**************************************************************************************************************************************************************************************************** MOTIFSIM - Motif Similarity Detection Tool Version 2.2 **************************************************************************************************************************************************************************************************** INPUT **************************************************************************************************************************************************************************************************** Input Parameters Number of files: 4 Number of top significant motifs: 10 Number of best matches: 5 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 # DREME_DM01.txt 51 1 MEME-CHIP_DM01.txt 9 2 PScanChIP_DM01.txt 27 3 RSAT_peak-motifs_DM01.txt 40 4 **************************************************************************************************************************************************************************************************** RESULTS **************************************************************************************************************************************************************************************************** *************************************************************** Combined Motifs for Top Best Match 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 Motif 60 Original Motif Original Motif AAAAAMAA AADAAAAMAAAAAM AAAAAAAMAAAAAM Direction: Forward Position #: 3 Overlap #: 8 Alignment: --AAAAAMAA---- AADAAAAMAAAAAM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 5 Original Motif Original Motif AAAAAAAMAAAAAM AAASAAAA AAAVAAAAAAAAAM Direction: Forward Position #: 1 Overlap #: 8 Alignment: AAAAAAAMAAAAAM AAASAAAA------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaCAAAAACaa Reverse Complement Reverse Complement YTTTTTTTTTBTTT HHGTTTTTGHH TTKTTTTTKTBTTT Direction: Forward Position #: 1 Overlap #: 11 Alignment: YTTTTTTTTTBTTT HHGTTTTTGHH--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- FOXI1 Combined Motif Reverse Complement Reverse Complement AAAVAYAAAAAYAA AAAMAAAMADBY AAAAAMAAAAABVH Direction: Forward Position #: 3 Overlap #: 12 Alignment: AAAVAYAAAAAYAA --AAAMAAAMADBY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif awAACAcAAwa Reverse Complement Reverse Complement HBVTTTTTRTTTTT BDTTGTGTTDD HHTTBTKTTTDTTT Direction: Forward Position #: 1 Overlap #: 11 Alignment: HBVTTTTTRTTTTT BDTTGTGTTDD--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwATkTTTAww Original Motif Original Motif HHTTBTKTTTDTTT DHATKTTTAHH HHATKTTTWHDTTT Direction: Forward Position #: 1 Overlap #: 11 Alignment: HHTTBTKTTTDTTT DHATKTTTAHH--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match 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 58 Reverse Complement Reverse Complement GTGTGTGT TGTGTGTGTGTGTG TGTGTGTGTGTGTG Direction: Forward Position #: 6 Overlap #: 8 Alignment: -----GTGTGTGT- TGTGTGTGTGTGTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- yaCATAYACay Combined Motif Reverse Complement Original Motif CACACACACACACA HVCATACACAH CACACAYACACACA Direction: Forward Position #: 3 Overlap #: 11 Alignment: CACACACACACACA --HVCATACACAH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 12 Original Motif Original Motif CACACAYACACACA GCACACAY GCACACAYACACACA Direction: Forward Position #: 2 Overlap #: 7 Alignment: -CACACAYACACACA GCACACAY------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 21 Original Motif Original Motif GCACACAYACACACA AAACAAAC RMACAMACACACACA Direction: Forward Position #: 1 Overlap #: 8 Alignment: GCACACAYACACACA AAACAAAC------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 37 Original Motif Reverse Complement RMACAMACACACACA KCACATKC GCACATRCACACACA Direction: Forward Position #: 1 Overlap #: 8 Alignment: RMACAMACACACACA KCACATKC------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match 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 Motif 1 Original Motif Original Motif AWATAMA AAAAAMAA AAAAWAMA Direction: Backward Position #: 2 Overlap #: 7 Alignment: AWATAMA- AAAAAMAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 49 Reverse Complement Reverse Complement TYTWTTTT KTTTATCT TTTTWTYT Direction: Forward Position #: 1 Overlap #: 8 Alignment: TYTWTTTT KTTTATCT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXI1 Reverse Complement Reverse Complement AKAWAAAA AAAMAAAMADBY ADAHAAAAADBY Direction: Forward Position #: 1 Overlap #: 8 Alignment: AKAWAAAA---- AAAMAAAMADBY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 60 Combined Motif Reverse Complement Reverse Complement KBDTTTTTHTDT YTTTTTRTTTTDTT KBBTTTTTDTTTTDTT Direction: Forward Position #: 3 Overlap #: 10 Alignment: KBDTTTTTHTDT---- --YTTTTTRTTTTDTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ymTACATAyw Reverse Complement Original Motif AADAAAADAAAAAVBY HHTACATABD HAWAMAWADAAAAAVBY Direction: Forward Position #: 2 Overlap #: 9 Alignment: -AADAAAADAAAAAVBY HHTACATABD------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match 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 dyCTGCyTCyc Original Motif Reverse Complement GAGRMAGR BHGAKGCAGHH HGAGGCAGRBH Direction: Backward Position #: 2 Overlap #: 8 Alignment: --GAGRMAGR- BHGAKGCAGHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif htCTGyKTCbt Original Motif Reverse Complement HGAGGCAGRBH HVGAAMCAGVH HHGARRCAGVBH Direction: Forward Position #: 2 Overlap #: 10 Alignment: -HGAGGCAGRBH HVGAAMCAGVH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ctGAGTkTGAgg Reverse Complement Reverse Complement HBBCTGKMTCDH HHTCARACTCVV HHTCWRDCTCDD Direction: Forward Position #: 1 Overlap #: 12 Alignment: HBBCTGKMTCDH HHTCARACTCVV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ctGAGTCATCkb Original Motif Reverse Complement HHTCWRDCTCDD BHGATGACTCDD HHKMTGACTCDD Direction: Forward Position #: 1 Overlap #: 12 Alignment: HHTCWRDCTCDD BHGATGACTCDD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 18 Combined Motif Original Motif Reverse Complement HHKMTGACTCDD TCTCTMKC HHTCTSWCTCDD Direction: Forward Position #: 3 Overlap #: 8 Alignment: HHKMTGACTCDD --TCTCTMKC-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match 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 Motif 60 Original Motif Original Motif AAASAAAA AADAAAAMAAAAAM AADAAAASAAAAAM Direction: Forward Position #: 5 Overlap #: 8 Alignment: ----AAASAAAA-- AADAAAAMAAAAAM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 1 Original Motif Original Motif AADAAAASAAAAAM AAAAAMAA AAAAAAAAAAAAAM Direction: Forward Position #: 1 Overlap #: 8 Alignment: AADAAAASAAAAAM AAAAAMAA------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- aaACAAAACaa Combined Motif Original Motif Original Motif AAAAAAAAAAAAAM AAACAAAACHV AAAAAMAAAAMAAM Direction: Forward Position #: 3 Overlap #: 11 Alignment: AAAAAAAAAAAAAM --AAACAAAACHV- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 21 Original Motif Original Motif AAAAAMAAAAMAAM AAACAAAC AAAMAAAMAAMAAM Direction: Forward Position #: 1 Overlap #: 8 Alignment: AAAAAMAAAAMAAM AAACAAAC------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Foxd3 Combined Motif Reverse Complement Original Motif YTTRTTRTTTRTTT GAWTGTTTDTTT YTDATTRTTTRTTT Direction: Forward Position #: 3 Overlap #: 12 Alignment: YTTRTTRTTTRTTT --GAWTGTTTDTTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match 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 Motif 22 Original Motif Reverse Complement CCCASCMC MCCACCAC CCCACCAC Direction: Backward Position #: 1 Overlap #: 8 Alignment: CCCASCMC MCCACCAC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ysCmAGCACwy Original Motif Original Motif CCCACCAC HVCMAGCACHH HCCCASCACHH Direction: Forward Position #: 2 Overlap #: 8 Alignment: -CCCACCAC-- HVCMAGCACHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ccCCmCaCCCCcc Reverse Complement Reverse Complement DHGTGSTGGGH DBGGGGTGGGGBD DVGKGGTGGGGBD Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHGTGSTGGGH-- DBGGGGTGGGGBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 42 Combined Motif Original Motif Reverse Complement DVGKGGTGGGGBD GTTCTKGG DVGTKSTGGGGBD Direction: Forward Position #: 3 Overlap #: 8 Alignment: DVGKGGTGGGGBD --GTTCTKGG--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cmCARCACTwr Original Motif Reverse Complement DVGTKSTGGGGBD VHAGTGCTGHB VDAGTGCTGGGGBD Direction: Forward Position #: 2 Overlap #: 10 Alignment: -DVGTKSTGGGGBD VHAGTGCTGHB--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match 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 Motif 58 Reverse Complement Reverse Complement TSTSTGTG TGTGTGTGTGTGTG TGTGTGTGTSTGTG Direction: Forward Position #: 7 Overlap #: 8 Alignment: ------TSTSTGTG TGTGTGTGTGTGTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 41 Reverse Complement Original Motif CACASACACACACA CTCAGARA CWCAGAVACACACA Direction: Forward Position #: 1 Overlap #: 8 Alignment: CACASACACACACA CTCAGARA------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yaCATAYACay Original Motif Original Motif CWCAGAVACACACA HVCATACACAH CWCAKACACACACA Direction: Forward Position #: 1 Overlap #: 11 Alignment: CWCAGAVACACACA HVCATACACAH--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yrCACATGCATGTGyr Original Motif Original Motif CWCAKACACACACA HVCACATGCATGTGBD HDCAYAYRCAYRYRBD Direction: Forward Position #: 1 Overlap #: 14 Alignment: CWCAKACACACACA-- HVCACATGCATGTGBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif awAACAcAAwa Original Motif Original Motif HDCAYAYRCAYRYRBD DDAACACAADV HDMACAHAMAHRYRBD Direction: Forward Position #: 1 Overlap #: 11 Alignment: HDCAYAYRCAYRYRBD DDAACACAADV----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match 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 sgArGCCACg Reverse Complement Original Motif KAKGCCAG SGARGCCACG SKAGGCCASG Direction: Forward Position #: 2 Overlap #: 8 Alignment: -KAKGCCAG- SGARGCCACG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cgAKGyCAcg Original Motif Original Motif SKAGGCCASG CGAGGYCACV VGAGGCCASG Direction: Forward Position #: 1 Overlap #: 10 Alignment: SKAGGCCASG CGAGGYCACV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 27 Original Motif Reverse Complement VGAGGCCASG KRAGGCAG BRAGGCMRSG Direction: Forward Position #: 1 Overlap #: 8 Alignment: VGAGGCCASG KRAGGCAG-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 31 Combined Motif Original Motif Reverse Complement BRAGGCMRSG GAGSWCAG BGAGGYCAGG Direction: Forward Position #: 2 Overlap #: 8 Alignment: BRAGGCMRSG -GAGSWCAG- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 11 Original Motif Original Motif BGAGGYCAGG CTGDGTTC CTGAGKTCAGG Direction: Forward Position #: 2 Overlap #: 7 Alignment: -BGAGGYCAGG CTGDGTTC--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 9 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 9 wtTTTwAAAaw Original Motif Original Motif TTTWWAAA HHTTTWAAADD HTTTTWAAADD Direction: Forward Position #: 2 Overlap #: 8 Alignment: -TTTWWAAA-- HHTTTWAAADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwATkTTTAww Original Motif Reverse Complement HTTTTWAAADD HHTAAARATHD HTTWWAAAWHD Direction: Forward Position #: 1 Overlap #: 11 Alignment: HTTTTWAAADD HHTAAARATHD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TBP Original Motif Original Motif HTTWWAAAWHD STATAAAWRVVVVBV VTWTAAAADVVVVBV Direction: Forward Position #: 1 Overlap #: 11 Alignment: HTTWWAAAWHD---- STATAAAWRVVVVBV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif MEF2A Original Motif Reverse Complement VTWTAAAADVVVVBV CTAWAAATAG CTATAAAWAGVVVBV Direction: Forward Position #: 1 Overlap #: 10 Alignment: VTWTAAAADVVVVBV CTAWAAATAG----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wtATTTTAww Original Motif Reverse Complement CTATAAAWAGVVVBV HWTAAAATHD HTWWAAATADVVVBV Direction: Forward Position #: 1 Overlap #: 10 Alignment: CTATAAAWAGVVVBV HWTAAAATHD----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 10 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 10 ymTACATAyw Original Motif Original Motif HTACATA HHTACATABD BDHTACATAH Direction: Backward Position #: 3 Overlap #: 7 Alignment: -HTACATA-- HHTACATABD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NKX3-1 Reverse Complement Original Motif HTATGTAHDB ATACTTA DTAYKTAHDB Direction: Forward Position #: 1 Overlap #: 7 Alignment: HTATGTAHDB ATACTTA--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif awAACAcAAwa Reverse Complement Reverse Complement BDHTAYMTAD BDTTGTGTTDD BDTTRTRTWDD Direction: Forward Position #: 1 Overlap #: 10 Alignment: BDHTAYMTAD- BDTTGTGTTDD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXL1 Reverse Complement Original Motif DDWAMAKAADV WHDAHATA DHWAVATAADV Direction: Forward Position #: 1 Overlap #: 8 Alignment: DDWAMAKAADV WHDAHATA--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwATkTTTAww Original Motif Reverse Complement DHWAVATAADV HHTAAARATHD DHTAAADAWHD Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHWAVATAADV HHTAAARATHD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 11 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 11 Motif 31 Original Motif Original Motif CTGDGTTC CTGWSCTC CTGWGYTC Direction: Forward Position #: 1 Overlap #: 8 Alignment: CTGDGTTC CTGWSCTC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 12 Original Motif Reverse Complement CTGWGYTC MTGTGTGC CTGTGTKC Direction: Forward Position #: 1 Overlap #: 8 Alignment: CTGWGYTC MTGTGTGC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 27 Original Motif Original Motif CTGTGTKC CTGCCTKY CTGYSTKC Direction: Forward Position #: 1 Overlap #: 8 Alignment: CTGTGTKC CTGCCTKY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 8 Original Motif Original Motif CTGYSTKC CTGGCYTY CTGGCYTY Direction: Forward Position #: 1 Overlap #: 8 Alignment: CTGYSTKC CTGGCYTY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- awAACAcAAwa Combined Motif Reverse Complement Original Motif KAMGCCAG DDAACACAADV CAGDAARCDDAACA Direction: Backward Position #: 4 Overlap #: 5 Alignment: ------KAMGCCAG ---DDAACACAADV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 12 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 12 Motif 2 Original Motif Original Motif GCACACAY ACACACAC RCACACAC Direction: Forward Position #: 1 Overlap #: 8 Alignment: GCACACAY ACACACAC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 58 Reverse Complement Reverse Complement GTGTGTGK TGTGTGTGTGTGTG TGTGTGTGTGTGTG Direction: Forward Position #: 2 Overlap #: 8 Alignment: -GTGTGTGK----- TGTGTGTGTGTGTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 11 Original Motif Original Motif TGTGTGTGTGTGTG CTGDGTTC CTGTGTKYGTGTGTG Direction: Forward Position #: 2 Overlap #: 7 Alignment: -TGTGTGTGTGTGTG CTGDGTTC------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yvTGCAGsCAcg Original Motif Reverse Complement CTGTGTKYGTGTGTG VBTGSCTGCAVB VCTGBSTGCRBGTGTG Direction: Forward Position #: 2 Overlap #: 11 Alignment: -CTGTGTKYGTGTGTG VBTGSCTGCAVB---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 37 Reverse Complement Reverse Complement CACACVMGCASBCAGV KCACATKC KCACATDCGCASBCAGV Direction: Forward Position #: 2 Overlap #: 7 Alignment: -CACACVMGCASBCAGV KCACATKC--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 13 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 13 Motif 17 Original Motif Original Motif GGAAGSAR GGGAGGRR GGRAGGAR Direction: Backward Position #: 1 Overlap #: 8 Alignment: GGAAGSAR GGGAGGRR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dyCTGCyTCyc Original Motif Reverse Complement GGRAGGAR BHGAKGCAGHH BGGARGSAGHH Direction: Forward Position #: 2 Overlap #: 8 Alignment: -GGRAGGAR-- BHGAKGCAGHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 26 Reverse Complement Reverse Complement DHCTSCKTCCB TTTCKTCK TTTCTKCKTCCB Direction: Forward Position #: 2 Overlap #: 7 Alignment: -DHCTSCKTCCB TTTCKTCK---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif htCTGyKTCbt Reverse Complement Reverse Complement BGGARGRAGAAA HVGAAMCAGVH DVGAARCAGAHA Direction: Forward Position #: 1 Overlap #: 11 Alignment: BGGARGRAGAAA HVGAAMCAGVH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 27 Reverse Complement Original Motif THTCTGMTTCVH CTGCCTKY CTGCCTKCTTCVH Direction: Forward Position #: 2 Overlap #: 7 Alignment: -THTCTGMTTCVH CTGCCTKY----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 14 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 14 wtATTTTAww Original Motif Reverse Complement KAAAATR HWTAAAATHD DTAAAATRHW Direction: Backward Position #: 2 Overlap #: 7 Alignment: --KAAAATR- HWTAAAATHD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwATkTTTAww Reverse Complement Original Motif WHKATTTTAD DHATKTTTAHH HHAWTTTTAHH Direction: Forward Position #: 1 Overlap #: 10 Alignment: WHKATTTTAD- DHATKTTTAHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 44 Combined Motif Original Motif Reverse Complement HHAWTTTTAHH CATTTCT HCATTTYTAHH Direction: Forward Position #: 2 Overlap #: 7 Alignment: HHAWTTTTAHH -CATTTCT--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif SOX9 Original Motif Reverse Complement HCATTTYTAHH CMATTGTTH HCATTKTTAHH Direction: Forward Position #: 1 Overlap #: 9 Alignment: HCATTTYTAHH CMATTGTTH-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaCAAAAACaa Original Motif Reverse Complement HCATTKTTAHH HHGTTTTTGHH HHRTTTTTRHH Direction: Forward Position #: 1 Overlap #: 11 Alignment: HCATTKTTAHH HHGTTTTTGHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 15 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 15 Motif 51 Original Motif Original Motif AGCCCWGG AGAGCWGG AGMSCWGG Direction: Forward Position #: 1 Overlap #: 8 Alignment: AGCCCWGG AGAGCWGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cgCCCwGGScsg Original Motif Original Motif AGMSCWGG VDCCCWGGGCBB AGCSCWGGGCBB Direction: Forward Position #: 1 Overlap #: 8 Alignment: AGMSCWGG---- VDCCCWGGGCBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- hsCCAGGCCTGGsr Combined Motif Original Motif Original Motif AGCSCWGGGCBB HVCCAGGCCTGGBD AVCCCAGGSCTGGBD Direction: Forward Position #: 2 Overlap #: 11 Alignment: AGCSCWGGGCBB--- -HVCCAGGCCTGGBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cswGGGCCCwsg Reverse Complement Original Motif HBCCAGSCCTGGGVT VVWGGGCCCWBB HVHSGGCCCTGGGVT Direction: Forward Position #: 1 Overlap #: 12 Alignment: HBCCAGSCCTGGGVT VVWGGGCCCWBB--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif rryCAGGGAyw Reverse Complement Original Motif AVCCCAGGGCCSDVD DDYCAGGGAHD VDYCMRGGRCVSDVD Direction: Forward Position #: 1 Overlap #: 11 Alignment: AVCCCAGGGCCSDVD DDYCAGGGAHD---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 16 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 16 ctGAGTCATCkb Original Motif Original Motif GAGCCATC HDGAGTCATCDB DBGAGYCATCHD Direction: Backward Position #: 3 Overlap #: 8 Alignment: --GAGCCATC-- HDGAGTCATCDB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 4 Combined Motif Reverse Complement Reverse Complement DDGATGKCTCBH KCTRMCTC DDGMTGVCTCBH Direction: Forward Position #: 3 Overlap #: 8 Alignment: DDGATGKCTCBH --KCTRMCTC-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dyCTGCyTCyc Reverse Complement Reverse Complement DBGAGVCARCHD BHGAKGCAGHH DHGAGGCAGCHD Direction: Forward Position #: 1 Overlap #: 11 Alignment: DBGAGVCARCHD BHGAKGCAGHH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cswGGGCCCwsg Reverse Complement Reverse Complement DDGCTGCCTCHH BBWGGGCCCWVV VBDSKGCCYYVB Direction: Forward Position #: 1 Overlap #: 12 Alignment: DDGCTGCCTCHH BBWGGGCCCWVV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif sgArGCCACg Reverse Complement Original Motif BVKMGGCRSDBV SGARGCCACG VVARGSCACDBV Direction: Forward Position #: 1 Overlap #: 10 Alignment: BVKMGGCRSDBV SGARGCCACG-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 17 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 17 Motif 13 Original Motif Original Motif GGGAGGRR GGAAGSAR GGRAGGAR Direction: Backward Position #: 1 Overlap #: 8 Alignment: GGGAGGRR GGAAGSAR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ccCCmCaCCCCcc Reverse Complement Original Motif MTCCTKCC HBCCCCACCCCBH HMYCCYDCCCCBH Direction: Forward Position #: 2 Overlap #: 8 Alignment: -MTCCTKCC---- HBCCCCACCCCBH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif csCCaGCTCCCgs Reverse Complement Reverse Complement DBGGGGDMGGKRD BVGGGAGCTGGBB BBGGGRGCDGGVB Direction: Forward Position #: 1 Overlap #: 13 Alignment: DBGGGGDMGGKRD BVGGGAGCTGGBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cmCCACACCcm Reverse Complement Original Motif BVCCHGCMCCCBB HVCCACACCBV HVCCMSMCCCCBB Direction: Forward Position #: 1 Overlap #: 11 Alignment: BVCCHGCMCCCBB HVCCACACCBV-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif graGGGGGArr Original Motif Reverse Complement HVCCMSMCCCCBB HDTCCCCCTVH HHYCCCCCYVVBB Direction: Forward Position #: 1 Overlap #: 11 Alignment: HVCCMSMCCCCBB HDTCCCCCTVH-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 18 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 18 Motif 4 Original Motif Original Motif GRRAGAGA GAGRMAGR GAGASAGA Direction: Forward Position #: 1 Overlap #: 8 Alignment: GRRAGAGA GAGRMAGR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif htCTGyKTCbt Original Motif Reverse Complement GAGASAGA HVGAAMCAGVH GAGARASAGVH Direction: Forward Position #: 1 Overlap #: 8 Alignment: GAGASAGA--- HVGAAMCAGVH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 17 Original Motif Original Motif GAGARASAGVH GGGAGGRR GGGAGRGRGVH Direction: Forward Position #: 1 Overlap #: 8 Alignment: GAGARASAGVH GGGAGGRR--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 59 Reverse Complement Original Motif HBCKCMCTCCC CTBCCTCHSYCYCC CTCBCHCTCCCYCC Direction: Forward Position #: 1 Overlap #: 11 Alignment: HBCKCMCTCCC--- CTBCCTCHSYCYCC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 19 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 19 Motif 42 Original Motif Original Motif CCTGGARC CCYAGAAC CCTRGAAC Direction: Forward Position #: 1 Overlap #: 8 Alignment: CCTGGARC CCYAGAAC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR1H2RXRA Reverse Complement Original Motif GTTCKAGG AAAGGTCAAAGGTCAAC AAAGKTCDARGGTCAAC Direction: Forward Position #: 4 Overlap #: 8 Alignment: ---GTTCKAGG------ AAAGGTCAAAGGTCAAC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 20 Combined Motif Original Motif Original Motif AAAGKTCDARGGTCAAC ATTAMAGG AAARTTMAAGGGTCAAC Direction: Forward Position #: 4 Overlap #: 8 Alignment: AAAGKTCDARGGTCAAC ---ATTAMAGG------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ssCkGGYCCCsg Reverse Complement Original Motif GTTGACCCTTYAAKTTT BBCKGGCCCCVV BGYTGRCCCYBBAAKTTT Direction: Forward Position #: 2 Overlap #: 11 Alignment: -GTTGACCCTTYAAKTTT BBCKGGCCCCVV------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 15 Combined Motif Reverse Complement Original Motif AAAYTTBVMGGGKCAKCB AGCCCWGG AAAYTTBVMGGGKCAGCCCWGG Direction: Forward Position #: 15 Overlap #: 4 Alignment: AAAYTTBVMGGGKCAKCB---- --------------AGCCCWGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 20 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 20 NR1H2RXRA Reverse Complement Reverse Complement CCTYTAAT GTTGACCTTTGACCTTT GTTGACCTTTRAYCTTT Direction: Forward Position #: 6 Overlap #: 8 Alignment: -----CCTYTAAT---- GTTGACCTTTGACCTTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 19 Original Motif Original Motif GTTGACCTTTRAYCTTT CCTGGARC CCTKGAMCTTTRAYCTTT Direction: Forward Position #: 2 Overlap #: 7 Alignment: -GTTGACCTTTRAYCTTT CCTGGARC---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Lhx3 Reverse Complement Reverse Complement AAAGMTKAAAGRTCYAGG BMWTAATTAATTW BMAWRATTAAWKDTCYAGG Direction: Forward Position #: 2 Overlap #: 12 Alignment: -AAAGMTKAAAGRTCYAGG BMWTAATTAATTW------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR2F1 Combined Motif Original Motif Reverse Complement BMAWRATTAAWKDTCYAGG AKGYYCAAAGRTCA BMADGHTYAAAGRTCHAGG Direction: Forward Position #: 3 Overlap #: 14 Alignment: BMAWRATTAAWKDTCYAGG --AKGYYCAAAGRTCA--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwATkTTTAww Original Motif Original Motif BMADGHTYAAAGRTCHAGG DHATKTTTAHH DHATKTTTAAWGRTCHAGG Direction: Forward Position #: 1 Overlap #: 11 Alignment: BMADGHTYAAAGRTCHAGG DHATKTTTAHH-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 21 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 21 Motif 60 Original Motif Original Motif AAACAAAC AADAAAAMAAAAAM AADAAAACAAAMAM Direction: Forward Position #: 5 Overlap #: 8 Alignment: ----AAACAAAC-- AADAAAAMAAAAAM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXI1 Original Motif Reverse Complement AADAAAACAAAMAM AAAMAAAMADBY AAAMAAACAAAMAM Direction: Forward Position #: 1 Overlap #: 12 Alignment: AADAAAACAAAMAM AAAMAAAMADBY-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 5 Original Motif Original Motif AAAMAAACAAAMAM AAASAAAA AAAVAAAMAAAMAM Direction: Forward Position #: 1 Overlap #: 8 Alignment: AAAMAAACAAAMAM AAASAAAA------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Foxd3 Original Motif Reverse Complement AAAVAAAMAAAMAM AAAHAAACAWTC AAAVAAAMAWWCAM Direction: Forward Position #: 1 Overlap #: 12 Alignment: AAAVAAAMAAAMAM AAAHAAACAWTC-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- aaACAAAACaa Combined Motif Original Motif Original Motif AAAVAAAMAWWCAM AAACAAAACHV AAAVAMAAAACHAM Direction: Forward Position #: 3 Overlap #: 11 Alignment: AAAVAAAMAWWCAM --AAACAAAACHV- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 22 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 22 Motif 6 Original Motif Reverse Complement GTGGTGGY GYGSTGGG GTGGTGGK Direction: Backward Position #: 1 Overlap #: 8 Alignment: GTGGTGGY GYGSTGGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ysCmAGCACwy Reverse Complement Original Motif YCCACCAC HVCMAGCACHH HBCCASCACHH Direction: Forward Position #: 2 Overlap #: 8 Alignment: -YCCACCAC-- HVCMAGCACHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cmCARCACTwr Reverse Complement Reverse Complement DHGTGSTGGBH VHAGTGCTGHB VDAGTGCTGGBH Direction: Forward Position #: 2 Overlap #: 10 Alignment: -DHGTGSTGGBH VHAGTGCTGHB- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif csCACCCCgg Original Motif Reverse Complement VDAGTGCTGGBH BBGGGGTGVD VBRGKGYKGGBH Direction: Forward Position #: 1 Overlap #: 10 Alignment: VDAGTGCTGGBH BBGGGGTGVD-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cmCCACACCcm Original Motif Reverse Complement VBRGKGYKGGBH VBGGTGTGGBD VBGGTGTGGBBH Direction: Forward Position #: 1 Overlap #: 11 Alignment: VBRGKGYKGGBH VBGGTGTGGBD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 23 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 23 Motif 7 Original Motif Reverse Complement MTSTGTA TSTSTGTG GYYYYKKW Direction: Backward Position #: 2 Overlap #: 7 Alignment: MTSTGTA- TSTSTGTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ymTACATAyw Original Motif Reverse Complement GYYYYKKW DBTATGTAHH DBTATGTHBBKKW Direction: Forward Position #: 6 Overlap #: 5 Alignment: -----GYYYYKKW DBTATGTAHH--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 12 Original Motif Reverse Complement DBTATGTHBBKKW MTGTGTGC MTGTRTGYHBBKKW Direction: Forward Position #: 2 Overlap #: 7 Alignment: -DBTATGTHBBKKW MTGTGTGC------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif awAACAcAAwa Original Motif Reverse Complement MTGTRTGYHBBKKW BDTTGTGTTDD HDKTRTGTTHBKKW Direction: Forward Position #: 1 Overlap #: 11 Alignment: MTGTRTGYHBBKKW BDTTGTGTTDD--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXF2 Reverse Complement Original Motif WYYVHAACAMARDH BHADSGTAAACAAD BWHHVRTAMACAADH Direction: Forward Position #: 2 Overlap #: 13 Alignment: -WYYVHAACAMARDH BHADSGTAAACAAD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 24 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 24 Motif 56 Reverse Complement Reverse Complement BCGTG TCCGTG TCCGTG Direction: Forward Position #: 2 Overlap #: 5 Alignment: -BCGTG TCCGTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ysCmAGCACwy Reverse Complement Original Motif CACGGA HVCMAGCACHH HVCAMGSACHH Direction: Forward Position #: 3 Overlap #: 6 Alignment: --CACGGA--- HVCMAGCACHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif crCGyGCRcg Original Motif Original Motif HVCAMGSACHH CGCGTGCACG HVCRYGCACDH Direction: Forward Position #: 1 Overlap #: 10 Alignment: HVCAMGSACHH CGCGTGCACG- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 12 Combined Motif Original Motif Original Motif HVCRYGCACDH GCACACAY HGCACRCAYDH Direction: Forward Position #: 2 Overlap #: 8 Alignment: HVCRYGCACDH -GCACACAY-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 7 Original Motif Original Motif HGCACRCAYDH CACASASA CRCASACAYDH Direction: Forward Position #: 1 Overlap #: 8 Alignment: HGCACRCAYDH CACASASA--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 25 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 25 wtATTTTAww Reverse Complement Reverse Complement WWTAAA HWTAAAATHD WWTAAAATHD Direction: Forward Position #: 1 Overlap #: 6 Alignment: WWTAAA---- HWTAAAATHD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwATkTTTAww Reverse Complement Original Motif DHATTTTAWW DHATKTTTAHH DHATTTTWAHH Direction: Forward Position #: 1 Overlap #: 10 Alignment: DHATTTTAWW- DHATKTTTAHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Foxq1 Original Motif Original Motif DHATTTTWAHH HATTGTTTATW HDATKTTTATW Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHATTTTWAHH HATTGTTTATW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 3 Combined Motif Reverse Complement Original Motif WATAAAYATDH AWATAMA WAWAWAYATDH Direction: Forward Position #: 2 Overlap #: 7 Alignment: WATAAAYATDH -AWATAMA--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 55 Original Motif Original Motif WAWAWAYATDH TTTAAAA TWTAAAAATDH Direction: Forward Position #: 1 Overlap #: 7 Alignment: WAWAWAYATDH TTTAAAA---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 26 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 26 Evi1 Reverse Complement Reverse Complement TTTCKTCK TBTTATCTTMTCTT CTTTWTCTTCTTBT Direction: Backward Position #: 4 Overlap #: 8 Alignment: ---TTTCKTCK--- TBTTATCTTMTCTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 13 Original Motif Reverse Complement CTTTWTCTTCTTBT MTSCTTCC CTBYTTCYTCTTBT Direction: Forward Position #: 1 Overlap #: 8 Alignment: CTTTWTCTTCTTBT MTSCTTCC------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 5 Original Motif Reverse Complement CTBYTTCYTCTTBT TTTTSTTT TYTKCTTYYTCTTBT Direction: Forward Position #: 2 Overlap #: 7 Alignment: -CTBYTTCYTCTTBT TTTTSTTT------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- aaACAAAACaa Combined Motif Original Motif Reverse Complement TYTKCTTYYTCTTBT BHGTTTTGTTT TYTGTTTTGTHTTBT Direction: Forward Position #: 2 Overlap #: 11 Alignment: TYTKCTTYYTCTTBT -BHGTTTTGTTT--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 60 Reverse Complement Original Motif ABAADACAAAACAMA AADAAAAMAAAAAM AAAAAAVMAAAMAMA Direction: Forward Position #: 1 Overlap #: 14 Alignment: ABAADACAAAACAMA AADAAAAMAAAAAM- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 27 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 27 Motif 39 Original Motif Reverse Complement CTGCCTKY CTGYCTGT CTGCCTGT Direction: Forward Position #: 1 Overlap #: 8 Alignment: CTGCCTKY CTGYCTGT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dyCTGCyTCyc Reverse Complement Reverse Complement ACAGGCAG BHGAKGCAGHH BASAGGCAGHH Direction: Forward Position #: 2 Overlap #: 8 Alignment: -ACAGGCAG-- BHGAKGCAGHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 8 Combined Motif Reverse Complement Original Motif DHCTGCCTSTB CTGGCYTY DCYKGCCTYTB Direction: Forward Position #: 2 Overlap #: 8 Alignment: DHCTGCCTSTB -CTGGCYTY-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yvTGCAGsCAcg Original Motif Reverse Complement DCYKGCCTYTB VBTGSCTGCAVB VBTGGCYKCHVB Direction: Forward Position #: 1 Overlap #: 11 Alignment: DCYKGCCTYTB- VBTGSCTGCAVB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 11 Combined Motif Original Motif Original Motif VBTGGCYKCHVB CTGDGTTC VCTGVSTTCHVB Direction: Forward Position #: 2 Overlap #: 8 Alignment: VBTGGCYKCHVB -CTGDGTTC--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 28 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 28 Motif 5 Original Motif Original Motif AVAGAAA AAASAAAA AAAAGAAA Direction: Backward Position #: 2 Overlap #: 7 Alignment: AVAGAAA- AAASAAAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 49 Reverse Complement Reverse Complement TTTCTTTT KTTTATCT TTTYWTYT Direction: Forward Position #: 1 Overlap #: 8 Alignment: TTTCTTTT KTTTATCT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 21 Original Motif Reverse Complement TTTYWTYT GTTTGTTT KTTTDTTT Direction: Forward Position #: 1 Overlap #: 8 Alignment: TTTYWTYT GTTTGTTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 18 Reverse Complement Original Motif AAAHAAAY GRRAGAGA GARABARAY Direction: Forward Position #: 2 Overlap #: 7 Alignment: -AAAHAAAY GRRAGAGA- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaACAAAACaa Original Motif Original Motif GARABARAY AAACAAAACHV GAAMAAAACHV Direction: Forward Position #: 1 Overlap #: 9 Alignment: GARABARAY-- AAACAAAACHV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 29 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 29 csCCaGCTCCCgs Reverse Complement Reverse Complement GGGGCYGG BVGGGAGCTGGBB BVGGGRGCTGGBB Direction: Forward Position #: 4 Overlap #: 8 Alignment: ---GGGGCYGG-- BVGGGAGCTGGBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cbCCAGCTCmyk Reverse Complement Original Motif BBCCAGCMCCCVB BBCCAGCTCMBD BBCCAGCYCCCBB Direction: Forward Position #: 1 Overlap #: 12 Alignment: BBCCAGCMCCCVB BBCCAGCTCMBD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ssCkGGYCCCsg Original Motif Original Motif BBCCAGCYCCCBB BBCKGGCCCCVV BBCYRGCCCCBVB Direction: Forward Position #: 1 Overlap #: 12 Alignment: BBCCAGCYCCCBB BBCKGGCCCCVV- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ccCCmCaCCCCcc Combined Motif Reverse Complement Reverse Complement BVBGGGGCKKGBB DBGGGGTGGGGBD BVVGGGGSTGGGGBD Direction: Forward Position #: 3 Overlap #: 11 Alignment: BVBGGGGCKKGBB-- --DBGGGGTGGGGBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ysCmAGCACwy Reverse Complement Original Motif HBCCCCASCCCCVVB HVCMAGCACHH HBCCMSCVCCCCVVB Direction: Forward Position #: 1 Overlap #: 11 Alignment: HBCCCCASCCCCVVB HVCMAGCACHH---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 30 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 30 Motif 47 Reverse Complement Original Motif YCMTCCTG KGCTGCTG TSCTSCTG Direction: Backward Position #: 1 Overlap #: 8 Alignment: YCMTCCTG KGCTGCTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 4 Reverse Complement Original Motif CAGSAGSA GAGRMAGR SAGGARGR Direction: Forward Position #: 1 Overlap #: 8 Alignment: CAGSAGSA