGMHCTTTBBYSTDBKTKTGRGGRTGRTTYGSGYG TGAMCTTTGMMCYT TGAMCTYBGVHVHKSWWCAVHDDGMHCTTTBBYSTDBKTKTGRGGRTGRTTYGSGYG Direction: Forward Position #: 7 Overlap #: 8 Alignment: ------MSGVBDVGSWWCAVHDDGMHCTTTBBYSTDBKTKTGRGGRTGRTTYGSGYG TGAMCTTTGMMCYT------------------------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- INSM1 Combined Motif Reverse Complement Reverse Complement CMCSCMAAMCAMCCMCARAYVDASMVVAAAGDRCDHHVTGWWSYDVDBCVMAGRTCA MGCCCCCTGMCA CMCSCMAAMCRCCCCCWRACADASMVVAAAGDRCDHHVTGWWSYDVDBCVMAGRTCA Direction: Forward Position #: 10 Overlap #: 12 Alignment: CMCSCMAAMCAMCCMCARAYVDASMVVAAAGDRCDHHVTGWWSYDVDBCVMAGRTCA ---------MGCCCCCTGMCA------------------------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 23 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- MZF1_1-4 INSM1 Reverse Complement Reverse Complement TCCCCV MGCCCCCTGMCA MGYCCCCWGMCA Direction: Forward Position #: 3 Overlap #: 6 Alignment: --TCCCCV---- MGCCCCCTGMCA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif MZF1_5-13 Original Motif Reverse Complement MGYCCCCWGMCA BTHCCCCTYB HKYCCCCTBVCA Direction: Forward Position #: 1 Overlap #: 10 Alignment: MGYCCCCWGMCA BTHCCCCTYB-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Klf4 Reverse Complement Original Motif TGVBAGGGGKYD DGGGYGKGGC TGGGHGGGGBYD Direction: Forward Position #: 1 Overlap #: 10 Alignment: TGVBAGGGGKYD DGGGYGKGGC-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif PLAG1 Original Motif Original Motif TGGGHGGGGBYD GGGGCCCAAGGGGG GGGGBSVDMGGGGGYD Direction: Forward Position #: 5 Overlap #: 10 Alignment: ----TGGGHGGGGBYD GGGGCCCAAGGGGG-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 8 Original Motif Original Motif GGGGBSVDMGGGGGYD CTGGGA CKGGGASVDMGGGGGYD Direction: Forward Position #: 2 Overlap #: 5 Alignment: -GGGGBSVDMGGGGGYD CTGGGA----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SP1 Combined Motif Reverse Complement Original Motif HKCCCCCYDVSTCCCYG CCCCKCCCCC HKCCCCCBBCCYCCCYG Direction: Forward Position #: 4 Overlap #: 10 Alignment: HKCCCCCYDVSTCCCYG ---CCCCKCCCCC---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- RREB1 Combined Motif Reverse Complement Reverse Complement CKGGGKGGBVGGGGGYD BGRRRGRGGRTGRTTYGGGG CGGGGGGGGRKGGKKYGGGG Direction: Forward Position #: 1 Overlap #: 17 Alignment: CKGGGKGGBVGGGGGYD--- BGRRRGRGGRTGRTTYGGGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NFKB1 Reverse Complement Original Motif CCCCMRYCCRMCCCCCCCCG GGGGRTTCCCC GGGGRTYCCCCRYCCRMCCCCCCCCG Direction: Forward Position #: 7 Overlap #: 5 Alignment: ------CCCCMRYCCRMCCCCCCCCG GGGGRTTCCCC--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif REST Reverse Complement Reverse Complement CGGGGGGGGRKGGKKGGGGKAKCCCC GGYGCTGTCCATGGTGCTGAA GGYGCTGTCCMBGGKGSKGADGGKKGGGGKAKCCCC Direction: Forward Position #: 11 Overlap #: 11 Alignment: ----------CGGGGGGGGRKGGKKGGGGKAKCCCC GGYGCTGTCCATGGTGCTGAA--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Ar Original Motif Reverse Complement GGYGCTGTCCMBGGKGSKGADGGKKGGGGKAKCCCC VRVDGGHACAVDDKGTHCTDWH VGVHGSTRYMCVDKGTBCKDDDGGKKGGGGKAKCCCC Direction: Forward Position #: 2 Overlap #: 21 Alignment: -GGYGCTGTCCMBGGKGSKGADGGKKGGGGKAKCCCC VRVDGGHACAVDDKGTHCTDWH--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 44 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR4A2 NR1H2RXRA Original Motif Original Motif AAGGTCAC AAAGGTCAAAGGTCAAC AAAGGTCAMAGGTCAAC Direction: Backward Position #: 9 Overlap #: 8 Alignment: -AAGGTCAC-------- AAAGGTCAAAGGTCAAC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ESR1 Reverse Complement Reverse Complement GTTGACCTYTGACCTTT MGGTCAGGGTGACCTRDBHV MGGTCAGGKTGACCTBTGACCTTT Direction: Forward Position #: 8 Overlap #: 13 Alignment: -------GTTGACCTYTGACCTTT MGGTCAGGGTGACCTRDBHV---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ESR2 