**************************************************************************************************************************************************************************************************** MOTIFSIM - Motif Similarity Detection Tool Version 2.1 **************************************************************************************************************************************************************************************************** INPUT **************************************************************************************************************************************************************************************************** Input Parameters Number of files: 1 Number of top significant motifs: 10 Number of best matches: 5 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 # CisFinder_DM721_Cluster.txt 153 1 **************************************************************************************************************************************************************************************************** RESULTS **************************************************************************************************************************************************************************************************** ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 108 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C108 C125 Original Motif Original Motif RBACWGASAWASVY SKASWYASAGRWASMS ASACAGASAWASMBSK Direction: Backward Position #: 1 Overlap #: 14 Alignment: --RBACWGASAWASVY SKASWYASAGRWASMS ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif C021 Original Motif Original Motif ASACAGASAWASMBSK MKAGMVAGAKAGMK AKASASAGATASMKSK Direction: Forward Position #: 1 Overlap #: 14 Alignment: ASACAGASAWASMBSK MKAGMVAGAKAGMK-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif C053 Original Motif Original Motif AKASASAGATASMKSK RMACRGAGAAAYCCTGKY RHACAGAGAAABCBBKKY Direction: Forward Position #: 1 Overlap #: 16 Alignment: AKASASAGATASMKSK-- RMACRGAGAAAYCCTGKY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C017 Combined Motif Reverse Complement Reverse Complement MRYVBGBTTTCTCTGTHK SWSTCTCTSWSTCTCWSW MRCWSKSTHTCTCTSTVTSW Direction: Forward Position #: 3 Overlap #: 16 Alignment: MRYVBGBTTTCTCTGTHK-- --SWSTCTCTSWSTCTCWSW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif C070 Original Motif Reverse Complement MRCWSKSTHTCTCTSTVTSW RBSTCTVTCTBTCVC VDSTSTSTBTSTCBSTVTSW Direction: Forward Position #: 1 Overlap #: 15 Alignment: MRCWSKSTHTCTCTSTVTSW RBSTCTVTCTBTCVC----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C025 C078 Original Motif Original Motif KMGAKAGAGMGAKM YRGAYAGAGRGAYR KMGAKAGAGMGAKM Direction: Backward Position #: 1 Overlap #: 14 Alignment: KMGAKAGAGMGAKM YRGAYAGAGRGAYR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C012 Combined Motif Reverse Complement Reverse Complement YRTCYCTCTRTCYR YRTCTCTCTCTRYCTCTRR YRTVTCTCTMTCTRYCTCTRR Direction: Forward Position #: 3 Overlap #: 12 Alignment: YRTCYCTCTRTCYR------- --YRTCTCTCTCTRYCTCTRR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C011 Combined Motif Original Motif Reverse Complement YRTVTCTCTMTCTRYCTCTRR RRTCTCTCTCRRTCTCRR YRDVTCTCTCTCDRTCTCDRR Direction: Forward Position #: 3 Overlap #: 18 Alignment: YRTVTCTCTMTCTRYCTCTRR --RRTCTCTCTCRRTCTCRR- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif C026 Original Motif Original Motif YRDVTCTCTCTCDRTCTCDRR KMGAGAKMKMGAGAKM KMDRKMTCKMKMGAKCTCDRR Direction: Forward Position #: 1 Overlap #: 16 Alignment: YRDVTCTCTCTCDRTCTCDRR KMGAGAKMKMGAGAKM----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C070 Combined Motif Original Motif Original Motif KMDRKMTCKMKMGAKCTCDRR GVGABAGAVAGASVK KMDRKVKMKMGAVAKMBCDRR Direction: Forward Position #: 5 Overlap #: 15 Alignment: KMDRKMTCKMKMGAKCTCDRR ----GVGABAGAVAGASVK-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 70 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C070 C017 Original Motif Original Motif GVGABAGAVAGASVK WSWGAGASWSAGAGASWS WSWGRGASASAGAGASDB Direction: Forward Position #: 4 Overlap #: 15 Alignment: ---GVGABAGAVAGASVK WSWGAGASWSAGAGASWS ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif C012 Original Motif Original Motif WSWGRGASASAGAGASDB MKAGAGMKAGAGAGAGAKM HBAGAGAKAGAGAGAGAKM Direction: Forward Position #: 1 Overlap #: 18 Alignment: WSWGRGASASAGAGASDB- MKAGAGMKAGAGAGAGAKM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C028 Combined Motif Reverse Complement Reverse Complement YYTCTCTCTCTYTCTCTBH VBTSVCTSTGSSTCVB YYHCTSBCTSTSBCTCDBH Direction: Forward Position #: 3 Overlap #: 16 Alignment: YYTCTCTCTCTYTCTCTBH --VBTSVCTSTGSSTCVB- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif C011 Original Motif Reverse Complement YYHCTSBCTSTSBCTCDBH RRTCTCTCTCRRTCTCRR DVTCTCTCTCDVTCTCDVH Direction: Forward Position #: 1 Overlap #: 18 Alignment: YYHCTSBCTSTSBCTCDBH RRTCTCTCTCRRTCTCRR- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif C055 Reverse Complement Original Motif HVHGAGAVDGAGAGAGABH MKAGAGMKMKAGAGMK MBAGAGMBVGAGAGAKABH Direction: Forward Position #: 1 Overlap #: 16 Alignment: HVHGAGAVDGAGAGAGABH MKAGAGMKMKAGAGMK--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 78 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C078 C025 Original Motif Original Motif YRGAYAGAGRGAYR KMGAKAGAGMGAKM KMGAKAGAGMGAKM Direction: Backward Position #: 1 Overlap #: 14 Alignment: YRGAYAGAGRGAYR KMGAKAGAGMGAKM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C012 Combined Motif Reverse Complement Reverse Complement YRTCYCTCTRTCYR YRTCTCTCTCTRYCTCTRR YRTVTCTCTMTCTRYCTCTRR Direction: Forward Position #: 3 Overlap #: 12 Alignment: YRTCYCTCTRTCYR------- --YRTCTCTCTCTRYCTCTRR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C070 Combined Motif Reverse Complement Original Motif MKAGAGMKAGARAGAGAVAKM GVGABAGAVAGASVK MKAGRGMBAGAVAGAGVBAKM Direction: Forward Position #: 4 Overlap #: 15 Alignment: MKAGAGMKAGARAGAGAVAKM ---GVGABAGAVAGASVK--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C017 Combined Motif Original Motif Original Motif MKAGRGMBAGAVAGAGVBAKM WSWGAGASWSAGAGASWS MKAGDGAGAGASAGAGAGABHS Direction: Forward Position #: 5 Overlap #: 17 Alignment: MKAGRGMBAGAVAGAGVBAKM- ----WSWGAGASWSAGAGASWS ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif C011 Original Motif Original Motif MKAGDGAGAGASAGAGAGABHS KMGAGAKMGAGAGAGAKM KMGAGAGMGAGAGAGAKMGABHS Direction: Forward Position #: 2 Overlap #: 17 Alignment: -MKAGDGAGAGASAGAGAGABHS KMGAGAKMGAGAGAGAKM----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C023 C004 Reverse Complement Reverse Complement SSGGSGDBGSGGSS SSSSSSGSGGSSSSGGSSSSSGSSSSS SSSGGSGGSGSGGSSSSSSSSGSGGSS Direction: Backward Position #: 2 Overlap #: 14 Alignment: ------------SSGGSGDBGSGGSS- SSSSSSGSGGSSSSGGSSSSSGSSSSS ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C104 Combined Motif Reverse Complement Original Motif SSCCSCSSSSSSSSCCSCSCCSCCSSS SSCCYCCCCDCCSS SSCCBCCCCVSCSSCCSCSCCSCCSSS Direction: Forward Position #: 1 Overlap #: 14 Alignment: SSCCSCSSSSSSSSCCSCSCCSCCSSS SSCCYCCCCDCCSS------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif C054 Reverse Complement Reverse Complement SSSGGSGGSGSGGSSGSVGGGGBGGSS SSGGGGGGGHGGSS SSSSGGGGGVGGSSGSSGSVGGGGBGGSS Direction: Forward Position #: 3 Overlap #: 12 Alignment: --SSSGGSGGSGSGGSSGSVGGGGBGGSS SSGGGGGGGHGGSS--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C003 Combined Motif Reverse Complement Original Motif SSCCBCCCCVSCSSCSSCCVCCCCCSSSS GSCYCHSCCYVCCYCCCCCCSSCCCCCSSC SSCCBCSSCBCCSCCBSCCBCCCCCCSSCCCCCSSC Direction: Forward Position #: 7 Overlap #: 23 Alignment: SSCCBCCCCVSCSSCSSCCVCCCCCSSSS------- ------GSCYCHSCCYVCCYCCCCCCSSCCCCCSSC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C008 