GAGRMAGR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- myyCCCACmTGCmyr Combined Motif Original Motif Reverse Complement SAGGARGR VDRGCAYGTGGGGVD GRSAGGMAVDRGCAYGT Direction: Backward Position #: 3 Overlap #: 6 Alignment: ---------SAGGARGR --VDRGCAYGTGGGGVD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 31 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 31 Motif 11 Reverse Complement Reverse Complement GAGSWCAG GAACDCAG GARCWCAG Direction: Backward Position #: 1 Overlap #: 8 Alignment: GAGSWCAG GAACDCAG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 8 Reverse Complement Original Motif CTGWGKTC CTGGCYTY CTGGSBTC Direction: Forward Position #: 1 Overlap #: 8 Alignment: CTGWGKTC CTGGCYTY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cgAKGyCAcg Original Motif Reverse Complement CTGGSBTC VGTGMCCTCG VSTGVCYTCG Direction: Forward Position #: 2 Overlap #: 8 Alignment: -CTGGSBTC- VGTGMCCTCG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR1H2RXRA Original Motif Reverse Complement VSTGVCYTCG GTTGACCTTTGACCTTT SYTGACCTYTGACCTTT Direction: Forward Position #: 1 Overlap #: 10 Alignment: VSTGVCYTCG------- GTTGACCTTTGACCTTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cbCCAGCTCmyk Original Motif Reverse Complement SYTGACCTYTGACCTTT HBYGAGCTGGBB BBTGASCTKKGACCTTT Direction: Forward Position #: 1 Overlap #: 12 Alignment: SYTGACCTYTGACCTTT HBYGAGCTGGBB----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 32 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 32 cswGGGCCCwsg Original Motif Original Motif AVATGGC VVWGGGCCCWBB CCWBBAVAKGGC Direction: Backward Position #: 6 Overlap #: 7 Alignment: AVATGGC----- VVWGGGCCCWBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ctGAGTCATCkb Reverse Complement Reverse Complement GCCRTVTBBWGG BHGATGACTCDD BHGATGMCDYVBBBWGG Direction: Forward Position #: 6 Overlap #: 7 Alignment: -----GCCRTVTBBWGG BHGATGACTCDD----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR1H2RXRA Reverse Complement Reverse Complement CCWBBVVKDGRCATCDB GTTGACCTTTGACCTTT GTTGACCTTTGACCTBBVVKDGRCATCDB Direction: Forward Position #: 13 Overlap #: 5 Alignment: ------------CCWBBVVKDGRCATCDB GTTGACCTTTGACCTTT------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cbCCAGCTCmyk Reverse Complement Original Motif BHGATGMCDYVBVVAGGTCAAAGGTCAAC BBCCAGCTCMBD BBSMWGCYCMVDVVAGGTCAAAGGTCAAC Direction: Forward Position #: 1 Overlap #: 12 Alignment: BHGATGMCDYVBVVAGGTCAAAGGTCAAC BBCCAGCTCMBD----------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif myyCCCACmTGCmyr Original Motif Original Motif BBSMWGCYCMVDVVAGGTCAAAGGTCAAC HBCCCCACMTGCMHV HBSCHSMCMYGCMHDGGTCAAAGGTCAAC Direction: Forward Position #: 1 Overlap #: 15 Alignment: BBSMWGCYCMVDVVAGGTCAAAGGTCAAC HBCCCCACMTGCMHV-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 33 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 33 Motif 46 Original Motif Reverse Complement CMTTTCC TSTTTCC YVTTTCC Direction: Backward Position #: 1 Overlap #: 7 Alignment: CMTTTCC TSTTTCC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 44 Original Motif Reverse Complement YVTTTCC CATTTCT CATTTCY Direction: Forward Position #: 1 Overlap #: 7 Alignment: YVTTTCC CATTTCT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ygCTyTTCsg Reverse Complement Reverse Complement KGAAATG BCGAAMAGHH BBGAAAWGHH Direction: Forward Position #: 2 Overlap #: 7 Alignment: -KGAAATG-- BCGAAMAGHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 38 Combined Motif Original Motif Reverse Complement BBGAAAWGHH GGAGMAGG BGGARMAGGH Direction: Forward Position #: 2 Overlap #: 8 Alignment: BBGAAAWGHH -GGAGMAGG- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 13 Original Motif Original Motif BGGARMAGGH GGAAGSAR GGRAGVAGGH Direction: Forward Position #: 1 Overlap #: 8 Alignment: BGGARMAGGH GGAAGSAR-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 34 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 34 wwATkTTTAww Original Motif Original Motif ATATTTA DHATKTTTAHH HHATWTTTADH Direction: Backward Position #: 3 Overlap #: 7 Alignment: --ATATTTA-- DHATKTTTAHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF1B Reverse Complement Reverse Complement HDTAAAWATHH GTTAAWKATTAA GTTAAAKATTMA Direction: Forward Position #: 1 Overlap #: 11 Alignment: HDTAAAWATHH- GTTAAWKATTAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ymTACATAyw Original Motif Original Motif GTTAAAKATTMA HHTACATABD DHTAMATATHMA Direction: Forward Position #: 1 Overlap #: 10 Alignment: GTTAAAKATTMA HHTACATABD-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif MEF2A Original Motif Reverse Complement DHTAMATATHMA CTAWAAATAG CTATAAATAKHMA Direction: Forward Position #: 2 Overlap #: 9 Alignment: -DHTAMATATHMA CTAWAAATAG--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NKX3-1 Reverse Complement Reverse Complement TYHYTATTTATAG TAAGTAT TAAGTATTTATAG Direction: Forward Position #: 1 Overlap #: 7 Alignment: TYHYTATTTATAG TAAGTAT------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 35 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 35 ysCmAGCACwy Original Motif Reverse Complement KGCTGGS DHGTGCTRGVH DHGTGCTGGSH Direction: Forward Position #: 4 Overlap #: 7 Alignment: ---KGCTGGS- DHGTGCTRGVH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 6 Combined Motif Reverse Complement Original Motif HSCCAGCACHH CCCASCMC HCCCAGCACHH Direction: Forward Position #: 2 Overlap #: 8 Alignment: HSCCAGCACHH -CCCASCMC-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cbCCAGCTCmyk Original Motif Original Motif HCCCAGCACHH BBCCAGCTCMBD HCCCAGCWCHBD Direction: Forward Position #: 1 Overlap #: 11 Alignment: HCCCAGCACHH- BBCCAGCTCMBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cmCARCACTwr Reverse Complement Reverse Complement HBHGWGCTGGGH VHAGTGCTGHB HDAGTGCTGGBH Direction: Forward Position #: 1 Overlap #: 11 Alignment: HBHGWGCTGGGH VHAGTGCTGHB- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 22 Combined Motif Reverse Complement Reverse Complement HBCCAGCACTDD MCCACCAC HMCCASCACTDD Direction: Forward Position #: 2 Overlap #: 8 Alignment: HBCCAGCACTDD -MCCACCAC--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 36 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 36 myyCCCACmTGCmyr Original Motif Reverse Complement CATGGTGG VDRGCAYGTGGGGVD GVDCATGKKGGVDRG Direction: Backward Position #: 4 Overlap #: 8 Alignment: ----CATGGTGG--- VDRGCAYGTGGGGVD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 30 Reverse Complement Reverse Complement CMHVCCRYCATGHBC YCMTCCTG YCMTCCYGYCATGHBC Direction: Forward Position #: 2 Overlap #: 7 Alignment: -CMHVCCRYCATGHBC YCMTCCTG-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ysCmAGCACwy Combined Motif Reverse Complement Original Motif GVDCATGKCMGGARGM HVCMAGCACHH GHVCAWGSMCGBARGM Direction: Forward Position #: 2 Overlap #: 11 Alignment: GVDCATGKCMGGARGM -HVCMAGCACHH---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yrCACATGCATGTGyr Reverse Complement Original Motif YCMTBCGYSCWTGVDC HVCACATGCATGTGBD HHCAYAYGYVYDTGBDC Direction: Forward Position #: 2 Overlap #: 15 Alignment: -YCMTBCGYSCWTGVDC HVCACATGCATGTGBD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif csCACCCCgg Original Motif Original Motif HHCAYAYGYVYDTGBDC HVCACCCCBB HBCACMCSBVYDTGBDC Direction: Forward Position #: 1 Overlap #: 10 Alignment: HHCAYAYGYVYDTGBDC HVCACCCCBB------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 37 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 37 yrCACATGCATGTGyr Original Motif Original Motif GYATGTGY HVCACATGCATGTGBD HVCACATGCATGTGYD Direction: Forward Position #: 8 Overlap #: 8 Alignment: -------GYATGTGY- HVCACATGCATGTGBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif myyCCCACmTGCmyr Original Motif Reverse Complement HVCACATGCATGTGYD VDRGCAYGTGGGGVD HDVRCATGYRKGTGBD Direction: Forward Position #: 1 Overlap #: 15 Alignment: HVCACATGCATGTGYD VDRGCAYGTGGGGVD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 2 Original Motif Original Motif HDVRCATGYRKGTGBD ACACACAC ACACACAYGYRKGTGBD Direction: Forward Position #: 2 Overlap #: 7 Alignment: -HDVRCATGYRKGTGBD ACACACAC--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 58 Combined Motif Reverse Complement Reverse Complement DVCACRKMCKTGTGTGT TGTGTGTGTGTGTG KGYRYGTRYGTGTGTGT Direction: Forward Position #: 1 Overlap #: 14 Alignment: DVCACRKMCKTGTGTGT TGTGTGTGTGTGTG--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ymTACATAyw Original Motif Reverse Complement KGYRYGTRYGTGTGTGT DBTATGTAHH DVTATGTAYDTGTGTGT Direction: Forward Position #: 1 Overlap #: 10 Alignment: KGYRYGTRYGTGTGTGT DBTATGTAHH------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 38 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 38 Motif 51 Reverse Complement Original Motif GGAGMAGG AGAGCWGG RGAGCAGG Direction: Forward Position #: 1 Overlap #: 8 Alignment: GGAGMAGG AGAGCWGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ygCTyTTCsg Original Motif Reverse Complement RGAGCAGG BCGAAMAGHH BVGARMAGGH Direction: Forward Position #: 2 Overlap #: 8 Alignment: -RGAGCAGG- BCGAAMAGHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 29 Combined Motif Reverse Complement Original Motif HCCTRMTCVB CCMGCCCC HCCWGCYCCB Direction: Forward Position #: 2 Overlap #: 8 Alignment: HCCTRMTCVB -CCMGCCCC- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif csCCaGCTCCCgs Original Motif Original Motif HCCWGCYCCB BBCCAGCTCCCVB BBCCWGCTCCCVB Direction: Forward Position #: 2 Overlap #: 10 Alignment: -HCCWGCYCCB-- BBCCAGCTCCCVB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cbCCAGCTCmyk Original Motif Original Motif BBCCWGCTCCCVB BBCCAGCTCMBD BBCCAGCTCCBBB Direction: Forward Position #: 1 Overlap #: 12 Alignment: BBCCWGCTCCCVB BBCCAGCTCMBD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 39 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 39 Motif 27 Original Motif Reverse Complement ACAGMCAG KRAGGCAG RMAGRCAG Direction: Forward Position #: 1 Overlap #: 8 Alignment: ACAGMCAG KRAGGCAG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 2 Original Motif Original Motif RMAGRCAG ACACACAC ACASACAS Direction: Forward Position #: 1 Overlap #: 8 Alignment: RMAGRCAG ACACACAC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 58 Original Motif Original Motif ACASACAS CACACACACACACA CACASACACACACA Direction: Forward Position #: 2 Overlap #: 8 Alignment: -ACASACAS----- CACACACACACACA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dyCTGCyTCyc Reverse Complement Original Motif TGTGTGTGTSTGTG DHCTGCYTCHB DTSTGYSTSTBTGTG Direction: Forward Position #: 2 Overlap #: 10 Alignment: -TGTGTGTGTSTGTG DHCTGCYTCHB---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif htCTGyKTCbt Original Motif Original Motif DTSTGYSTSTBTGTG HBCTGYTTCBH DBCTGYKTCBBTGTG Direction: Forward Position #: 1 Overlap #: 11 Alignment: DTSTGYSTSTBTGTG HBCTGYTTCBH---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 40 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 40 cmCCACACCcm Reverse Complement Reverse Complement GSTGTGG VBGGTGTGGBD VBGGTGTGGBD Direction: Forward Position #: 3 Overlap #: 7 Alignment: --GSTGTGG-- VBGGTGTGGBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ccCCmCaCCCCcc Reverse Complement Original Motif HVCCACACCBV HBCCCCACCCCBH HHCCMCACCCCBH Direction: Forward Position #: 1 Overlap #: 11 Alignment: HVCCACACCBV-- HBCCCCACCCCBH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 22 Original Motif Reverse Complement HHCCMCACCCCBH MCCACCAC MCCMCCACCCCBH Direction: Forward Position #: 1 Overlap #: 8 Alignment: HHCCMCACCCCBH MCCACCAC----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 6 Original Motif Original Motif MCCMCCACCCCBH CCCASCMC CCCASCACCCCBH Direction: Forward Position #: 1 Overlap #: 8 Alignment: MCCMCCACCCCBH CCCASCMC----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 12 Combined Motif Reverse Complement Reverse Complement DBGGGGTGSTGGG MTGTGTGC DVKGKGTGCTGGG Direction: Forward Position #: 2 Overlap #: 8 Alignment: DBGGGGTGSTGGG -MTGTGTGC---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 41 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 41 Motif 7 Original Motif Original Motif CTCAGARA CACASASA CWCAGARA Direction: Forward Position #: 1 Overlap #: 8 Alignment: CTCAGARA CACASASA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yaCATAYACay Original Motif Original Motif CWCAGARA HVCATACACAH CWCAKABACAH Direction: Forward Position #: 1 Overlap #: 8 Alignment: CWCAGARA--- HVCATACACAH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 42 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 42 Motif 19 Original Motif Original Motif CCYAGAAC CCTGGARC CCTRGAAC Direction: Backward Position #: 1 Overlap #: 8 Alignment: CCYAGAAC CCTGGARC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ysCmAGCACwy Original Motif Original Motif CCTRGAAC HVCMAGCACHH HCCYAGMACHH Direction: Forward Position #: 2 Overlap #: 8 Alignment: -CCTRGAAC-- HVCMAGCACHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 6 Combined Motif Original Motif Original Motif HCCYAGMACHH CCCASCMC HCCCAGCACHH Direction: Forward Position #: 2 Overlap #: 8 Alignment: HCCYAGMACHH -CCCASCMC-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaCAAAAACaa Original Motif Original Motif HCCCAGCACHH HHCAAAAACHH HHCMARMACHH Direction: Forward Position #: 1 Overlap #: 11 Alignment: HCCCAGCACHH HHCAAAAACHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 41 Reverse Complement Reverse Complement HHGTYKTYGDH TKTCTGAG GTTTYTGAHHGT Direction: Backward Position #: 2 Overlap #: 7 Alignment: HHGTYKTYGDH- ----TKTCTGAG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 43 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 43 NR1H2RXRA Original Motif Reverse Complement CTCTGCCY GTTGACCTTTGACCTTT GTTGACCTYTGMCCTTT Direction: Forward Position #: 7 Overlap #: 8 Alignment: ------CTCTGCCY--- GTTGACCTTTGACCTTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 59 Original Motif Original Motif GTTGACCTYTGMCCTTT CTBCCTCHSYCYCC YCYCCSWCCYYYBVGTTGACCT Direction: Backward Position #: 6 Overlap #: 9 Alignment: GTTGACCTYTGMCCTTT----- --------CTBCCTCHSYCYCC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dyCTGCyTCyc Original Motif Original Motif YCYCCSWCCYYYBVGTTGACCT DHCTGCYTCHB DHCTGCCTCCYYYBVGTTGACCT Direction: Forward Position #: 2 Overlap #: 10 Alignment: -YCYCCSWCCYYYBVGTTGACCT DHCTGCYTCHB------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ygCTyTTCsg Original Motif Original Motif DHCTGCCTCCYYYBVGTTGACCT HDCTYTTCGB BBCTBYYYSBYYYBVGTTGACCT Direction: Forward Position #: 1 Overlap #: 10 Alignment: DHCTGCCTCCYYYBVGTTGACCT HDCTYTTCGB------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR2F1 Original Motif Original Motif BBCTBYYYSBYYYBVGTTGACCT TGAMCTTTGMMCYT TGAMCTTTKHVCYYYBVGTTGACCT Direction: Forward Position #: 3 Overlap #: 12 Alignment: --BBCTBYYYSBYYYBVGTTGACCT TGAMCTTTGMMCYT----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 44 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 44 Motif 14 Reverse Complement Reverse Complement CATTTCT MATTTTY CATTTYT Direction: Forward Position #: 1 Overlap #: 7 Alignment: CATTTCT MATTTTY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwATkTTTAww Original Motif Original Motif CATTTYT DHATKTTTAHH HAWTTTTTAHH Direction: Forward Position #: 1 Overlap #: 7 Alignment: CATTTYT---- DHATKTTTAHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 33 Original Motif Original Motif HAWTTTTTAHH CMTTTCC CMTTTYYTAHH Direction: Forward Position #: 1 Overlap #: 7 Alignment: HAWTTTTTAHH CMTTTCC---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif MEF2A Original Motif Original Motif CMTTTYYTAHH CTATTTWTAG CTWTTTHTADH Direction: Forward Position #: 1 Overlap #: 10 Alignment: CMTTTYYTAHH CTATTTWTAG- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Evi1 Combined Motif Original Motif Reverse Complement CTWTTTHTADH TBTTATCTTMTCTT ADHYHWTWTCTTBTTAT Direction: Backward Position #: 4 Overlap #: 8 Alignment: ------CTWTTTHTADH ---TBTTATCTTMTCTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 45 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 45 wwTAATAAww Original Motif Reverse Complement ATTATTAW DDTTATTAHD DATTATTAWD Direction: Forward Position #: 2 Overlap #: 8 Alignment: -ATTATTAW- DDTTATTAHD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwATkTTTAww Reverse Complement Reverse Complement DWTAATAATD HHTAAARATHD DHTAAWAATHD Direction: Forward Position #: 1 Overlap #: 10 Alignment: DWTAATAATD- HHTAAARATHD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF1A Original Motif Reverse Complement DHTAAWAATHD GYTAATDATTAACC DHTAAWAATTAACC Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHTAAWAATHD--- GYTAATDATTAACC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF1B Original Motif Reverse Complement DHTAAWAATTAACC GTTAAWKATTAA GTTAAWDATTAACC Direction: Forward Position #: 1 Overlap #: 12 Alignment: DHTAAWAATTAACC GTTAAWKATTAA-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Lhx3 Reverse Complement Reverse Complement GGTTAATDWTTAAC BMWTAATTAATTW GVTTAATTAWTWWC Direction: Forward Position #: 1 Overlap #: 13 Alignment: GGTTAATDWTTAAC BMWTAATTAATTW- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 46 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 46 Motif 13 Original Motif Original Motif GGAAASA GGAAGSAR GGAARSAR Direction: Forward Position #: 1 Overlap #: 7 Alignment: GGAAASA- GGAAGSAR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 33 Original Motif Reverse Complement GGAARSAR GGAAARG GGAAAVRR Direction: Forward Position #: 1 Overlap #: 7 Alignment: GGAARSAR