Combined Motif Original Motif Original Motif MGGTCAGGKTGACCTBTGACCTTT VHRGGTCABDBTGMCCTB MGGTCADRKKKMMCTBTGACCTBT Direction: Forward Position #: 6 Overlap #: 18 Alignment: MGGTCAGGKTGACCTBTGACCTTT -----VHRGGTCABDBTGMCCTB- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Ar Combined Motif Reverse Complement Original Motif AVAGGTCABAGYRYYYMHTGACCY HWDAGHACRHHVTGTHCCHVMV AVARRKMACRBYRYGTHCYGVCCY Direction: Forward Position #: 2 Overlap #: 22 Alignment: AVAGGTCABAGYRYYYMHTGACCY -HWDAGHACRHHVTGTHCCHVMV- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PPARGRXRA Combined Motif Reverse Complement Original Motif MGGBCKGHACMMKBKGTRYMMTBT BTRGGDCARAGGKCA MGGBBDGBVCAVRGKKYAYMMTBT Direction: Forward Position #: 4 Overlap #: 15 Alignment: MGGBCKGHACMMKBKGTRYMMTBT ---BTRGGDCARAGGKCA------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR2F1 Combined Motif Original Motif Original Motif MGGBBDGBVCAVRGKKYAYMMTBT TGAMCTTTGMMCYT MGGBBDGBTSAMCBTTBAHCHTBT Direction: Forward Position #: 9 Overlap #: 14 Alignment: MGGBBDGBVCAVRGKKYAYMMTBT --------TGAMCTTTGMMCYT-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif REST Reverse Complement Original Motif AVADGDTBAAVGYTSABCHBBCCY TTCAGCACCATGGACAGCKCC TTCAGCAMCADGGDCARVDYYSABCHBBCCY Direction: Forward Position #: 8 Overlap #: 14 Alignment: -------AVADGDTBAAVGYTSABCHBBCCY TTCAGCACCATGGACAGCKCC---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Zfx Combined Motif Original Motif Original Motif TTCAGCAMCADGGDCARVDYYSABCHBBCCY BBVGCCBVGGCCTV TTCAGCAMCADGGDCARVDYBSVBCCBVSSCCTV Direction: Forward Position #: 21 Overlap #: 11 Alignment: TTCAGCAMCADGGDCARVDYYSABCHBBCCY--- --------------------BBVGCCBVGGCCTV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif RREB1 Reverse Complement Reverse Complement VAGGSSVBGGBBSBKHVMTGDCCDTGRTGCTGAA BGRRRGRGGRTGRTTYGGGG BGRVAGGSGRTGGYTBGGVGMTGDCCDTGRTGCTGAA Direction: Forward Position #: 4 Overlap #: 17 Alignment: ---VAGGSSVBGGBBSBKHVMTGDCCDTGRTGCTGAA BGRRRGRGGRTGRTTYGGGG----------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Tcfcp2l1 Combined Motif Reverse Complement Original Motif TTCAGCAMCADGGDCARCVCCVAMCCAMCSCCTVMCB CCAGYYHVADCCRG TTCAGCAMCADGGCCAGHBCVADCCVRMCSCCTVMCB Direction: Forward Position #: 14 Overlap #: 14 Alignment: TTCAGCAMCADGGDCARCVCCVAMCCAMCSCCTVMCB -------------CCAGYYHVADCCRG---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 15 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TFAP2A Zfx Reverse Complement Original Motif SCMVBBGGC BBVGCCBVGGCCTV BBVSCCBVGGSCTV Direction: Backward Position #: 3 Overlap #: 9 Alignment: ---SCMVBBGGC-- BBVGCCBVGGCCTV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif PLAG1 Original Motif Reverse Complement BBVSCCBVGGSCTV CCCCCTTGGGCCCC CCCCCYHVGGCCYC Direction: Forward Position #: 1 Overlap #: 14 Alignment: BBVSCCBVGGSCTV CCCCCTTGGGCCCC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Zfp423 Reverse Complement Reverse Complement GMGGCCVHKGGGGG GYRYCCMTKGGYRSC GHGBCCMWKGGBGSC Direction: Forward Position #: 1 Overlap #: 14 Alignment: GMGGCCVHKGGGGG- GYRYCCMTKGGYRSC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ESR1 Reverse Complement Reverse Complement GSCBCCYWRGGBCDC MGGTCAGGGTGACCTRDBHV MGGTCAGGGTGACCTRGSHBCCYWRGGBCDC Direction: Forward Position #: 17 Overlap #: 4 Alignment: ----------------GSCBCCYWRGGBCDC MGGTCAGGGTGACCTRDBHV----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ESR2 Combined Motif Original Motif Original Motif MGGTCAGGGTGACCTRGSHBCCYWRGGBCDC VHRGGTCABDBTGMCCTB MGGTCAVDRKGWCMBDDBVHCCYDRGGBCDC Direction: Forward Position #: 7 Overlap #: 18 Alignment: MGGTCAGGGTGACCTRGSHBCCYWRGGBCDC ------VHRGGTCABDBTGMCCTB------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Mycn Combined Motif Reverse Complement Original Motif GHGBCCMDMGGHVVHHVYGWCRMHVTGACCY HSCACGTGGC