Combined Motif Original Motif Original Motif SSCCBCSSCBCCSCCBSCCBCCCCCCSSCCCCCSSC SSCCSSCCCCSSCCSS SSCCBCSSCCCSSCCCCCCCCSCCCCSSCCCCCSSC Direction: Forward Position #: 8 Overlap #: 16 Alignment: SSCCBCSSCBCCSCCBSCCBCCCCCCSSCCCCCSSC -------SSCCSSCCCCSSCCSS------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 104 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C104 C023 Reverse Complement Reverse Complement SSGGHGGGGKGGSS SSGGSGDBGSGGSS SSGGSGGGGGGGSS Direction: Forward Position #: 1 Overlap #: 14 Alignment: SSGGHGGGGKGGSS SSGGSGDBGSGGSS ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif C008 Reverse Complement Original Motif SSCCCCCCCSCCSS SSCCSSCCCCSSCCSS SSCCCSCCCCSSCCSS Direction: Forward Position #: 2 Overlap #: 14 Alignment: -SSCCCCCCCSCCSS- SSCCSSCCCCSSCCSS ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif C054 Original Motif Original Motif SSCCCSCCCCSSCCSS SSCCDCCCCCCCSS SSCCVCCCCCVCCSSS Direction: Forward Position #: 1 Overlap #: 14 Alignment: SSCCCSCCCCSSCCSS SSCCDCCCCCCCSS-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C004 Combined Motif Original Motif Original Motif SSCCVCCCCCVCCSSS SSSSSCSSSSSCCSSSSCCSCSSSSSS SSCCSCCCCCSCCSSSSCCSCSSSSSS Direction: Forward Position #: 1 Overlap #: 16 Alignment: SSCCVCCCCCVCCSSS----------- SSSSSCSSSSSCCSSSSCCSCSSSSSS ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C037 Combined Motif Original Motif Original Motif SSCCSCCCCCSCCSSSSCCSCSSSSSS SVCCGBCMCCSYCMCCVB SSCCSSSCCSSCCCCSSCMSCSSSSSS Direction: Forward Position #: 6 Overlap #: 18 Alignment: SSCCSCCCCCSCCSSSSCCSCSSSSSS -----SVCCGBCMCCSYCMCCVB---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 18 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C018 C024 Reverse Complement Reverse Complement THTTTTTTTMYTT THTTDMWTTTTWKMTTDA ATMTTTTTTTMTTDTHTT Direction: Backward Position #: 2 Overlap #: 13 Alignment: ----THTTTTTTTMYTT- THTTDMWTTTTWKMTTDA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif C033 Reverse Complement Original Motif AAHADAAYAAAAAAAYAT WWAAWYAAAMRWAAAW WWAAAYAAAMDAAAAAAAYAT Direction: Forward Position #: 4 Overlap #: 13 Alignment: ---AAHADAAYAAAAAAAYAT WWAAWYAAAMRWAAAW----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif C010 Original Motif Original Motif WWAAAYAAAMDAAAAAAAYAT WWWAAAAWWAAAAAAAAAAWW WWAAAHAWAAAAAAAAAAWWW Direction: Forward Position #: 1 Overlap #: 21 Alignment: WWAAAYAAAMDAAAAAAAYAT WWWAAAAWWAAAAAAAAAAWW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif C131 Reverse Complement Reverse Complement WWWTTTTTTTTTTWTHTTTWW WWTTHBKTTDTTWW WWTTTTTTTTTTWWTHTTTWW Direction: Forward Position #: 1 Overlap #: 14 Alignment: WWWTTTTTTTTTTWTHTTTWW WWTTHBKTTDTTWW------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif C030 Reverse Complement Original Motif WWAAAHAWWAAAAAAAAAAWW WYAAAAAMAAAAAAAAWAM WHAAAAAAAAAAAAAAWAAWW Direction: Forward Position #: 1 Overlap #: 19 Alignment: WWAAAHAWWAAAAAAAAAAWW WYAAAAAMAAAAAAAAWAM-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 65 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C065 C007 Reverse Complement Reverse Complement YSTRGAWCTCASR SAGGCTGYCCTVGAACTCASAAY SAGGCTGYCCTRGAACTCASRAY Direction: Forward Position #: 9 Overlap #: 13 Alignment: --------YSTRGAWCTCASR-- SAGGCTGYCCTVGAACTCASAAY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif C040 Original Motif Reverse Complement SAGGCTGYCCTRGAACTCASRAY KCTGMSKTYGAMSTCASM KCTGAGGYTGHMCTCRRMCTCASRAY Direction: Forward Position #: 4 Overlap #: 15 Alignment: ---SAGGCTGYCCTRGAACTCASRAY KCTGMSKTYGAMSTCASM-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif C013 Reverse Complement Reverse Complement KTKSTGAGYKKGAGRHCAMCCTCAGY YCCTGGTCTACADAGTGAGTTCCAGVW YCCTGGTYYWSAGWGTGAGKTCMASSWCAGY Direction: Forward Position #: 6 Overlap #: 22 