GGAAARG- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXF2 Reverse Complement Reverse Complement MKVTTTCC DTTGTTTACSBTBB DHTGTTTMCSBTBB Direction: Forward Position #: 2 Overlap #: 8 Alignment: -MKVTTTCC----- DTTGTTTACSBTBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- FOXO3 Combined Motif Original Motif Reverse Complement DHTGTTTMCSBTBB TGTTTACR DHTGTTTACRBTBB Direction: Forward Position #: 3 Overlap #: 8 Alignment: DHTGTTTMCSBTBB --TGTTTACR---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif htCTGyKTCbt Original Motif Original Motif DHTGTTTACRBTBB HBCTGYTTCBH DHYKKTTWCVHTBB Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHTGTTTACRBTBB HBCTGYTTCBH--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 47 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 47 ccGCAGCCss Original Motif Reverse Complement KGCTGCTG BBGGCTGCGV GGCTGCTGBB Direction: Backward Position #: 1 Overlap #: 8 Alignment: --KGCTGCTG BBGGCTGCGV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ysCmAGCACwy Original Motif Reverse Complement GGCTGCTGBB DHGTGCTRGVH KGSTGCTGGBH Direction: Forward Position #: 1 Overlap #: 10 Alignment: GGCTGCTGBB- DHGTGCTRGVH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cmCARCACTwr Original Motif Reverse Complement KGSTGCTGGBH VHAGTGCTGHB VDAGTGCTGBBH Direction: Forward Position #: 2 Overlap #: 10 Alignment: -KGSTGCTGGBH VHAGTGCTGHB- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 30 Combined Motif Original Motif Reverse Complement VDAGTGCTGBBH YCMTCCTG VBMSTSCTGBBH Direction: Forward Position #: 2 Overlap #: 8 Alignment: VDAGTGCTGBBH -YCMTCCTG--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dyCTGCyTCyc Original Motif Reverse Complement VBMSTSCTGBBH BHGAKGCAGHH BHGAKGCWGVBH Direction: Forward Position #: 1 Overlap #: 11 Alignment: VBMSTSCTGBBH BHGAKGCAGHH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 48 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 48 Motif 12 Reverse Complement Reverse Complement CWGTGT MTGTGTGC GCCTGTGT Direction: Backward Position #: 3 Overlap #: 6 Alignment: CWGTGT-- MTGTGTGC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 11 Reverse Complement Reverse Complement ACACAGGC GAACDCAG GAACACAGGC Direction: Forward Position #: 3 Overlap #: 6 Alignment: --ACACAGGC GAACDCAG-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 23 Combined Motif Original Motif Reverse Complement GAACACAGGC TACASAR GWACACAGGC Direction: Forward Position #: 2 Overlap #: 7 Alignment: GAACACAGGC -TACASAR-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 7 Reverse Complement Reverse Complement GCCTGTGTWC TSTSTGTG TGYCTGTGTWC Direction: Forward Position #: 2 Overlap #: 7 Alignment: -GCCTGTGTWC TSTSTGTG--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yaCATAYACay Original Motif Reverse Complement TGYCTGTGTWC DTGTGTATGBD DTGTSTRTGTDC Direction: Forward Position #: 2 Overlap #: 10 Alignment: -TGYCTGTGTWC DTGTGTATGBD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 49 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 49 Evi1 Reverse Complement Reverse Complement KTTTATCT TBTTATCTTMTCTT KTTTATCTTMTCTT Direction: Forward Position #: 1 Overlap #: 8 Alignment: KTTTATCT------ TBTTATCTTMTCTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXI1 Reverse Complement Reverse Complement AAGAYAAGATAAAR AAAMAAAMADBY AARAWAASATAAAR Direction: Forward Position #: 1 Overlap #: 12 Alignment: AAGAYAAGATAAAR AAAMAAAMADBY-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 60 Combined Motif Original Motif Original Motif AARAWAASATAAAR AADAAAAMAAAAAM AARAAAAAAHAAAAAM Direction: Forward Position #: 3 Overlap #: 12 Alignment: AARAWAASATAAAR-- --AADAAAAMAAAAAM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 21 Original Motif Original Motif AARAAAAAAHAAAAAM AAACAAAC AAAMAAAMAHAAAAAM Direction: Forward Position #: 1 Overlap #: 8 Alignment: AARAAAAAAHAAAAAM AAACAAAC-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR1H2RXRA Reverse Complement Reverse Complement YTTTTTDTRTTTRTTT GTTGACCTTTGACCTTT GTTGACCTTTGACYTTTTDTRTTTRTTT Direction: Forward Position #: 13 Overlap #: 5 Alignment: ------------YTTTTTDTRTTTRTTT GTTGACCTTTGACCTTT----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 50 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 50 ygCTyTTCsg Reverse Complement Original Motif TGCTCTTC HDCTYTTCGB GBTRCTCTTC Direction: Backward Position #: 3 Overlap #: 8 Alignment: TGCTCTTC-- HDCTYTTCGB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Evi1 Original Motif Reverse Complement GBTRCTCTTC TBTTATCTTMTCTT BBTTMTCTTCTCTT Direction: Forward Position #: 1 Overlap #: 10 Alignment: GBTRCTCTTC---- TBTTATCTTMTCTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR2F1 Original Motif Original Motif BBTTMTCTTCTCTT TGAMCTTTGMMCYT TGAMCTTTGMTCTTCTCTT Direction: Forward Position #: 6 Overlap #: 9 Alignment: -----BBTTMTCTTCTCTT TGAMCTTTGMMCYT----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 5 Reverse Complement Original Motif AAGAGAAGAYCAAAGRTCA AAASAAAA AAAGARAAGAYCAAAGRTCA Direction: Forward Position #: 2 Overlap #: 7 Alignment: -AAGAGAAGAYCAAAGRTCA AAASAAAA------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif awAACAcAAwa Original Motif Original Motif AAAGARAAGAYCAAAGRTCA DDAACACAADV DAAASAVAAGHYCAAAGRTCA Direction: Forward Position #: 2 Overlap #: 10 Alignment: -AAAGARAAGAYCAAAGRTCA DDAACACAADV---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 51 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 51 cbCCAGCTCmyk Reverse Complement Original Motif CCWGCTCT BBCCAGCTCMBD BDCCAGCTCHBB Direction: Backward Position #: 3 Overlap #: 8 Alignment: --CCWGCTCT-- BBCCAGCTCMBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 38 Combined Motif Reverse Complement Reverse Complement BBHGAGCTGGHB GGAGMAGG BBGGAGCWGGHB Direction: Forward Position #: 3 Overlap #: 8 Alignment: BBHGAGCTGGHB --GGAGMAGG-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 15 Reverse Complement Original Motif BDCCWGCTCCBB AGCCCWGG AGCCCWGSTCCBB Direction: Forward Position #: 2 Overlap #: 7 Alignment: -BDCCWGCTCCBB AGCCCWGG----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif csCCaGCTCCCgs Reverse Complement Reverse Complement BBGGASCWGGGCT BVGGGAGCTGGBB BBGGGAGCWGGBBT Direction: Forward Position #: 2 Overlap #: 12 Alignment: -BBGGASCWGGGCT BVGGGAGCTGGBB- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cmCARCACTwr Combined Motif Original Motif Reverse Complement BBGGGAGCWGGBBT VHAGTGCTGHB BBDRGWGCTGGBBT Direction: Forward Position #: 2 Overlap #: 11 Alignment: BBGGGAGCWGGBBT -VHAGTGCTGHB-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 52 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 52 Motif 4 Original Motif Original Motif AGVCAGG GAGRMAGR GAGRCAGG Direction: Forward Position #: 2 Overlap #: 7 Alignment: -AGVCAGG GAGRMAGR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dyCTGCyTCyc Reverse Complement Original Motif CCTGMCTC DHCTGCYTCHB DCCTGCCTCHB Direction: Forward Position #: 2 Overlap #: 8 Alignment: -CCTGMCTC-- DHCTGCYTCHB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif rryCAGGGAyw Reverse Complement Original Motif BHGAGGCAGGH DDYCAGGGAHD DDHSAGGSAGDH Direction: Forward Position #: 2 Overlap #: 10 Alignment: -BHGAGGCAGGH DDYCAGGGAHD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif htCTGyKTCbt Reverse Complement Original Motif DHCTSCCTSHHD HBCTGYTTCBH DHCTGYYTCHHD Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHCTSCCTSHHD HBCTGYTTCBH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yvTGCAGsCAcg Original Motif Reverse Complement DHCTGYYTCHHD VBTGSCTGCAVB HBYKSCTKCAVD Direction: Forward Position #: 1 Overlap #: 12 Alignment: DHCTGYYTCHHD VBTGSCTGCAVB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 53 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 53 Motif 7 Original Motif Reverse Complement TSTGTR TSTSTGTG TSTGTGTG Direction: Forward Position #: 1 Overlap #: 6 Alignment: TSTGTR-- TSTSTGTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif awAACAcAAwa Reverse Complement Original Motif CACACASA DDAACACAADV CAMACASAADV Direction: Forward Position #: 1 Overlap #: 8 Alignment: CACACASA--- DDAACACAADV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 23 Original Motif Reverse Complement CAMACASAADV TACASAR YACASAVAADV Direction: Forward Position #: 1 Overlap #: 7 Alignment: CAMACASAADV TACASAR---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 2 Reverse Complement Reverse Complement BDTTVTSTGTM GTGTGTGT GTKTGTGTGTM Direction: Forward Position #: 1 Overlap #: 8 Alignment: BDTTVTSTGTM GTGTGTGT--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 58 Combined Motif Original Motif Reverse Complement GTKTGTGTGTM TGTGTGTGTGTGTG GTGTGTGTGTVTGTG Direction: Forward Position #: 2 Overlap #: 10 Alignment: GTKTGTGTGTM---- -TGTGTGTGTGTGTG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 54 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 54 Motif 26 Reverse Complement Reverse Complement TTTCK TTTCKTCK TTTCKTCK Direction: Forward Position #: 1 Overlap #: 5 Alignment: TTTCK--- TTTCKTCK ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 28 Original Motif Reverse Complement TTTCKTCK TTTCTVT TTTCTBYK Direction: Forward Position #: 1 Overlap #: 7 Alignment: TTTCKTCK TTTCTVT- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 33 Combined Motif Reverse Complement Reverse Complement RKVAGAAA GGAAARG RKVRGAAARG Direction: Forward Position #: 4 Overlap #: 5 Alignment: RKVAGAAA-- ---GGAAARG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 46 Reverse Complement Reverse Complement CMTTTCMBYK TSTTTCC YVTTTCCBYK Direction: Forward Position #: 1 Overlap #: 7 Alignment: CMTTTCMBYK TSTTTCC--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 44 Original Motif Reverse Complement YVTTTCCBYK CATTTCT CATTTCYBYK Direction: Forward Position #: 1 Overlap #: 7 Alignment: YVTTTCCBYK CATTTCT--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 55 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 55 wtTTTwAAAaw Original Motif Original Motif TTTAAAA HHTTTWAAADD HHTTTAAAADD Direction: Forward Position #: 3 Overlap #: 7 Alignment: --TTTAAAA-- HHTTTWAAADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 9 Original Motif Original Motif HHTTTAAAADD TTTWWAAA TTTTTAAAADD Direction: Forward Position #: 1 Overlap #: 8 Alignment: HHTTTAAAADD TTTWWAAA--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wtATTTTAww Reverse Complement Original Motif DDTTTTAAAAA DHATTTTAWH DHWTTTWAAHA Direction: Forward Position #: 1 Overlap #: 10 Alignment: DDTTTTAAAAA DHATTTTAWH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwATkTTTAww Reverse Complement Reverse Complement THTTWAAAWHD HHTAAARATHD THTWAAAATHD Direction: Forward Position #: 1 Overlap #: 11 Alignment: THTTWAAAWHD HHTAAARATHD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TBP Original Motif Original Motif THTWAAAATHD STATAAAWRVVVVBV BTWTAAAADVVVVBV Direction: Forward Position #: 1 Overlap #: 11 Alignment: THTWAAAATHD---- STATAAAWRVVVVBV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 56 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 56 rryCAGGGAyw Original Motif Original Motif CACGGA DDYCAGGGAHD HDCASGGADDY Direction: Backward Position #: 3 Overlap #: 6 Alignment: ---CACGGA-- DDYCAGGGAHD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 7 Original Motif Original Motif HDCASGGADDY CACASASA CACASRGADDY Direction: Forward Position #: 1 Overlap #: 8 Alignment: HDCASGGADDY CACASASA--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 41 Original Motif Original Motif CACASRGADDY CTCAGARA CWCAGAGADDY Direction: Forward Position #: 1 Overlap #: 8 Alignment: CACASRGADDY CTCAGARA--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 19 Combined Motif Original Motif Reverse Complement CWCAGAGADDY GKTCCAGG GADDYYYCAGRCWCAG Direction: Backward Position #: 6 Overlap #: 6 Alignment: --CWCAGAGADDY -----GKTCCAGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 57 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 57 Motif 30 Original Motif Original Motif SAGGAA CAGGARGM GMCAGGAA Direction: Backward Position #: 3 Overlap #: 6 Alignment: SAGGAA-- CAGGARGM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 26 Reverse Complement Reverse Complement TTCCTGYC TTTCKTCK TTTCYTSTC Direction: Forward Position #: 2 Overlap #: 7 Alignment: -TTCCTGYC TTTCKTCK- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 28 Original Motif Reverse Complement TTTCYTSTC TTTCTVT TTTCTBYTC Direction: Forward Position #: 1 Overlap #: 7 Alignment: TTTCYTSTC TTTCTVT-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 27 Original Motif Original Motif TTTCTBYTC CTGCCTKY YTKCYTKYC Direction: Forward Position #: 1 Overlap #: 8 Alignment: TTTCTBYTC CTGCCTKY- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 4 Original Motif Reverse Complement YTKCYTKYC KCTRMCTC KCTGCCTCYC Direction: Forward Position #: 2 Overlap #: 7 Alignment: -YTKCYTKYC KCTRMCTC-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 58 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 58 yrCACATGCATGTGyr Original Motif Original Motif CACACACACACACA HVCACATGCATGTGBD HVCACAYRCAYRYRCR Direction: Forward Position #: 3 Overlap #: 14 Alignment: --CACACACACACACA HVCACATGCATGTGBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 59 Reverse Complement Reverse Complement KGKKKMTGKMTGTGBH GGMGKSHGAGGBAG BGDGKVTGDRKGWGBH Direction: Forward Position #: 1 Overlap #: 14 Alignment: KGKKKMTGKMTGTGBH GGMGKSHGAGGBAG-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- myyCCCACmTGCmyr Combined Motif Reverse Complement Original Motif HVCWCRMDCAVYCDCB HBCCCCACMTGCMHV HVCHBVCHCACHYGCHHV Direction: Forward Position #: 4 Overlap #: 13 Alignment: HVCWCRMDCAVYCDCB-- ---HBCCCCACMTGCMHV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ccCCmCaCCCCcc Combined Motif Original Motif Original Motif HVCHBVCHCACHYGCHHV HBCCCCACCCCBH HVCHBCCCCACCCVCHHV Direction: Forward Position #: 4 Overlap #: 13 Alignment: HVCHBVCHCACHYGCHHV ---HBCCCCACCCCBH-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 59 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 59 Pax4 Original Motif Original Motif CTBCCTCHSYCYCC RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC RAAWAWTWDCMVCTVBCHCHVYCHCHCYMC Direction: Forward Position #: 13 Overlap #: 14 Alignment: ------------CTBCCTCHSYCYCC---- RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- myyCCCACmTGCmyr Combined Motif Original Motif Original Motif RAAWAWTWDCMVCTVBCHCHVYCHCHCYMC HBCCCCACMTGCMHV RAAWAHDHBCCACHTGCHCHVYCHCHCYMC Direction: Forward Position #: 6 Overlap #: 15 Alignment: RAAWAWTWDCMVCTVBCHCHVYCHCHCYMC -----HBCCCCACMTGCMHV---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 58 Reverse Complement Reverse Complement GRKGDGHGKVHGDGCAHGTGGBHDHTWTTM TGTGTGTGTGTGTG KGTGTGWGTGTGTGCAHGTGGBHDHTWTTM Direction: Forward Position #: 1 Overlap #: 14 Alignment: GRKGDGHGKVHGDGCAHGTGGBHDHTWTTM TGTGTGTGTGTGTG---------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ccCCmCaCCCCcc Combined Motif Reverse Complement Original Motif RAAWAHDHBCCACHTGCACACACWCACACY HBCCCCACCCCBH RAAWAHHHCCCMMCYCCVCACACWCACACY Direction: Forward Position #: 7 Overlap #: 13 Alignment: RAAWAHDHBCCACHTGCACACACWCACACY ------HBCCCCACCCCBH----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- csCCaGCTCCCgs Combined Motif Original Motif Original Motif RAAWAHHHCCCMMCYCCVCACACWCACACY BBCCAGCTCCCVB RAAWAHHBCCMSCYCCCVBACACWCACACY Direction: Forward Position #: 7 Overlap #: 13 Alignment: RAAWAHHHCCCMMCYCCVCACACWCACACY ------BBCCAGCTCCCVB----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 60 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 60 Evi1 Original Motif Original Motif AADAAAAMAAAAAM AAGAYAAGATAABA AAGAWAASAWAADA Direction: Forward Position #: 1 Overlap #: 14 Alignment: AADAAAAMAAAAAM AAGAYAAGATAABA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax4 Combined Motif Original Motif Original Motif AAGAWAASAWAADA RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC AARAAAAVAWAMVVHHVBBHHHVHMHCMCYMC Direction: Forward Position #: 3 Overlap #: 12 Alignment: AAGAWAASAWAADA------------------ --RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TBP Original Motif Original Motif AARAAAAVAWAMVVHHVBBHHHVHMHCMCYMC STATAAAWRVVVVBV STAWAAAAAVVHVVVVHHVBBHHHVHMHCMCYMC Direction: Forward Position #: 3 Overlap #: 13 Alignment: --AARAAAAVAWAMVVHHVBBHHHVHMHCMCYMC STATAAAWRVVVVBV------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwTAATwwATTAww Combined Motif Original Motif Reverse Complement STAWAAAAAVVHVVVVHHVBBHHHVHMHCMCYMC HHTAATWWATTADD STAWWAAWWDATTAVHHHVBBHHHVHMHCMCYMC Direction: Forward Position #: 3 Overlap #: 14 Alignment: STAWAAAAAVVHVVVVHHVBBHHHVHMHCMCYMC --HHTAATWWATTADD------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- FOXF2 Combined Motif Original Motif Reverse Complement STAWWAAWWDATTAVHHHVBBHHHVHMHCMCYMC DTTGTTTACSBTBB STAWWAAWWTRTTWAMVHHBBHHHVHMHCMCYMC Direction: Forward Position #: 8 Overlap #: 14 Alignment: STAWWAAWWDATTAVHHHVBBHHHVHMHCMCYMC -------DTTGTTTACSBTBB------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 61 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- MEF2A TBP Reverse Complement Original Motif CTAWAAATAG STATAAAWRVVVVBV VVVBVCTATAAATAG Direction: Backward Position #: 6 Overlap #: 10 Alignment: CTAWAAATAG----- STATAAAWRVVVVBV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwATkTTTAww Reverse Complement Original Motif CTATTTATAGVBVVV DHATKTTTAHH HTATTTWTAVHBVVV Direction: Forward Position #: 1 Overlap #: 11 Alignment: CTATTTATAGVBVVV DHATKTTTAHH---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXI1 