GHGBCCMDMGGHSCACGYGDCRMHVTGACCY Direction: Forward Position #: 12 Overlap #: 10 Alignment: GHGBCCMDMGGHVVHHVYGWCRMHVTGACCY -----------HSCACGTGGC---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax5 Combined Motif Reverse Complement Original Motif MGGTCAVDRKGHCMCGTGSDCCYDRGGBCDC DGVBCABTGDWGCGKRRCSR MGGTCAVDRKGHCMCGDGVDCMBBGGGGCGBRRCSR Direction: Forward Position #: 17 Overlap #: 15 Alignment: MGGTCAVDRKGHCMCGTGSDCCYDRGGBCDC----- ----------------DGVBCABTGDWGCGKRRCSR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- RXRRAR_DR5 Combined Motif Original Motif Original Motif MGGTCAVDRKGHCMCGDGVDCMBBGGGGCGBRRCSR RGKTCABVVRGAGGTCA MGGTCAVRGKKCMHVGDGVGBHCAGGGGCGBRRCSR Direction: Forward Position #: 8 Overlap #: 17 Alignment: MGGTCAVDRKGHCMCGDGVDCMBBGGGGCGBRRCSR -------RGKTCABVVRGAGGTCA------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Myc Combined Motif Reverse Complement Original Motif MSGKKBCGCCCCTGHBCBCDCVHYGRYCMVTGACCY VGCACGTGGH MSGKKBCGCCCCTGHSCACGYGBYGRYCMVTGACCY Direction: Forward Position #: 15 Overlap #: 10 Alignment: MSGKKBCGCCCCTGHBCBCDCVHYGRYCMVTGACCY --------------VGCACGTGGH------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Tcfcp2l1 Combined Motif Original Motif Original Motif MSGKKBCGCCCCTGHSCACGYGBYGRYCMVTGACCY CCAGYYHVADCCRG MSGKKBCGCCVSTBHVMDCBHGBYGRYCMVTGACCY Direction: Forward Position #: 9 Overlap #: 14 Alignment: MSGKKBCGCCCCTGHSCACGYGBYGRYCMVTGACCY --------CCAGYYHVADCCRG-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 25 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Arnt Esrrb Original Motif Original Motif CACGTG CACGTG CACGTG Direction: Forward Position #: 1 Overlap #: 6 Alignment: CACGTG CACGTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif MYCMAX Reverse Complement Reverse Complement CACGTG ACCACGTGSTM ACCACGTGSTM Direction: Forward Position #: 3 Overlap #: 6 Alignment: --CACGTG--- ACCACGTGSTM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Myc Original Motif Reverse Complement ACCACGTGSTM DCCACGTGCV DCCACGTGSDM Direction: Forward Position #: 1 Overlap #: 10 Alignment: ACCACGTGSTM DCCACGTGCV- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Mycn Original Motif Reverse Complement DCCACGTGSDM GCCACGTGSD DCCACGTGSDM Direction: Forward Position #: 1 Overlap #: 10 Alignment: DCCACGTGSDM GCCACGTGSD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HIF1AARNT Reverse Complement Original Motif RHSCACGTGGH VBACGTGV VBRCRYGYGGH Direction: Forward Position #: 1 Overlap #: 8 Alignment: RHSCACGTGGH VBACGTGV--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ArntAhr Reverse Complement Reverse Complement DCCMCMMGKBV CACGCM CMCGCMMGKBV Direction: Forward Position #: 1 Overlap #: 6 Alignment: DCCMCMMGKBV CACGCM----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ZEB1 Combined Motif Reverse Complement Reverse Complement VBRCRYGCGYG HAGGTG VHASGTGCGYG Direction: Forward Position #: 2 Overlap #: 6 Alignment: VBRCRYGCGYG -HAGGTG---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Egr1 Original Motif Original Motif VHASGTGCGYG HGCGTGGGCGK HGCRBGKGCGBG Direction: Forward Position #: 2 Overlap #: 10 Alignment: -VHASGTGCGYG HGCGTGGGCGK- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif MIZF Reverse Complement Original Motif CVCGCYCVMGCH BAACGTCCGC BHACGYCCGCGCH Direction: Forward Position #: 2 Overlap #: 9 Alignment: -CVCGCYCVMGCH BAACGTCCGC--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif PLAG1 Reverse Complement Original Motif HGCGCGGKCGTHV GGGGCCCAAGGGGG GGGGCSCRMGGGSGTHV Direction: Forward Position #: 5 Overlap #: 10 Alignment: ----HGCGCGGKCGTHV GGGGCCCAAGGGGG--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Results created by MOTIFSIM on 06-18-2018 23:13:48 Runtime: 761.535 seconds MOTIFSIM is written by Ngoc Tam L. 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