Alignment: -----KTKSTGAGYKKGAGRHCAMCCTCAGY YCCTGGTCTACADAGTGAGTTCCAGVW---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif C036 Reverse Complement Original Motif KCTGWSSTRGARCTCACWCTSWMKACCAGGM MKAGMKMGAGAKMKAGMK VBWGMBVBRGADCTMRCDCTSWMKACCAGGM Direction: Forward Position #: 1 Overlap #: 18 Alignment: KCTGWSSTRGARCTCACWCTSWMKACCAGGM MKAGMKMGAGAKMKAGMK------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C132 Combined Motif Original Motif Original Motif VBWGMBVBRGADCTMRCDCTSWMKACCAGGM WCAGRGWGAGAWCYAGGW DCAGVGHGAGADCTAGSDCTSWMKACCAGGM Direction: Forward Position #: 1 Overlap #: 18 Alignment: VBWGMBVBRGADCTMRCDCTSWMKACCAGGM WCAGRGWGAGAWCYAGGW------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 84 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C084 C076 Original Motif Original Motif SCTGCMKCTGCVB ASCTRCCTCYBCSB SCTGCCKCYGCSBA Direction: Backward Position #: 1 Overlap #: 13 Alignment: -SCTGCMKCTGCVB ASCTRCCTCYBCSB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif C075 Original Motif Reverse Complement SCTGCCKCYGCSBA YGSCTGCSYCTGCCY YGSCTGCCTCTGCCHA Direction: Forward Position #: 3 Overlap #: 13 Alignment: --SCTGCCKCYGCSBA YGSCTGCSYCTGCCY- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C118 Combined Motif Reverse Complement Original Motif THGGCAGAGGCAGSCK GMCTGCSWSTGCCKC THGVCWGMSDCWGCCKC Direction: Forward Position #: 3 Overlap #: 14 Alignment: THGGCAGAGGCAGSCK- --GMCTGCSWSTGCCKC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif C106 Reverse Complement Reverse Complement GRGGCWGHSRCWGVCHA RSTGCCWCTGCSY RSDGSCWSHGSCHGVCHA Direction: Forward Position #: 2 Overlap #: 12 Alignment: -GRGGCWGHSRCWGVCHA RSTGCCWCTGCSY----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif C060 Original Motif Reverse Complement RSDGSCWSHGSCHGVCHA SYTGCCYYTGCCYS VBTGCCYCTGCCYSVCHA Direction: Forward Position #: 1 Overlap #: 14 Alignment: RSDGSCWSHGSCHGVCHA SYTGCCYYTGCCYS---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ******************************************************* Combined Motifs for Top Global and Local Significant Motif ID 54 and Its Best Matches ****************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C054 C003 Original Motif Original Motif SSCCDCCCCCCCSS GSCYCHSCCYVCCYCCCCCCSSCCCCCSSC CCCCVCCCCCCCSCGSCYCHSCCYVCCYCC Direction: Backward Position #: 1 Overlap #: 14 Alignment: ----------------SSCCDCCCCCCCSS GSCYCHSCCYVCCYCCCCCCSSCCCCCSSC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C023 Combined Motif Original Motif Original Motif CCCCVCCCCCCCSCGSCYCHSCCYVCCYCC SSCCSCBHCSCCSS CCCCVCCCCCSCSCBSCCCBSCCYVCCYCC Direction: Forward Position #: 7 Overlap #: 14 Alignment: CCCCVCCCCCCCSCGSCYCHSCCYVCCYCC ------SSCCSCBHCSCCSS---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C008 Combined Motif Original Motif Original Motif CCCCVCCCCCSCSCBSCCCBSCCYVCCYCC SSCCSSCCCCSSCCSS CCCCSSCCCCCCCCSSCCSSSCCYVCCYCC Direction: Forward Position #: 5 Overlap #: 16 Alignment: CCCCVCCCCCSCSCBSCCCBSCCYVCCYCC ----SSCCSSCCCCSSCCSS---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- C104 Combined Motif Original Motif Original Motif CCCCSSCCCCCCCCSSCCSSSCCYVCCYCC SSCCYCCCCDCCSS CCCCSSSSCCCCCCVVCCSSSCCYVCCYCC Direction: Forward Position #: 7 Overlap #: 14 Alignment: CCCCSSCCCCCCCCSSCCSSSCCYVCCYCC ------SSCCYCCCCDCCSS---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif C004 Original Motif Original Motif CCCCSSSSCCCCCCVVCCSSSCCYVCCYCC SSSSSCSSSSSCCSSSSCCSCSSSSSS SSSSSCCCCSSCCCCCCCCBSCCSSSSCYVCCYCC Direction: Forward Position #: 6 Overlap #: 22 Alignment: -----CCCCSSSSCCCCCCVVCCSSSCCYVCCYCC SSSSSCSSSSSCCSSSSCCSCSSSSSS-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Results created by MOTIFSIM on 11-19-2016 22:04:18 Runtime: 1193.59 seconds MOTIFSIM is written by Ngoc Tam L. 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