Original Motif Original Motif HTATTTWTAVHBVVV KBDTRTTTRTTT BBATDTTTAKDBVVV Direction: Forward Position #: 1 Overlap #: 12 Alignment: HTATTTWTAVHBVVV KBDTRTTTRTTT--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF1A Original Motif Original Motif BBATDTTTAKDBVVV GGTTAATDATTAMC DGWTAWTTATTDVVV Direction: Forward Position #: 1 Overlap #: 14 Alignment: BBATDTTTAKDBVVV GGTTAATDATTAMC- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wtATTTTAww Original Motif Original Motif DGWTAWTTATTDVVV DHATTTTAWH DDATWTTWWTTDVVV Direction: Forward Position #: 1 Overlap #: 10 Alignment: DGWTAWTTATTDVVV DHATTTTAWH----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 62 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TBP Pax4 Original Motif Original Motif STATAAAWRVVVVBV RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC VWATAAAWDVVVVHVBBHHHVHMHCMCYMC Direction: Forward Position #: 1 Overlap #: 15 Alignment: STATAAAWRVVVVBV--------------- RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwTAATwwATTAww Combined Motif Original Motif Original Motif VWATAAAWDVVVVHVBBHHHVHMHCMCYMC DDTAATWWATTAHH VWATAAWWTAAHHWATTAHHVHMHCMCYMC Direction: Forward Position #: 7 Overlap #: 14 Alignment: VWATAAAWDVVVVHVBBHHHVHMHCMCYMC ------DDTAATWWATTAHH---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- HNF1A Combined Motif Original Motif Reverse Complement VWATAAWWTAAHHWATTAHHVHMHCMCYMC GYTAATDATTAACC VWADHWAATHATTAAYYAHHVHMHCMCYMC Direction: Forward Position #: 4 Overlap #: 14 Alignment: VWATAAWWTAAHHWATTAHHVHMHCMCYMC ---GYTAATDATTAACC------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 60 Combined Motif Original Motif Original Motif VWADHWAATHATTAAYYAHHVHMHCMCYMC AADAAAAMAAAAAM VWADHWAAWAAWWMAMAAAVVHMHCMCYMC Direction: Forward Position #: 7 Overlap #: 14 Alignment: VWADHWAATHATTAAYYAHHVHMHCMCYMC ------AADAAAAMAAAAAM---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- myyCCCACmTGCmyr Combined Motif Reverse Complement Reverse Complement GRKGRGDRHVBTTTYTYWWTTWTTWHDTWV VDRGCAYGTGGGGVD GRKGVDRGCAYKTBBKBHDTTWTTWHDTWV Direction: Forward Position #: 5 Overlap #: 15 Alignment: GRKGRGDRHVBTTTYTYWWTTWTTWHDTWV ----VDRGCAYGTGGGGVD----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 63 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- FOXL1 FOXF2 Original Motif Original Motif WHDAHATA BHADSGTAAACAAD AACAADBHDAVRTA Direction: Backward Position #: 7 Overlap #: 8 Alignment: WHDAHATA------ BHADSGTAAACAAD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ymTACATAyw Original Motif Original Motif AACAADBHDAVRTA HHTACATABD BDHHTACATAAACAAD Direction: Backward Position #: 3 Overlap #: 8 Alignment: AACAADBHDAVRTA-- ------HHTACATABD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXC1 Original Motif Original Motif BDHHTACATAAACAAD VBHVHGTA VVHVHRYATAAACAAD Direction: Forward Position #: 1 Overlap #: 8 Alignment: BDHHTACATAAACAAD VBHVHGTA-------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- MEF2A Combined Motif Reverse Complement Original Motif DTTGTTTATMMHBHVV CTATTTWTAG DYTRTTTATAVHBHVV Direction: Forward Position #: 2 Overlap #: 10 Alignment: DTTGTTTATMMHBHVV -CTATTTWTAG----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Sox2 Combined Motif Reverse Complement Reverse Complement VVHVHVTATAAAKAKD TTTGCATMACAAWGG VVTDTVYATAAMWADKG Direction: Forward Position #: 3 Overlap #: 14 Alignment: VVHVHVTATAAAKAKD- --TTTGCATMACAAWGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 64 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ARID3A wtAATTAAtw Original Motif Original Motif ATYAAA DTAATTAATH DTAATTAAWH Direction: Forward Position #: 4 Overlap #: 6 Alignment: ---ATYAAA- DTAATTAATH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 20 Reverse Complement Reverse Complement HWTTAATTAD CCTYTAAT CCTTTAATTAD Direction: Forward Position #: 2 Overlap #: 7 Alignment: -HWTTAATTAD CCTYTAAT--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Lhx3 Original Motif Original Motif CCTTTAATTAD WAATTAATTAWYB HMWTTAATTAWYB Direction: Forward Position #: 1 Overlap #: 11 Alignment: CCTTTAATTAD-- WAATTAATTAWYB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 49 Combined Motif Original Motif Reverse Complement HMWTTAATTAWYB KTTTATCT HDTTTAWYTAWYB Direction: Forward Position #: 2 Overlap #: 8 Alignment: HMWTTAATTAWYB -KTTTATCT---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 25 Combined Motif Original Motif Reverse Complement HDTTTAWYTAWYB WWTAAA HWWTWAAYTAWYB Direction: Forward Position #: 2 Overlap #: 6 Alignment: HDTTTAWYTAWYB -WWTAAA------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 65 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Foxd3 FOXI1 Reverse Complement Reverse Complement AAAHAAACAWTC AAAMAAAMADBY AAAMAAAMAWHC Direction: Forward Position #: 1 Overlap #: 12 Alignment: AAAHAAACAWTC AAAMAAAMADBY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 60 Combined Motif Reverse Complement Reverse Complement GHWTRTTTRTTT YTTTTTRTTTTDTT GHHTDTTTRTTTTDTT Direction: Forward Position #: 3 Overlap #: 10 Alignment: GHWTRTTTRTTT---- --YTTTTTRTTTTDTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Lhx3 Original Motif Reverse Complement GHHTDTTTRTTTTDTT BMWTAATTAATTW DMWTAWTTAWTTTDTT Direction: Forward Position #: 1 Overlap #: 13 Alignment: GHHTDTTTRTTTTDTT BMWTAATTAATTW--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax4 Combined Motif Reverse Complement Original Motif AADAAAWTAAWTAWYH RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC AADRAAWWAAWDMVHHHVBBHHHVHMHCMCYMC Direction: Forward Position #: 4 Overlap #: 13 Alignment: AADAAAWTAAWTAWYH----------------- ---RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- HNF1A Combined Motif Original Motif Reverse Complement AADRAAWWAAWDMVHHHVBBHHHVHMHCMCYMC GYTAATDATTAACC AADRARHTAAWDAHTAACCBHHHVHMHCMCYMC Direction: Forward Position #: 6 Overlap #: 14 Alignment: AADRAAWWAAWDMVHHHVBBHHHVHMHCMCYMC -----GYTAATDATTAACC-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 66 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Lhx3 HNF1A Original Motif Reverse Complement WAATTAATTAWYB GYTAATDATTAACC HWAWTAATTAACCG Direction: Backward Position #: 1 Overlap #: 13 Alignment: -WAATTAATTAWYB GYTAATDATTAACC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TBP Combined Motif Reverse Complement Original Motif CGGTTAATTAWTWH STATAAAWRVVVVBV CVKWTAAWWADBDVBV Direction: Forward Position #: 2 Overlap #: 13 Alignment: CGGTTAATTAWTWH-- -STATAAAWRVVVVBV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Evi1 Original Motif Original Motif CVKWTAAWWADBDVBV AAGAYAAGATAABA HDGATAAGAWADDVBV Direction: Forward Position #: 1 Overlap #: 14 Alignment: CVKWTAAWWADBDVBV AAGAYAAGATAABA-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwTAATwwATTAww Combined Motif Reverse Complement Original Motif VBBDDTWTCTTATCDH DDTAATWWATTAHH VBBDDTAWTTTATYWHH Direction: Forward Position #: 4 Overlap #: 13 Alignment: VBBDDTWTCTTATCDH- ---DDTAATWWATTAHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 60 Original Motif Reverse Complement VBBDDTAWTTTATYWHH YTTTTTRTTTTDTT BBTTTTRWTTTWTTWHH Direction: Forward Position #: 1 Overlap #: 14 Alignment: VBBDDTAWTTTATYWHH YTTTTTRTTTTDTT--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 67 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- FOXI1 Foxd3 Reverse Complement Reverse Complement AAAMAAAMADBY AAAHAAACAWTC AAAMAAAMAWHC Direction: Backward Position #: 1 Overlap #: 12 Alignment: AAAMAAAMADBY AAAHAAACAWTC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 60 Original Motif Original Motif AAAMAAAMAWHC AADAAAAMAAAAAM AAAMAAAMAAAMAM Direction: Forward Position #: 1 Overlap #: 12 Alignment: AAAMAAAMAWHC-- AADAAAAMAAAAAM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Lhx3 Original Motif Original Motif AAAMAAAMAAAMAM WAATTAATTAWYB AAAWWAAYWAWHHM Direction: Forward Position #: 1 Overlap #: 13 Alignment: AAAMAAAMAAAMAM WAATTAATTAWYB- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax4 Combined Motif Original Motif Original Motif AAAWWAAYWAWHHM RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC AARAWAAHWWDHVVHHVBBHHHVHMHCMCYMC Direction: Forward Position #: 3 Overlap #: 12 Alignment: AAAWWAAYWAWHHM------------------ --RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TBP Combined Motif Original Motif Original Motif AARAWAAHWWDHVVHHVBBHHHVHMHCMCYMC STATAAAWRVVVVBV AARAWVWATAWAHVVHVVBVHHVHMHCMCYMC Direction: Forward Position #: 6 Overlap #: 15 Alignment: AARAWAAHWWDHVVHHVBBHHHVHMHCMCYMC -----STATAAAWRVVVVBV------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 68 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- HNF1A wwTAATwwATTAww Original Motif Original Motif GGTTAATDATTAMC DDTAATWWATTAHH DGTWAWTWATTAHH Direction: Backward Position #: 1 Overlap #: 14 Alignment: GGTTAATDATTAMC DDTAATWWATTAHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR1H2RXRA Original Motif Original Motif DGTWAWTWATTAHH AAAGGTCAAAGGTCAAC AAAGGTCAAAGGTYAAYWATTAHH Direction: Forward Position #: 11 Overlap #: 7 Alignment: ----------DGTWAWTWATTAHH AAAGGTCAAAGGTCAAC------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax4 Combined Motif Original Motif Original Motif AAAGGTCAAAGGTYAAYWATTAHH RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC AAAGGWMAAADDTCAHHWATTAHHVHMHCMCYMC Direction: Forward Position #: 5 Overlap #: 20 Alignment: AAAGGTCAAAGGTYAAYWATTAHH---------- ----RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TBP Combined Motif Reverse Complement Reverse Complement GRKGRGDRHVHDTAATWHHTGAHHTTTRWCCTTT VBVVVVMWTTTATAS VVBVVBVDTDTATAVTWHHTGAHHTTTRWCCTTT Direction: Forward Position #: 1 Overlap #: 15 Alignment: GRKGRGDRHVHDTAATWHHTGAHHTTTRWCCTTT VBVVVVMWTTTATAS------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Sox2 Combined Motif Original Motif Reverse Complement VVBVVBVDTDTATAVTWHHTGAHHTTTRWCCTTT TTTGCATMACAAWGG VVBVVBDDTDYATAAYAAWKGAHHTTTRWCCTTT Direction: Forward Position #: 7 Overlap #: 15 Alignment: VVBVVBVDTDTATAVTWHHTGAHHTTTRWCCTTT ------TTTGCATMACAAWGG------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 69 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NKX3-1 ymTACATAyw Original Motif Original Motif ATACTTA HHTACATABD HDTACWTABD Direction: Forward Position #: 2 Overlap #: 7 Alignment: -ATACTTA-- HHTACATABD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Lhx3 Original Motif Reverse Complement HDTACWTABD BMWTAATTAATTW BHWTAMTTAATTW Direction: Forward Position #: 2 Overlap #: 10 Alignment: -HDTACWTABD-- BMWTAATTAATTW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 10 Reverse Complement Reverse Complement WAATTAARTAWHB TATGTAD TATKTAWRTAWHB Direction: Forward Position #: 1 Overlap #: 7 Alignment: WAATTAARTAWHB TATGTAD------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 34 Original Motif Reverse Complement TATKTAWRTAWHB TAAATAT TAWRTATRTAWHB Direction: Forward Position #: 1 Overlap #: 7 Alignment: TATKTAWRTAWHB TAAATAT------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wtAATTAAtw Reverse Complement Reverse Complement BHWTAMATAKWTA HATTAATTAD DHTTAAWTADWTA Direction: Forward Position #: 1 Overlap #: 10 Alignment: BHWTAMATAKWTA HATTAATTAD--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 70 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Foxq1 FOXI1 Original Motif Original Motif HATTGTTTATW KBDTRTTTRTTT TDVWTGTTTATW Direction: Backward Position #: 2 Overlap #: 11 Alignment: HATTGTTTATW- KBDTRTTTRTTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwATkTTTAww Reverse Complement Reverse Complement WATAAACAWBDA HHTAAARATHD WATAAAMATDDA Direction: Forward Position #: 1 Overlap #: 11 Alignment: WATAAACAWBDA HHTAAARATHD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Foxd3 Original Motif Reverse Complement WATAAAMATDDA AAAHAAACAWTC AAATAAAMAWWHA Direction: Forward Position #: 2 Overlap #: 11 Alignment: -WATAAAMATDDA AAAHAAACAWTC- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 60 Original Motif Original Motif AAATAAAMAWWHA AADAAAAMAAAAAM AAAHAAAMAAAMAM Direction: Forward Position #: 1 Overlap #: 13 Alignment: AAATAAAMAWWHA- AADAAAAMAAAAAM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif awAACAcAAwa Reverse Complement Reverse Complement YTYTTTRTTTHTTT BDTTGTGTTDD BTTTDTGTTTHTTT Direction: Forward Position #: 1 Overlap #: 11 Alignment: YTYTTTRTTTHTTT BDTTGTGTTDD--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 71 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Evi1 Motif 60 Original Motif Original Motif AAGAYAAGATAABA AADAAAAMAAAAAM AAGAWAASAWAADA Direction: Forward Position #: 1 Overlap #: 14 Alignment: AAGAYAAGATAABA AADAAAAMAAAAAM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAATwwATTAww Reverse Complement Original Motif TDTTWTSTTWTCTT DDTAATWWATTAHH HDTWATHTWTTMTD Direction: Forward Position #: 1 Overlap #: 14 Alignment: TDTTWTSTTWTCTT DDTAATWWATTAHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax4 Combined Motif Reverse Complement Original Motif DAYAAWAHATWADH RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC DAWAAWWHAHHAHHVBBHHHVHMHCMCYMC Direction: Forward Position #: 1 Overlap #: 14 Alignment: DAYAAWAHATWADH---------------- RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Lhx3 Combined Motif Original Motif Reverse Complement DAWAAWWHAHHAHHVBBHHHVHMHCMCYMC BMWTAATTAATTW DAWWAATTAATHDHVBBHHHVHMHCMCYMC Direction: Forward Position #: 1 Overlap #: 13 Alignment: DAWAAWWHAHHAHHVBBHHHVHMHCMCYMC BMWTAATTAATTW----------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- FOXF2 Combined Motif Original Motif Reverse Complement DAWWAATTAATHDHVBBHHHVHMHCMCYMC DTTGTTTACSBTBB DAWWAAWTWRTTTAMVBHHBVHMHCMCYMC Direction: Forward Position #: 7 Overlap #: 14 Alignment: DAWWAATTAATHDHVBBHHHVHMHCMCYMC ------DTTGTTTACSBTBB---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 72 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Nkx2-5 Lhx3 Reverse Complement Original Motif CARTTAW WAATTAATTAWYB WAATTAMWWWTHH Direction: Forward Position #: 7 Overlap #: 7 Alignment: ------CARTTAW WAATTAATTAWYB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAATwwATTAww Reverse Complement Reverse Complement HHAWWWYTAATTW HHTAATWWATTADD HHWAATTTAWTWWD Direction: Forward Position #: 1 Overlap #: 13 Alignment: HHAWWWYTAATTW- HHTAATWWATTADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wtAATTAAtw Reverse Complement Original Motif DWWAWTAAATTWHH DTAATTAATH DWAATTAAWWTWHH Direction: Forward Position #: 1 Overlap #: 10 Alignment: DWWAWTAAATTWHH DTAATTAATH---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF1A Original Motif Reverse Complement DWAATTAAWWTWHH GYTAATDATTAACC DHWAWTAATTWACH Direction: Forward Position #: 1 Overlap #: 14 Alignment: DWAATTAAWWTWHH GYTAATDATTAACC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 45 Original Motif Original Motif DHWAWTAATTWACH ATTATTAW ATTATTAATTWACH Direction: Forward Position #: 1 Overlap #: 8 Alignment: DHWAWTAATTWACH ATTATTAW------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 73 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SRY Sox2 Original Motif Reverse Complement BDWAACAAT TTTGCATMACAAWGG TTTGBAWAACAAWGG Direction: Forward Position #: 5 Overlap #: 9 Alignment: ----BDWAACAAT-- TTTGCATMACAAWGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Foxd3 Combined Motif Original Motif Reverse Complement TTTGBAWAACAAWGG AAAHAAACAWTC TTWRHHWAACAAWBG Direction: Forward Position #: 3 Overlap #: 12 Alignment: TTTGBAWAACAAWGG --AAAHAAACAWTC- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXF2 Original Motif Original Motif TTWRHHWAACAAWBG BHADSGTAAACAAD TDADVVTAAMMAWBG Direction: Forward Position #: 1 Overlap #: 14 Alignment: TTWRHHWAACAAWBG BHADSGTAAACAAD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Foxq1 Reverse Complement Original Motif CBWTRYTTAVVDTDA HATTGTTTATW BVWTGTTTABDDTDA Direction: Forward Position #: 1 Overlap #: 11 Alignment: CBWTRYTTAVVDTDA HATTGTTTATW---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif mdAAcCAACG Original Motif Reverse Complement BVWTGTTTABDDTDA CGTTGGTTDB CDTTGBTTABDDTDA Direction: Forward Position #: 1 Overlap #: 10 Alignment: BVWTGTTTABDDTDA CGTTGGTTDB----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 74 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- FOXC1 FOXF2 Reverse Complement Reverse Complement TACHBHBV DTTGTTTACSBTBB TACBBHBBDTTGTT Direction: Backward Position #: 1 Overlap #: 8 Alignment: ------TACHBHBV DTTGTTTACSBTBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXL1 Original Motif Reverse Complement TACBBHBBDTTGTT TATDTDHW TAYDBDHDDTTGTT Direction: Forward Position #: 1 Overlap #: 8 Alignment: TACBBHBBDTTGTT TATDTDHW------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ymTACATAyw Reverse Complement Original Motif AACAADDHDVHMTA HHTACATABD BDHHTACATAAACAAD Direction: Backward Position #: 3 Overlap #: 8 Alignment: AACAADDHDVHMTA-- ------HHTACATABD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 75 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- FOXF2 wwTAATwwATTAww Reverse Complement Original Motif DTTGTTTACSBTBB DDTAATWWATTAHH DHTRWTTAMBTWHB Direction: Forward Position #: 1 Overlap #: 14 Alignment: DTTGTTTACSBTBB DDTAATWWATTAHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax4 Combined Motif Reverse Complement Original Motif VHWAVYTAAWMAHD RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC VHDAAWWAWWHAVHHHVBBHHHVHMHCMCYMC Direction: Forward Position #: 3 Overlap #: 12 Alignment: VHWAVYTAAWMAHD------------------ --RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Sox2 Original Motif Reverse Complement VHDAAWWAWWHAVHHHVBBHHHVHMHCMCYMC TTTGCATMACAAWGG TDHDMATHAHAAWDBHHVBBHHHVHMHCMCYMC Direction: Forward Position #: 2 Overlap #: 14 Alignment: -VHDAAWWAWWHAVHHHVBBHHHVHMHCMCYMC TTTGCATMACAAWGG------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 60 Original Motif Original Motif TDHDMATHAHAAWDBHHVBBHHHVHMHCMCYMC AADAAAAMAAAAAM WADVAAWMAAAAAVBHHVBBHHHVHMHCMCYMC Direction: Forward Position #: 1 Overlap #: 14 Alignment: TDHDMATHAHAAWDBHHVBBHHHVHMHCMCYMC AADAAAAMAAAAAM------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Pou5f1 Original Motif Reverse Complement WADVAAWMAAAAAVBHHVBBHHHVHMHCMCYMC ATTTGCATHACAAWG ATWWVMAWHAMAAWDBHHVBBHHHVHMHCMCYMC Direction: Forward Position #: 2 Overlap #: 14 Alignment: -WADVAAWMAAAAAVBHHVBBHHHVHMHCMCYMC ATTTGCATHACAAWG------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 76 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Sox2 Pax4 Reverse Complement Original Motif TTTGCATMACAAWGG RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC RAAWAWTTDHVCATMACAAWBBMHCMCYMC Direction: Forward Position #: 8 Overlap #: 15 Alignment: -------TTTGCATMACAAWGG-------- RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pou5f1 Combined Motif Original Motif Reverse Complement RAAWAWTTDHVCATMACAAWBBMHCMCYMC ATTTGCATHACAAWG RAAWAWWTTTGCATVACAAWGBMHCMCYMC Direction: Forward Position #: 7 Overlap #: 15 Alignment: RAAWAWTTDHVCATMACAAWBBMHCMCYMC ------ATTTGCATHACAAWG--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwTAATwwATTAww Combined Motif Original Motif Reverse Complement RAAWAWWTTTGCATVACAAWGBMHCMCYMC HHTAATWWATTADD RAAWDHTWWTDHATWAHAAWGBMHCMCYMC Direction: Forward Position #: 5 Overlap #: 14 Alignment: RAAWAWWTTTGCATVACAAWGBMHCMCYMC ----HHTAATWWATTADD------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- FOXF2 Combined Motif Original Motif Reverse Complement RAAWDHTWWTDHATWAHAAWGBMHCMCYMC DTTGTTTACSBTBB RAAWDDTTGTTTAYBWHHDWGBMHCMCYMC Direction: Forward Position #: 6 Overlap #: 14 Alignment: RAAWDHTWWTDHATWAHAAWGBMHCMCYMC -----DTTGTTTACSBTBB----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF1A Original Motif Original Motif RAAWDDTTGTTTAYBWHHDWGBMHCMCYMC GGTTAATDATTAMC GRWTAATWRTTWAYBWHHDWGBMHCMCYMC Direction: Forward Position #: 1 Overlap #: 14 Alignment: RAAWDDTTGTTTAYBWHHDWGBMHCMCYMC GGTTAATDATTAMC---------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 77 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Sox5 SOX9 Reverse Complement Reverse Complement ATTGTTH CMATTGTTH CMATTGTTH Direction: Forward Position #: 3 Overlap #: 7 Alignment: --ATTGTTH CMATTGTTH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif SRY Reverse Complement Original Motif HAACAATRG BDWAACAAT BDHAACAATRG Direction: Forward Position #: 3 Overlap #: 7 Alignment: --HAACAATRG BDWAACAAT-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Sox2 Reverse Complement Original Motif CMATTGTTHDB CCWTTGTYATGCAAA CCATTGTTWTBCAAA Direction: Forward Position #: 1 Overlap #: 11 Alignment: CMATTGTTHDB---- CCWTTGTYATGCAAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Foxq1 Original Motif Original Motif CCATTGTTWTBCAAA HATTGTTTATW HMWTKKTTATDCAAA Direction: Forward Position #: 1 Overlap #: 11 Alignment: CCATTGTTWTBCAAA HATTGTTTATW---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- aaACAAAACaa Combined Motif Original Motif Reverse Complement HMWTKKTTATDCAAA BHGTTTTGTTT HMWTGTTTWKTYWAA Direction: Forward Position #: 3 Overlap #: 11 Alignment: HMWTKKTTATDCAAA --BHGTTTTGTTT-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 78 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- RORA_1 NR1H2RXRA Original Motif Original Motif AWVDAGGTCA AAAGGTCAAAGGTCAAC ACTYAAAGGTCAAAAGG Direction: Backward Position #: 3 Overlap #: 10 Alignment: -----AWVDAGGTCA-- AAAGGTCAAAGGTCAAC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR2F1 Original Motif Reverse Complement ACTYAAAGGTCAAAAGG AKGYYCAAAGRTCA AKRYTCAAAGGTCAAAAGG Direction: Forward Position #: 3 Overlap #: 12 Alignment: --ACTYAAAGGTCAAAAGG AKGYYCAAAGRTCA----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cbCCAGCTCmyk Combined Motif Reverse Complement Reverse Complement CCTTTTGACCTTTGAKKYT HBYGAGCTGGBB CCTBHTGASCTKKDVKKYT Direction: Forward Position #: 4 Overlap #: 12 Alignment: CCTTTTGACCTTTGAKKYT ---HBYGAGCTGGBB---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- hsCCAGGCCTGGsr Combined Motif Original Motif Original Motif CCTBHTGASCTKKDVKKYT HVCCAGGCCTGGBD CCTBCWGRCCTGGBDKKYT Direction: Forward Position #: 2 Overlap #: 14 Alignment: CCTBHTGASCTKKDVKKYT -HVCCAGGCCTGGBD---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Sox2 Combined Motif Original Motif Original Motif CCTBCWGRCCTGGBDKKYT CCWTTGTYATGCAAA CCYHTTGWBMTGBDDDKYT Direction: Forward Position #: 2 Overlap #: 15 Alignment: CCTBCWGRCCTGGBDKKYT -CCWTTGTYATGCAAA--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 79 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Prrx2 wtAATTAAtw Reverse Complement Reverse Complement TAATT HATTAATTAD ADTAATTHAT Direction: Backward Position #: 3 Overlap #: 5 Alignment: ---TAATT-- HATTAATTAD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Lhx3 Original Motif Reverse Complement ADTAATTHAT BMWTAATTAATTW BAWTAATTAATTW Direction: Forward Position #: 2 Overlap #: 10 Alignment: -ADTAATTHAT-- BMWTAATTAATTW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Nobox Reverse Complement Original Motif WAATTAATTAWTB TAATTRSY TAATTAATTAWTB Direction: Forward Position #: 1 Overlap #: 8 Alignment: WAATTAATTAWTB TAATTRSY----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwTAATwwATTAww Combined Motif Original Motif Original Motif TAATTAATTAWTB DDTAATWWATTAHH TAATTAATTAATTAHH Direction: Forward Position #: 3 Overlap #: 11 Alignment: TAATTAATTAWTB--- --DDTAATWWATTAHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- HNF1A Combined Motif Reverse Complement Original Motif HHTAATTAATTAATTA GGTTAATDATTAMC HHTRRTTAATTAWTWAC Direction: Forward Position #: 4 Overlap #: 13 Alignment: HHTAATTAATTAATTA- ---GGTTAATDATTAMC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 80 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pou5f1 Pax4 Reverse Complement Original Motif ATTTGCATHACAAWG RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC RAAWATTWGCAHHWVAAHBHVHMHCMCYMC Direction: Forward Position #: 5 Overlap #: 15 Alignment: ----ATTTGCATHACAAWG----------- RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Sox2 Original Motif Original Motif RAAWATTWGCAHHWVAAHBHVHMHCMCYMC CCWTTGTYATGCAAA CCDWWDWTWTGCADAWVAAHBHVHMHCMCYMC Direction: Forward Position #: 3 Overlap #: 13 Alignment: --RAAWATTWGCAHHWVAAHBHVHMHCMCYMC CCWTTGTYATGCAAA----------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXF2 Reverse Complement Reverse Complement GRKGRGDRHVHBHTTVWTDTGCAWAWHWWDGG DTTGTTTACSBTBB DDTGTTTAMVHBHBTVWTDTGCAWAWHWWDGG Direction: Forward Position #: 1 Overlap #: 14 Alignment: GRKGRGDRHVHBHTTVWTDTGCAWAWHWWDGG DTTGTTTACSBTBB------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- myyCCCACmTGCmyr Combined Motif Original Motif Reverse Complement DDTGTTTAMVHBHBTVWTDTGCAWAWHWWDGG VDRGCAYGTGGGGVD DDBGDGYAYGTGDGKVDTDTGCAWAWHWWDGG Direction: Forward Position #: 3 Overlap #: 15 Alignment: DDTGTTTAMVHBHBTVWTDTGCAWAWHWWDGG --VDRGCAYGTGGGGVD--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yrCACATGCATGTGyr Original Motif Original Motif DDBGDGYAYGTGDGKVDTDTGCAWAWHWWDGG HVCACATGCATGTGBD HVCACRTGCATGTGBDKVDTDTGCAWAWHWWDGG Direction: Forward Position #: 3 Overlap #: 14 Alignment: --DDBGDGYAYGTGDGKVDTDTGCAWAWHWWDGG HVCACATGCATGTGBD------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 81 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax4 TBP Original Motif Original Motif RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC STATAAAWRVVVVBV VWATAAAWDVVVVHVBBHHHVHMHCMCYMC Direction: Forward Position #: 1 Overlap #: 15 Alignment: RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC STATAAAWRVVVVBV--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- myyCCCACmTGCmyr Combined Motif Reverse Complement Reverse Complement GRKGRGDRHVHDDVBBHVVVVHWTTTATWV VDRGCAYGTGGGGVD GRKDDGGVABGTGVGBVVVVVHWTTTATWV Direction: Forward Position #: 4 Overlap #: 15 Alignment: GRKGRGDRHVHDDVBBHVVVVHWTTTATWV ---VDRGCAYGTGGGGVD------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 59 Combined Motif Original Motif Reverse Complement GRKDDGGVABGTGVGBVVVVVHWTTTATWV GGMGKSHGAGGBAG GRKVDVGBVHGDGGBVGVVVVHWTTTATWV Direction: Forward Position #: 4 Overlap #: 14 Alignment: GRKDDGGVABGTGVGBVVVVVHWTTTATWV ---GGMGKSHGAGGBAG------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAATwwATTAww Reverse Complement Reverse Complement VWATAAAWDVVVVCBBCCDCHBBCBHVYMC HHTAATWWATTADD VWWWAWWWATHAHHBBCCDCHBBCBHVYMC Direction: Forward Position #: 1 Overlap #: 14 Alignment: VWATAAAWDVVVVCBBCCDCHBBCBHVYMC HHTAATWWATTADD---------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF1A Original Motif Original Motif VWWWAWWWATHAHHBBCCDCHBBCBHVYMC GGTTAATDATTAMC RGTTAWTWATTAHCBBCCDCHBBCBHVYMC Direction: Forward Position #: 1 Overlap #: 14 Alignment: VWWWAWWWATHAHHBBCCDCHBBCBHVYMC GGTTAATDATTAMC---------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 82 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- HNF1B HNF1A Original Motif Reverse Complement TTAATRWTTAAC GYTAATDATTAACC CYTAATRATTAACG Direction: Backward Position #: 2 Overlap #: 12 Alignment: -TTAATRWTTAAC- GYTAATDATTAACC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAATwwATTAww Reverse Complement Original Motif CGTTAATKATTAMG DDTAATWWATTAHH HGTWAWWWATTAHD Direction: Forward Position #: 1 Overlap #: 14 Alignment: CGTTAATKATTAMG DDTAATWWATTAHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR1H2RXRA Original Motif Reverse Complement HGTWAWWWATTAHD GTTGACCTTTGACCTTT GTTGACCTTTGACCKTTAWWWATTAHD Direction: Forward Position #: 14 Overlap #: 4 Alignment: -------------HGTWAWWWATTAHD GTTGACCTTTGACCTTT---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Lhx3 Reverse Complement Reverse Complement HHTAATWWWTAARGGTCAAAGGTCAAC BMWTAATTAATTW BMHTAATTAATWARGGTCAAAGGTCAAC Direction: Forward Position #: 2 Overlap #: 12 Alignment: -HHTAATWWWTAARGGTCAAAGGTCAAC BMWTAATTAATTW--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 60 Original Motif Original Motif BMHTAATTAATWARGGTCAAAGGTCAAC AADAAAAMAAAAAM DADWAAWHAAWWARGGTCAAAGGTCAAC Direction: Forward Position #: 1 Overlap #: 14 Alignment: BMHTAATTAATWARGGTCAAAGGTCAAC AADAAAAMAAAAAM-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 83 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR2F1 NR1H2RXRA Original Motif Reverse Complement TGAMCTTTGMMCYT GTTGACCTTTGACCTTT TTGACCTTTGACCTTGT Direction: Backward Position #: 2 Overlap #: 14 Alignment: --TGAMCTTTGMMCYT- GTTGACCTTTGACCTTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Pax4 Reverse Complement Original Motif ACAAGGTCAAAGGTCAA RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC RAAWAWTWDCMVHHVBBHHHVHMHCACVMSGTCAAAGGTCAA Direction: Forward Position #: 26 Overlap #: 5 Alignment: -------------------------ACAAGGTCAAAGGTCAA RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- myyCCCACmTGCmyr Combined Motif Original Motif Original Motif RAAWAWTWDCMVHHVBBHHHVHMHCACVMSGTCAAAGGTCAA HBCCCCACMTGCMHV RAAWAWTWDHVHCHCACMTVCHHHCACVMSGTCAAAGGTCAA Direction: Forward Position #: 10 Overlap #: 15 Alignment: RAAWAWTWDCMVHHVBBHHHVHMHCACVMSGTCAAAGGTCAA ---------HBCCCCACMTGCMHV------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Evi1 Original Motif Original Motif RAAWAWTWDHVHCHCACMTVCHHHCACVMSGTCAAAGGTCAA AAGAYAAGATAABA AAGAHAAGATAAVHCHCACMTVCHHHCACVMSGTCAAAGGTCAA Direction: Forward Position #: 3 Overlap #: 12 Alignment: --RAAWAWTWDHVHCHCACMTVCHHHCACVMSGTCAAAGGTCAA AAGAYAAGATAABA------------------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF1A Original Motif Reverse Complement AAGAHAAGATAAVHCHCACMTVCHHHCACVMSGTCAAAGGTCAA GYTAATDATTAACC RHKAAWAAWTAACMCHCACMTVCHHHCACVMSGTCAAAGGTCAA Direction: Forward Position #: 1 Overlap #: 14 Alignment: AAGAHAAGATAAVHCHCACMTVCHHHCACVMSGTCAAAGGTCAA GYTAATDATTAACC------------------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 84 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR1H2RXRA HNF1A Original Motif Original Motif AAAGGTCAAAGGTCAAC GGTTAATDATTAMC GGTYAAWGRTYAACAAA Direction: Backward Position #: 1 Overlap #: 14 Alignment: AAAGGTCAAAGGTCAAC ---GGTTAATDATTAMC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXF2 Reverse Complement Reverse Complement TTTGTTKAMCWTTKACC DTTGTTTACSBTBB TTTGTTTACSWTTKACC Direction: Forward Position #: 1 Overlap #: 14 Alignment: TTTGTTKAMCWTTKACC DTTGTTTACSBTBB--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Sox2 Original Motif Reverse Complement TTTGTTTACSWTTKACC TTTGCATMACAAWGG TTTGYWTAMCAWWKRCC Direction: Forward Position #: 1 Overlap #: 15 Alignment: TTTGTTTACSWTTKACC TTTGCATMACAAWGG-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF1B Reverse Complement Reverse Complement GGKYWWTGYTAWMCAAA GTTAAWKATTAA GKTMAWTRTTAAMCAAA Direction: Forward Position #: 1 Overlap #: 12 Alignment: GGKYWWTGYTAWMCAAA GTTAAWKATTAA----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cbCCAGCTCmyk Combined Motif Reverse Complement Reverse Complement TTTGYTTAAKAWTYARC HBYGAGCTGGBB TTTGYTTAAKDDTKAGCTGGBB Direction: Forward Position #: 11 Overlap #: 7 Alignment: TTTGYTTAAKAWTYARC----- ----------HBYGAGCTGGBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 85 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Nobox Lhx3 Original Motif Original Motif TAATTRSY WAATTAATTAWYB WAATTAATTADYB Direction: Forward Position #: 5 Overlap #: 8 Alignment: ----TAATTRSY- WAATTAATTAWYB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAATwwATTAww Reverse Complement Reverse Complement BMHTAATTAATTW HHTAATWWATTADD DHTWAWTTAWTWWD Direction: Forward Position #: 1 Overlap #: 13 Alignment: BMHTAATTAATTW- HHTAATWWATTADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TBP Combined Motif Reverse Complement Original Motif DWWAWTAAWTWAHH STATAAAWRVVVVBV DWDWATAAAWDVBVVBV Direction: Forward Position #: 3 Overlap #: 12 Alignment: DWWAWTAAWTWAHH--- --STATAAAWRVVVVBV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wtAATTAAtw Original Motif Original Motif DWDWATAAAWDVBVVBV DTAATTAATH DWAAWTAAWWDVBVVBV Direction: Forward Position #: 1 Overlap #: 10 Alignment: DWDWATAAAWDVBVVBV DTAATTAATH------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- HNF1A Combined Motif Reverse Complement Original Motif VBVVBBDWWTTAWTTWD GGTTAATDATTAMC VBVDGTTAATTAWTWHH Direction: Forward Position #: 4 Overlap #: 14 Alignment: VBVVBBDWWTTAWTTWD ---GGTTAATDATTAMC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 86 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- FOXO3 FOXF2 Reverse Complement Reverse Complement TGTTTACR DTTGTTTACSBTBB BTBBTGTTTACRDT Direction: Backward Position #: 5 Overlap #: 8 Alignment: --TGTTTACR---- DTTGTTTACSBTBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Foxq1 Original Motif Original Motif BTBBTGTTTACRDT HATTGTTTATW HDTTGTKTWTWCRDT Direction: Forward Position #: 2 Overlap #: 10 Alignment: -BTBBTGTTTACRDT HATTGTTTATW---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwATkTTTAww Original Motif Original Motif HDTTGTKTWTWCRDT DHATKTTTAHH HHWTKTTTATWCRDT Direction: Forward Position #: 1 Overlap #: 11 Alignment: HDTTGTKTWTWCRDT DHATKTTTAHH---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- FOXI1 Combined Motif Original Motif Original Motif HHWTKTTTATWCRDT KBDTRTTTRTTT HHDTDTKTWTRYDTT Direction: Forward Position #: 3 Overlap #: 12 Alignment: HHWTKTTTATWCRDT --KBDTRTTTRTTT- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif MEF2A Original Motif Original Motif HHDTDTKTWTRYDTT CTATTTWTAG CTATTTWTAKRYDTT Direction: Forward Position #: 1 Overlap #: 10 Alignment: HHDTDTKTWTRYDTT CTATTTWTAG----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 87 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SOX9 Sox2 Original Motif Reverse Complement DAACAATRG TTTGCATMACAAWGG CAAWGGDDWSMATVR Direction: Backward Position #: 7 Overlap #: 9 Alignment: DAACAATRG------ TTTGCATMACAAWGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax4 Combined Motif Original Motif Reverse Complement CAAWGGDDWSMATVR GRKGRGDRHVHDDVBBHHBRGDWAWTWTTM CARDGGDDDVHATDRVBBHHBRGDWAWTWTTM Direction: Forward Position #: 3 Overlap #: 13 Alignment: CAAWGGDDWSMATVR----------------- --GRKGRGDRHVHDDVBBHHBRGDWAWTWTTM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaACAAAACaa Reverse Complement Original Motif RAAWAWTWDCMBHHVBBKHATHVDHHCCDKTG AAACAAAACHV ARAMAAAACDHMBHHVBBKHATHVDHHCCDKTG Direction: Forward Position #: 2 Overlap #: 10 Alignment: -RAAWAWTWDCMBHHVBBKHATHVDHHCCDKTG AAACAAAACHV---------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwATkTTTAww Original Motif Reverse Complement ARAMAAAACDHMBHHVBBKHATHVDHHCCDKTG HHTAAARATHD HDWAAAAATHHMBHHVBBKHATHVDHHCCDKTG Direction: Forward Position #: 1 Overlap #: 11 Alignment: ARAMAAAACDHMBHHVBBKHATHVDHHCCDKTG HHTAAARATHD---------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif MEF2A Original Motif Reverse Complement HDWAAAAATHHMBHHVBBKHATHVDHHCCDKTG CTAWAAATAG CTAWAAAWAKHHMBHHVBBKHATHVDHHCCDKTG Direction: Forward Position #: 2 Overlap #: 9 Alignment: -HDWAAAAATHHMBHHVBBKHATHVDHHCCDKTG CTAWAAATAG------------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 88 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ygCTyTTCsg htCTGyKTCbt Reverse Complement Reverse Complement BCGAAMAGHH HVGAAMCAGVH VGRAACAGVHH Direction: Backward Position #: 1 Overlap #: 10 Alignment: -BCGAAMAGHH HVGAAMCAGVH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXI1 Original Motif Reverse Complement VGRAACAGVHH AAAMAAAMADBY ADRAAMASADVY Direction: Forward Position #: 1 Overlap #: 11 Alignment: VGRAACAGVHH- AAAMAAAMADBY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaCAAAAACaa Original Motif Original Motif ADRAAMASADVY HHCAAAAACHH HDMAAAAAMHHY Direction: Forward Position #: 1 Overlap #: 11 Alignment: ADRAAMASADVY HHCAAAAACHH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wtATTTTAww Original Motif Reverse Complement HDMAAAAAMHHY HWTAAAATHD HDTAAAAWMDHY Direction: Forward Position #: 1 Overlap #: 10 Alignment: HDMAAAAAMHHY HWTAAAATHD-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cbCCAGCTCmyk Reverse Complement Original Motif KHDYWTTTTADH BBCCAGCTCMBD DBHCAKYTYMHD Direction: Forward Position #: 1 Overlap #: 12 Alignment: KHDYWTTTTADH BBCCAGCTCMBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 89 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- aaACAAAACaa aaCAAAAACaa Reverse Complement Reverse Complement BHGTTTTGTTT HHGTTTTTGHH HHGTTTTKKTT Direction: Backward Position #: 1 Overlap #: 11 Alignment: BHGTTTTGTTT HHGTTTTTGHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXI1 Original Motif Original Motif HHGTTTTKKTT KBDTRTTTRTTT DBGTKTTTGTTT Direction: Forward Position #: 1 Overlap #: 11 Alignment: HHGTTTTKKTT- KBDTRTTTRTTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 60 Combined Motif Original Motif Reverse Complement DBGTKTTTGTTT YTTTTTRTTTTDTT DBBTTTTTRTTTTDTT Direction: Forward Position #: 3 Overlap #: 10 Alignment: DBGTKTTTGTTT---- --YTTTTTRTTTTDTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXF2 Original Motif Reverse Complement DBBTTTTTRTTTTDTT DTTGTTTACSBTBB DHTKTTTWVBTTTBTT Direction: Forward Position #: 1 Overlap #: 14 Alignment: DBBTTTTTRTTTTDTT DTTGTTTACSBTBB-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwATkTTTAww Combined Motif Original Motif Reverse Complement DHTKTTTWVBTTTBTT HHTAAARATHD DHTDTTWAADWTHDTT Direction: Forward Position #: 4 Overlap #: 11 Alignment: DHTKTTTWVBTTTBTT ---HHTAAARATHD-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 90 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ymTACATAyw awAACAcAAwa Reverse Complement Reverse Complement DBTATGTAHH BDTTGTGTTDD BDTTATGTWHH Direction: Forward Position #: 2 Overlap #: 10 Alignment: -DBTATGTAHH BDTTGTGTTDD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwATkTTTAww Reverse Complement Reverse Complement HHWACATAADV HHTAAARATHD HHTAMADAWHD Direction: Forward Position #: 1 Overlap #: 11 Alignment: HHWACATAADV HHTAAARATHD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXI1 Reverse Complement Original Motif DHWTDTRTAHH KBDTRTTTRTTT DBDTRTTTATDT Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHWTDTRTAHH- KBDTRTTTRTTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXF2 Reverse Complement Original Motif ADATAAAMADVD BHADSGTAAACAAD BAAABRTAAAYADD Direction: Forward Position #: 2 Overlap #: 12 Alignment: -ADATAAAMADVD- BHADSGTAAACAAD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAATAAww Reverse Complement Reverse Complement DDTKTTTAKBTTTB DDTTATTAHD DDTTWTTAKBTTTB Direction: Forward Position #: 1 Overlap #: 10 Alignment: DDTKTTTAKBTTTB DDTTATTAHD---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 91 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wtATTTTAww wwTAATAAww Reverse Complement Original Motif HWTAAAATHD DHTAATAADD HHTAAWAWHD Direction: Forward Position #: 1 Overlap #: 10 Alignment: HWTAAAATHD DHTAATAADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwATkTTTAww Original Motif Reverse Complement HHTAAWAWHD HHTAAARATHD HHTAAAAATHD Direction: Forward Position #: 1 Overlap #: 10 Alignment: HHTAAWAWHD- HHTAAARATHD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wtAATTAAtw Reverse Complement Reverse Complement DHATTTTTAHH HATTAATTAD HHWTWWTTADH Direction: Forward Position #: 1 Overlap #: 10 Alignment: DHATTTTTAHH HATTAATTAD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif rmATGCTAww Reverse Complement Reverse Complement HDTAAWWAWHH HDTAGCATHD HDTARYAWHDH Direction: Forward Position #: 1 Overlap #: 10 Alignment: HDTAAWWAWHH HDTAGCATHD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaACAAAACaa Original Motif Original Motif HDTARYAWHDH AAACAAAACHV AHAYAAAAYHDH Direction: Forward Position #: 2 Overlap #: 10 Alignment: -HDTARYAWHDH AAACAAAACHV- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 92 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cgAKGyCAcg sgArGCCACg Original Motif Original Motif CGAGGYCACV SGARGCCACG VGAGGCCACG Direction: Forward Position #: 1 Overlap #: 10 Alignment: CGAGGYCACV SGARGCCACG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif crCGyGCRcg Reverse Complement Reverse Complement CGTGGCCTCV CGTGCACGCG CGTGSMCKCG Direction: Forward Position #: 1 Overlap #: 10 Alignment: CGTGGCCTCV CGTGCACGCG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR1H2RXRA Reverse Complement Original Motif CGRGRSCACG AAAGGTCAAAGGTCAAC MRRGGTCAMAGGTCAAC Direction: Forward Position #: 1 Overlap #: 10 Alignment: CGRGRSCACG------- AAAGGTCAAAGGTCAAC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif rmATGCTAww Original Motif Original Motif MRRGGTCAMAGGTCAAC DHATGCTADH HVAKGCYAHDGGTCAAC Direction: Forward Position #: 1 Overlap #: 10 Alignment: MRRGGTCAMAGGTCAAC DHATGCTADH------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cbCCAGCTCmyk Reverse Complement Reverse Complement GTTGACCDHTKGCRTBH HBYGAGCTGGBB BTTGASCTGKKBCRTBH Direction: Forward Position #: 1 Overlap #: 12 Alignment: GTTGACCDHTKGCRTBH HBYGAGCTGGBB----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 93 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cmCARCACTwr cbCCAGCTCmyk Original Motif Original Motif BHCAGCACTHV BBCCAGCTCMBD BCCAGCWCHHDB Direction: Backward Position #: 1 Overlap #: 11 Alignment: -BHCAGCACTHV BBCCAGCTCMBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cmCCACACCcm Original Motif Original Motif BCCAGCWCHHDB HVCCACACCBV BHCMRCWCCHVB Direction: Forward Position #: 1 Overlap #: 11 Alignment: BCCAGCWCHHDB HVCCACACCBV- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ctGAGTCATCkb Original Motif Reverse Complement BHCMRCWCCHVB BHGATGACTCDD BHSADSACYCVB Direction: Forward Position #: 1 Overlap #: 12 Alignment: BHCMRCWCCHVB BHGATGACTCDD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif hsCCAGGCCTGGsr Original Motif Original Motif BHSADSACYCVB HVCCAGGCCTGGBD HVCMAGRCCYGGBD Direction: Forward Position #: 1 Overlap #: 12 Alignment: BHSADSACYCVB-- HVCCAGGCCTGGBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif csCCaGCTCCCgs Reverse Complement Original Motif HBCCMGGKCTRGVD BBCCAGCTCCCVB HBCCMGSKCBSSBD Direction: Forward Position #: 1 Overlap #: 13 Alignment: HBCCMGGKCTRGVD BBCCAGCTCCCVB- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 94 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- yrTCWCAAyr awAACAcAAwa Reverse Complement Reverse Complement HKTTGTGABH BDTTGTGTTDD HDTTGTGWTHD Direction: Forward Position #: 1 Overlap #: 10 Alignment: HKTTGTGABH- BDTTGTGTTDD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Sox2 Reverse Complement Reverse Complement DHAWCACAADD TTTGCATMACAAWGG DDWDCAYAAVAAWGG Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHAWCACAADD---- TTTGCATMACAAWGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwTAATAAww Combined Motif Original Motif Original Motif DDWDCAYAAVAAWGG DHTAATAADD DDDTMATAAHAAWGG Direction: Forward Position #: 2 Overlap #: 10 Alignment: DDWDCAYAAVAAWGG -DHTAATAADD---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Pou5f1 Reverse Complement Reverse Complement CCWTTDTTATYADDD ATTTGCATHACAAWG HYTTKCWTAWYAAWD Direction: Forward Position #: 1 Overlap #: 15 Alignment: CCWTTDTTATYADDD ATTTGCATHACAAWG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaACAAAACaa Reverse Complement Original Motif HWTTKWTAWGYAAMD AAACAAAACHV VDAWMAAAAMMHWTTK Direction: Backward Position #: 2 Overlap #: 10 Alignment: HWTTKWTAWGYAAMD- -----AAACAAAACHV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 95 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- rmATGCTAww wtATTTTAww Original Motif Original Motif DHATGCTADH DHATTTTAWH DHATKYTAHH Direction: Backward Position #: 1 Overlap #: 10 Alignment: DHATGCTADH DHATTTTAWH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ysCmAGCACwy Original Motif Reverse Complement DHATKYTAHH DHGTGCTRGVH DHRTGCTAGBH Direction: Forward Position #: 1 Overlap #: 10 Alignment: DHATKYTAHH- DHGTGCTRGVH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Pou5f1 Original Motif Reverse Complement DHRTGCTAGBH ATTTGCATHACAAWG DTDTGCWWVDVAAWG Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHRTGCTAGBH---- ATTTGCATHACAAWG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif asMAAGCTTKst Original Motif Reverse Complement DTDTGCWWVDVAAWG DVCAAGCTTGBH DDYAWGCTTRHVAAWG Direction: Forward Position #: 2 Overlap #: 11 Alignment: -DTDTGCWWVDVAAWG DVCAAGCTTGBH---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cmCARCACTwr Original Motif Reverse Complement DDYAWGCTTRHVAAWG VHAGTGCTGHB HHARTGCTKDDVAAWG Direction: Forward Position #: 1 Overlap #: 11 Alignment: DDYAWGCTTRHVAAWG VHAGTGCTGHB----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 96 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- mdAAcCAACG sgArGCCACg Original Motif Original Motif VDAACCAACG SGARGCCACG VDAASCMACG Direction: Forward Position #: 1 Overlap #: 10 Alignment: VDAACCAACG SGARGCCACG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 60 Reverse Complement Reverse Complement CGTYGSTTHV YTTTTTRTTTTDTT YTYKTTGBTTYDTT Direction: Forward Position #: 3 Overlap #: 10 Alignment: --CGTYGSTTHV-- YTTTTTRTTTTDTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wtAATTAAtw Combined Motif Original Motif Reverse Complement YTYKTTGBTTYDTT HATTAATTAD YTHDTTRATTHDTT Direction: Forward Position #: 3 Overlap #: 10 Alignment: YTYKTTGBTTYDTT --HATTAATTAD-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Foxq1 Reverse Complement Reverse Complement AADHAATKAADHAM WATAAACAATH AATAAACWAWDHAM Direction: Forward Position #: 1 Overlap #: 11 Alignment: AADHAATKAADHAM WATAAACAATH--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif htCTGyKTCbt Original Motif Reverse Complement AATAAACWAWDHAM HVGAAMCAGVH DAKAAACARDHHAM Direction: Forward Position #: 1 Overlap #: 11 Alignment: AATAAACWAWDHAM HVGAAMCAGVH--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 97 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- sgArGCCACg cgAKGyCAcg Original Motif Original Motif SGARGCCACG CGAGGYCACV VGAGGCCACG Direction: Backward Position #: 1 Overlap #: 10 Alignment: SGARGCCACG CGAGGYCACV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif mdAAcCAACG Original Motif Original Motif VGAGGCCACG VDAACCAACG VDAASCMACG Direction: Forward Position #: 1 Overlap #: 10 Alignment: VGAGGCCACG VDAACCAACG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif rmATGCTAww Reverse Complement Reverse Complement CGTYGSTTHV HDTAGCATHD HDTHGCWTHD Direction: Forward Position #: 1 Overlap #: 10 Alignment: CGTYGSTTHV HDTAGCATHD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yvTGCAGsCAcg Original Motif Reverse Complement HDTHGCWTHD VBTGSCTGCAVB VBTVGCTKCAVB Direction: Forward Position #: 1 Overlap #: 10 Alignment: HDTHGCWTHD-- VBTGSCTGCAVB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dyCTGCyTCyc Original Motif Original Motif VBTVGCTKCAVB DHCTGCYTCHB VBYTGCYTCHVB Direction: Forward Position #: 1 Overlap #: 11 Alignment: VBTVGCTKCAVB DHCTGCYTCHB- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 98 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- myyCCCACmTGCmyr Pax4 Original Motif Original Motif HBCCCCACMTGCMHV RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC RAAWAWTHDCCCCACMTGCMHHMHCMCYMC Direction: Forward Position #: 8 Overlap #: 15 Alignment: -------HBCCCCACMTGCMHV-------- RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- yrCACATGCATGTGyr Combined Motif Reverse Complement Reverse Complement GRKGRGDRHDRGCAYGTGGGGDHAWTWTTM DVCACATGCATGTGBH GRKGDVVACADGCATGTGDVGDHAWTWTTM Direction: Forward Position #: 5 Overlap #: 16 Alignment: GRKGRGDRHDRGCAYGTGGGGDHAWTWTTM ----DVCACATGCATGTGBH---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- hsCCAGGCCTGGsr Combined Motif Original Motif Original Motif GRKGDVVACADGCATGTGDVGDHAWTWTTM HVCCAGGCCTGGBD GRKGDVVDCMAGSMYKKGBVGDHAWTWTTM Direction: Forward Position #: 7 Overlap #: 14 Alignment: GRKGDVVACADGCATGTGDVGDHAWTWTTM ------HVCCAGGCCTGGBD---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 59 Combined Motif Original Motif Reverse Complement GRKGDVVDCMAGSMYKKGBVGDHAWTWTTM GGMGKSHGAGGBAG GRKGDVGDCMRRGVYDGGBVGDHAWTWTTM Direction: Forward Position #: 4 Overlap #: 14 Alignment: GRKGDVVDCMAGSMYKKGBVGDHAWTWTTM ---GGMGKSHGAGGBAG------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 58 Reverse Complement Original Motif RAAWAWTHDCVBCCDKVCMMRGHCBHCYMC CACACACACACACA ACMCABVCHCACHCRAAWAWTHDCVBCCDKV Direction: Backward Position #: 2 Overlap #: 13 Alignment: RAAWAWTHDCVBCCDKVCMMRGHCBHCYMC- -----------------CACACACACACACA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 99 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- graGGGGGArr rryCAGGGAyw Original Motif Original Motif DVAGGGGGADD DDYCAGGGAHD DDHSRGGGAHD Direction: Backward Position #: 1 Overlap #: 11 Alignment: DVAGGGGGADD DDYCAGGGAHD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 59 Combined Motif Reverse Complement Original Motif HHTCCCMSHDH CTBCCTCHSYCYCC HCTCCCHCHBHCYCC Direction: Forward Position #: 2 Overlap #: 10 Alignment: HHTCCCMSHDH---- -CTBCCTCHSYCYCC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cmCCACACCcm Original Motif Original Motif HCTCCCHCHBHCYCC HVCCACACCBV HHYCMCHCCBHCYCC Direction: Forward Position #: 1 Overlap #: 11 Alignment: HCTCCCHCHBHCYCC HVCCACACCBV---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ctGAGTkTGAgg Original Motif Reverse Complement HHYCMCHCCBHCYCC HHTCARACTCVV HHTCAMACYCHCYCC Direction: Forward Position #: 1 Overlap #: 12 Alignment: HHYCMCHCCBHCYCC HHTCARACTCVV--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ccCCmCaCCCCcc Original Motif Original Motif HHTCAMACYCHCYCC HBCCCCACCCCBH HHYCMCACYCCBHCC Direction: Forward Position #: 1 Overlap #: 13 Alignment: HHTCAMACYCHCYCC HBCCCCACCCCBH-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 100 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwTAATAAww wtATTTTAww Original Motif Reverse Complement DHTAATAADD HWTAAAATHD HHTAAWAWHD Direction: Backward Position #: 1 Overlap #: 10 Alignment: DHTAATAADD HWTAAAATHD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwATkTTTAww Original Motif Reverse Complement HHTAAWAWHD HHTAAARATHD HHTAAAAATHD Direction: Forward Position #: 1 Overlap #: 10 Alignment: HHTAAWAWHD- HHTAAARATHD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAATwwATTAww Original Motif Reverse Complement HHTAAAAATHD HHTAATWWATTADD HHTAAWAAWTTADD Direction: Forward Position #: 1 Overlap #: 11 Alignment: HHTAAAAATHD--- HHTAATWWATTADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wtAATTAAtw Original Motif Reverse Complement HHTAAWAAWTTADD HATTAATTAD HHTWAATWWDTADD Direction: Forward Position #: 1 Overlap #: 10 Alignment: HHTAAWAAWTTADD HATTAATTAD---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaCAAAAACaa Original Motif Original Motif HHTWAATWWDTADD HHCAAAAACHH HHYAAAWAMHHADD Direction: Forward Position #: 1 Overlap #: 11 Alignment: HHTWAATWWDTADD HHCAAAAACHH--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 101 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- csCACCCCgg ccCCmCaCCCCcc Original Motif Original Motif HVCACCCCBB HBCCCCACCCCBH HBCCMCACCCCBV Direction: Forward Position #: 4 Overlap #: 10 Alignment: ---HVCACCCCBB HBCCCCACCCCBH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cmCCACACCcm Original Motif Original Motif HBCCMCACCCCBV HVCCACACCBV HHCCMCACCCCBV Direction: Forward Position #: 1 Overlap #: 11 Alignment: HBCCMCACCCCBV HVCCACACCBV-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif graGGGGGArr Original Motif Reverse Complement HHCCMCACCCCBV HDTCCCCCTVH HHYCCCMCYVVBV Direction: Forward Position #: 1 Overlap #: 11 Alignment: HHCCMCACCCCBV HDTCCCCCTVH-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cbCCAGCTCmyk Original Motif Original Motif HHYCCCMCYVVBV BBCCAGCTCMBD HBCCMSCYCMBBV Direction: Forward Position #: 1 Overlap #: 12 Alignment: HHYCCCMCYVVBV BBCCAGCTCMBD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cmCARCACTwr Original Motif Original Motif HBCCMSCYCMBBV BHCAGCACTHV HHCMRCMCYHVBV Direction: Forward Position #: 1 Overlap #: 11 Alignment: HBCCMSCYCMBBV BHCAGCACTHV-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 102 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssCkGGYCCCsg csCCaGCTCCCgs Reverse Complement Reverse Complement VVGGGGCCRGBB BVGGGAGCTGGBB BVGGGRGCYGGBB Direction: Forward Position #: 2 Overlap #: 12 Alignment: -VVGGGGCCRGBB BVGGGAGCTGGBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cswGGGCCCwsg Reverse Complement Reverse Complement BBCCKGCMCCCVB BBWGGGCCCWVV BBHSGGCCCHVVB Direction: Forward Position #: 1 Overlap #: 12 Alignment: BBCCKGCMCCCVB BBWGGGCCCWVV- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ccCCmCaCCCCcc Combined Motif Reverse Complement Reverse Complement BVVDGGGCCSDBB DBGGGGTGGGGBD BVVDGGGSYGRGGBD Direction: Forward Position #: 3 Overlap #: 11 Alignment: BVVDGGGCCSDBB-- --DBGGGGTGGGGBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif hsCCAGGCCTGGsr Original Motif Reverse Complement BVVDGGGSYGRGGBD HBCCAGGCCTGGVD BVVCRGGCCKGGBDD Direction: Forward Position #: 1 Overlap #: 14 Alignment: BVVDGGGSYGRGGBD HBCCAGGCCTGGVD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cbCCAGCTCmyk Reverse Complement Original Motif HHBCCRGGCCKGVVB BBCCAGCTCMBD HBCCMGSKCCBBVVB Direction: Forward Position #: 1 Overlap #: 12 Alignment: HHBCCRGGCCKGVVB BBCCAGCTCMBD--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 103 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- csCCaGCTCCCgs myyCCCACmTGCmyr Original Motif Original Motif BBCCAGCTCCCVB HBCCCCACMTGCMHV HBBCCCASCTSCCBB Direction: Forward Position #: 3 Overlap #: 13 Alignment: --BBCCAGCTCCCVB HBCCCCACMTGCMHV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif hsCCAGGCCTGGsr Original Motif Original Motif HBBCCCASCTSCCBB HVCCAGGCCTGGBD HBCCMSRCCTGSVBB Direction: Forward Position #: 1 Overlap #: 14 Alignment: HBBCCCASCTSCCBB HVCCAGGCCTGGBD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ccCCmCaCCCCcc Original Motif Original Motif HBCCMSRCCTGSVBB HBCCCCACCCCBH HBCCMCACCYSSVBB Direction: Forward Position #: 1 Overlap #: 13 Alignment: HBCCMSRCCTGSVBB HBCCCCACCCCBH-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax4 Combined Motif Reverse Complement Reverse Complement BBVSSKGGTGRGGBD GRKGRGDRHVHDDVBBHHBRGDWAWTWTTM BDBGVKGGDGDGGVDBHHBRGDWAWTWTTM Direction: Forward Position #: 1 Overlap #: 15 Alignment: BBVSSKGGTGRGGBD--------------- GRKGRGDRHVHDDVBBHHBRGDWAWTWTTM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 59 Combined Motif Reverse Complement Original Motif RAAWAWTWDCMBHHVHBCCHCDCCYVCBHB CTBCCTCHSYCYCC RAAWACTDBCHCHBHCHCCHCDCCYVCBHB Direction: Forward Position #: 6 Overlap #: 14 Alignment: RAAWAWTWDCMBHHVHBCCHCDCCYVCBHB -----CTBCCTCHSYCYCC----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 104 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cgCCCwGGScsg ccCCmCaCCCCcc Original Motif Original Motif VDCCCWGGGCBB HBCCCCACCCCBH VCCCCWSSSCBBH Direction: Backward Position #: 1 Overlap #: 12 Alignment: -VDCCCWGGGCBB HBCCCCACCCCBH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yvTGCAGsCAcg Original Motif Original Motif VCCCCWSSSCBBH BVTGCAGSCABV BVYSCASSCMBVH Direction: Forward Position #: 1 Overlap #: 12 Alignment: VCCCCWSSSCBBH BVTGCAGSCABV- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- csCCaGCTCCCgs Combined Motif Reverse Complement Reverse Complement DVBYGSSTGSKVB BVGGGAGCTGGBB DVBBGSSWGCKGGBB Direction: Forward Position #: 3 Overlap #: 11 Alignment: DVBYGSSTGSKVB-- --BVGGGAGCTGGBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- myyCCCACmTGCmyr Combined Motif Original Motif Reverse Complement DVBBGSSWGCKGGBB VDRGCAYGTGGGGVD DVVBGGCAKSTGGGBVD Direction: Forward Position #: 3 Overlap #: 13 Alignment: DVBBGSSWGCKGGBB-- --VDRGCAYGTGGGGVD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 59 Combined Motif Original Motif Reverse Complement DVVBGGCAKSTGGGBVD GGMGKSHGAGGBAG DVBHGGSAGVKGSVGVD Direction: Forward Position #: 2 Overlap #: 14 Alignment: DVVBGGCAKSTGGGBVD -GGMGKSHGAGGBAG-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 105 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ccGCAGCCss yvTGCAGsCAcg Reverse Complement Reverse Complement BBGGCTGCGV VBTGSCTGCAVB BBTGGCTGCRVV Direction: Backward Position #: 2 Overlap #: 10 Alignment: -BBGGCTGCGV- VBTGSCTGCAVB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif csCCaGCTCCCgs Reverse Complement Reverse Complement VVKGCAGCCABB BVGGGAGCTGGBB BVGGSAGCCRSBB Direction: Forward Position #: 1 Overlap #: 12 Alignment: VVKGCAGCCABB- BVGGGAGCTGGBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ssCkGGYCCCsg Reverse Complement Original Motif BBSMGGCTSCCVB BBCKGGCCCCVV BBCBGGCYSCBVB Direction: Forward Position #: 1 Overlap #: 12 Alignment: BBSMGGCTSCCVB BBCKGGCCCCVV- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cbCCAGCTCmyk Original Motif Original Motif BBCBGGCYSCBVB BBCCAGCTCMBD BBCCRGCTCCBVB Direction: Forward Position #: 1 Overlap #: 12 Alignment: BBCBGGCYSCBVB BBCCAGCTCMBD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dyCTGCyTCyc Original Motif Original Motif BBCCRGCTCCBVB DHCTGCYTCHB BBCYGSCTCHBVB Direction: Forward Position #: 1 Overlap #: 11 Alignment: BBCCRGCTCCBVB DHCTGCYTCHB-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 106 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wtAATTAAtw Lhx3 Original Motif Reverse Complement DTAATTAATH BMWTAATTAATTW TWHWWAWTWAATB Direction: Backward Position #: 3 Overlap #: 10 Alignment: -DTAATTAATH-- BMWTAATTAATTW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAATwwATTAww Reverse Complement Reverse Complement BATTWAWTWWHWA HHTAATWWATTADD HWTWAWWTWTTAAD Direction: Forward Position #: 1 Overlap #: 13 Alignment: BATTWAWTWWHWA- HHTAATWWATTADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wtATTTTAww Original Motif Reverse Complement HWTWAWWTWTTAAD HWTAAAATHD HWTAAAATAWTAAD Direction: Forward Position #: 1 Overlap #: 10 Alignment: HWTWAWWTWTTAAD HWTAAAATHD---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAATAAww Original Motif Original Motif HWTAAAATAWTAAD DHTAATAADD HHTAAWAWHDTAAD Direction: Forward Position #: 1 Overlap #: 10 Alignment: HWTAAAATAWTAAD DHTAATAADD---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF1A Reverse Complement Reverse Complement DTTADHWTWTTAHH GYTAATDATTAACC DBTAATWWWTWACH Direction: Forward Position #: 1 Overlap #: 14 Alignment: DTTADHWTWTTAHH GYTAATDATTAACC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 107 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- crCGyGCRcg cgAKGyCAcg Reverse Complement Reverse Complement CGTGCACGCG VGTGMCCTCG CGTGCMCKCG Direction: Forward Position #: 1 Overlap #: 10 Alignment: CGTGCACGCG VGTGMCCTCG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ysCmAGCACwy Reverse Complement Original Motif CGRGRGCACG HVCMAGCACHH HVVVRGCACDH Direction: Forward Position #: 1 Overlap #: 10 Alignment: CGRGRGCACG- HVCMAGCACHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif myyCCCACmTGCmyr Original Motif Original Motif HVVVRGCACDH HBCCCCACMTGCMHV HBBCCMRCAYGCMHV Direction: Forward Position #: 2 Overlap #: 11 Alignment: -HVVVRGCACDH--- HBCCCCACMTGCMHV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yvTGCAGsCAcg Reverse Complement Reverse Complement VDRGCMTGKRGGBBD VBTGSCTGCAVB VBKGCCTGYAVGBBD Direction: Forward Position #: 1 Overlap #: 12 Alignment: VDRGCMTGKRGGBBD VBTGSCTGCAVB--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ssCkGGYCCCsg Reverse Complement Reverse Complement HBBCVTKCAGGCRBV VVGGGGCCRGBB VBSSSKCCAGSCRBV Direction: Forward Position #: 1 Overlap #: 12 Alignment: HBBCVTKCAGGCRBV VVGGGGCCRGBB--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 108 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwATkTTTAww Foxq1 Original Motif Original Motif DHATKTTTAHH HATTGTTTATW HDATGTTTATW Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHATKTTTAHH HATTGTTTATW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaCAAAAACaa Original Motif Reverse Complement HDATGTTTATW HHGTTTTTGHH HHRTKTTTRDD Direction: Forward Position #: 1 Overlap #: 11 Alignment: HDATGTTTATW HHGTTTTTGHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXI1 Original Motif Original Motif HHRTKTTTRDD KBDTRTTTRTTT DDDTKTTTRTWT Direction: Forward Position #: 1 Overlap #: 11 Alignment: HHRTKTTTRDD- KBDTRTTTRTTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif htCTGyKTCbt Original Motif Original Motif DDDTKTTTRTWT HBCTGYTTCBH DDCTGTTTSBDT Direction: Forward Position #: 1 Overlap #: 11 Alignment: DDDTKTTTRTWT HBCTGYTTCBH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TBP Combined Motif Reverse Complement Original Motif ADVSAAACAGDD STATAAAWRVVVVBV ADVBAWAHADVVVVVBV Direction: Forward Position #: 3 Overlap #: 10 Alignment: ADVSAAACAGDD----- --STATAAAWRVVVVBV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 109 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- aaCAAAAACaa aaACAAAACaa Reverse Complement Reverse Complement HHGTTTTTGHH BHGTTTTGTTT HHGTTTTKKTT Direction: Backward Position #: 1 Overlap #: 11 Alignment: HHGTTTTTGHH BHGTTTTGTTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yaCATAYACay Original Motif Reverse Complement HHGTTTTKKTT DTGTGTATGBD DTGTKTWTGDD Direction: Forward Position #: 1 Overlap #: 11 Alignment: HHGTTTTKKTT DTGTGTATGBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwATkTTTAww Reverse Complement Reverse Complement DDCAWARACAD HHTAAARATHD DHYAAARAYHD Direction: Forward Position #: 1 Overlap #: 11 Alignment: DDCAWARACAD HHTAAARATHD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXF2 Reverse Complement Reverse Complement DHMTKTTTMHD DTTGTTTACSBTBB DTWKTTTWMVDTBB Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHMTKTTTMHD--- DTTGTTTACSBTBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXI1 Original Motif Original Motif DTWKTTTWMVDTBB KBDTRTTTRTTT DBHTKTTTVKDTBB Direction: Forward Position #: 1 Overlap #: 12 Alignment: DTWKTTTWMVDTBB KBDTRTTTRTTT-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 110 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cmCCACACCcm ccCCmCaCCCCcc Original Motif Original Motif HVCCACACCBV HBCCCCACCCCBH BHHHCCMCACCCC Direction: Backward Position #: 3 Overlap #: 11 Alignment: HVCCACACCBV-- HBCCCCACCCCBH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cmCARCACTwr Reverse Complement Reverse Complement GGGGTGYGGDDDB VHAGTGCTGHB VDRGTGCKGDBDB Direction: Forward Position #: 1 Overlap #: 11 Alignment: GGGGTGYGGDDDB VHAGTGCTGHB-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif myyCCCACmTGCmyr Reverse Complement Original Motif BHBDCYGCACKHV HBCCCCACMTGCMHV VHBCCCRCAYGCMHV Direction: Forward Position #: 1 Overlap #: 13 Alignment: BHBDCYGCACKHV-- HBCCCCACMTGCMHV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif graGGGGGArr Original Motif Reverse Complement VHBCCCRCAYGCMHV HDTCCCCCTVH HBTCCCVCWHBCMHV Direction: Forward Position #: 1 Overlap #: 11 Alignment: VHBCCCRCAYGCMHV HDTCCCCCTVH---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dyCTGCyTCyc Original Motif Original Motif HBTCCCVCWHBCMHV DHCTGCYTCHB DHCTSCCTCHHBCMHV Direction: Forward Position #: 2 Overlap #: 10 Alignment: -HBTCCCVCWHBCMHV DHCTGCYTCHB----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 111 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ccCCmCaCCCCcc myyCCCACmTGCmyr Original Motif Original Motif HBCCCCACCCCBH HBCCCCACMTGCMHV CCCCMCAYSCCBVHB Direction: Backward Position #: 1 Overlap #: 13 Alignment: --HBCCCCACCCCBH HBCCCCACMTGCMHV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 59 Combined Motif Reverse Complement Reverse Complement VDVBGGSKTGYGGGG GGMGKSHGAGGBAG VDVBVGBBHGHGGBVG Direction: Forward Position #: 3 Overlap #: 13 Alignment: VDVBGGSKTGYGGGG- --GGMGKSHGAGGBAG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- csCCaGCTCCCgs Combined Motif Original Motif Reverse Complement VDVBVGBBHGHGGBVG BVGGGAGCTGGBB VDVBVGGGHGCKGGVG Direction: Forward Position #: 4 Overlap #: 13 Alignment: VDVBVGBBHGHGGBVG ---BVGGGAGCTGGBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax4 Combined Motif Original Motif Reverse Complement VDVBVGGGHGCKGGVG GRKGRGDRHVHDDVBBHHBRGDWAWTWTTM VDVGVGGGDGVDGBDGVBBHHBRGDWAWTWTTM Direction: Forward Position #: 4 Overlap #: 13 Alignment: VDVBVGGGHGCKGGVG----------------- ---GRKGRGDRHVHDDVBBHHBRGDWAWTWTTM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- hsCCAGGCCTGGsr Combined Motif Original Motif Reverse Complement VDVGVGGGDGVDGBDGVBBHHBRGDWAWTWTTM HBCCAGGCCTGGVD VDVGVBSCAGGCSTGGVDBHHBRGDWAWTWTTM Direction: Forward Position #: 5 Overlap #: 14 Alignment: VDVGVGGGDGVDGBDGVBBHHBRGDWAWTWTTM ----HBCCAGGCCTGGVD--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 112 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ctGAGTkTGAgg ctGAGTCATCkb Reverse Complement Reverse Complement HHTCARACTCVV BHGATGACTCDD HHKMWRACTCVD Direction: Backward Position #: 1 Overlap #: 12 Alignment: HHTCARACTCVV BHGATGACTCDD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ccCCmCaCCCCcc Original Motif Original Motif HHKMWRACTCVD HBCCCCACCCCBH HHBCMSACYCHBH Direction: Forward Position #: 1 Overlap #: 12 Alignment: HHKMWRACTCVD- HBCCCCACCCCBH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif myyCCCACmTGCmyr Reverse Complement Reverse Complement DBDGMGTSYGBDD VDRGCAYGTGGGGVD VBRGCRTGTGGGDVD Direction: Forward Position #: 1 Overlap #: 13 Alignment: DBDGMGTSYGBDD-- VDRGCAYGTGGGGVD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax4 Combined Motif Original Motif Reverse Complement VBRGCRTGTGGGDVD GRKGRGDRHVHDDVBBHHBRGDWAWTWTTM VBGGVRDGDGVVBDDVBBHHBRGDWAWTWTTM Direction: Forward Position #: 3 Overlap #: 13 Alignment: VBRGCRTGTGGGDVD----------------- --GRKGRGDRHVHDDVBBHHBRGDWAWTWTTM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cbCCAGCTCmyk Original Motif Reverse Complement VBGGVRDGDGVVBDDVBBHHBRGDWAWTWTTM HBYGAGCTGGBB HBBGRGSTGKDVVBDDVBBHHBRGDWAWTWTTM Direction: Forward Position #: 2 Overlap #: 11 Alignment: -VBGGVRDGDGVVBDDVBBHHBRGDWAWTWTTM HBYGAGCTGGBB--------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 113 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- htCTGyKTCbt dyCTGCyTCyc Original Motif Original Motif HBCTGYTTCBH DHCTGCYTCHB DHCTGCYTCHH Direction: Forward Position #: 1 Overlap #: 11 Alignment: HBCTGYTTCBH DHCTGCYTCHB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwATkTTTAww Original Motif Original Motif DHCTGCYTCHH DHATKTTTAHH DHMTKYTTMHH Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHCTGCYTCHH DHATKTTTAHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif awAACAcAAwa Reverse Complement Original Motif HHYAAMYAYHD DDAACACAADV DHHAMACAHHD Direction: Forward Position #: 1 Overlap #: 11 Alignment: HHYAAMYAYHD DDAACACAADV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ctGAGTCATCkb Original Motif Original Motif DHHAMACAHHD HDGAGTCATCDB HHDASWCATCDB Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHHAMACAHHD- HDGAGTCATCDB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXI1 Original Motif Reverse Complement HHDASWCATCDB AAAMAAAMADBY AHAVAAACADBHB Direction: Forward Position #: 2 Overlap #: 11 Alignment: -HHDASWCATCDB AAAMAAAMADBY- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 114 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- awAACAcAAwa Motif 60 Original Motif Original Motif DDAACACAADV AADAAAAMAAAAAM AADAAMAMAAAAAM Direction: Forward Position #: 2 Overlap #: 11 Alignment: -DDAACACAADV-- AADAAAAMAAAAAM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Evi1 Original Motif Original Motif AADAAMAMAAAAAM AAGAYAAGATAABA AAGAWAASAWAADA Direction: Forward Position #: 1 Overlap #: 14 Alignment: AADAAMAMAAAAAM AAGAYAAGATAABA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXI1 Original Motif Reverse Complement AAGAWAASAWAADA AAAMAAAMADBY AARAAAAVAWHHDA Direction: Forward Position #: 1 Overlap #: 12 Alignment: AAGAWAASAWAADA AAAMAAAMADBY-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Sox2 Original Motif Reverse Complement AARAAAAVAWHHDA TTTGCATMACAAWGG TTWDVAWAACAAWDDA Direction: Forward Position #: 3 Overlap #: 13 Alignment: --AARAAAAVAWHHDA TTTGCATMACAAWGG- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yaCATAYACay Reverse Complement Reverse Complement THHWTTGTTWTVHWAA DTGTGTATGBD BHGTKTRTKHTVHWAA Direction: Forward Position #: 1 Overlap #: 11 Alignment: THHWTTGTTWTVHWAA DTGTGTATGBD----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 115 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ysCmAGCACwy cbCCAGCTCmyk Original Motif Original Motif HVCMAGCACHH BBCCAGCTCMBD DHBCCAGCWCHB Direction: Backward Position #: 2 Overlap #: 11 Alignment: HVCMAGCACHH- BBCCAGCTCMBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yaCATAYACay Reverse Complement Reverse Complement BHGWGCTGGBHH DTGTGTATGBD BHGTGYWKGBDH Direction: Forward Position #: 1 Overlap #: 11 Alignment: BHGWGCTGGBHH DTGTGTATGBD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif csCCaGCTCCCgs Reverse Complement Original Motif DHVCRWMCACHB BBCCAGCTCCCVB BBVCADCYVCCBB Direction: Forward Position #: 1 Overlap #: 12 Alignment: DHVCRWMCACHB- BBCCAGCTCCCVB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif asMAAGCTTKst Original Motif Original Motif BBVCADCYVCCBB HBCAAGCTTGVD HBCMAGCTTSVBB Direction: Forward Position #: 1 Overlap #: 12 Alignment: BBVCADCYVCCBB HBCAAGCTTGVD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ssCkGGYCCCsg Original Motif Original Motif HBCMAGCTTSVBB BBCKGGCCCCVV BBCDRGCYYCVVB Direction: Forward Position #: 1 Overlap #: 12 Alignment: HBCMAGCTTSVBB BBCKGGCCCCVV- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 116 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- dyCTGCyTCyc htCTGyKTCbt Original Motif Original Motif DHCTGCYTCHB HBCTGYTTCBH DHCTGCYTCHH Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHCTGCYTCHB HBCTGYTTCBH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ctGAGTCATCkb Reverse Complement Original Motif HHGAMGCAGHD HDGAGTCATCDB HHGAGKCAKCDB Direction: Forward Position #: 1 Overlap #: 11 Alignment: HHGAMGCAGHD- HDGAGTCATCDB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cmCCACACCcm Original Motif Reverse Complement HHGAGKCAKCDB VBGGTGTGGBD VDGRDGYRGHDB Direction: Forward Position #: 1 Overlap #: 11 Alignment: HHGAGKCAKCDB VBGGTGTGGBD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ssCkGGYCCCsg Original Motif Reverse Complement VDGRDGYRGHDB VVGGGGCCRGBB VBGGGGCVGGBB Direction: Forward Position #: 1 Overlap #: 12 Alignment: VDGRDGYRGHDB VVGGGGCCRGBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cbCCAGCTCmyk Reverse Complement Original Motif BBCCVGCCCCBV BBCCAGCTCMBD BBCCAGCTCCBV Direction: Forward Position #: 1 Overlap #: 12 Alignment: BBCCVGCCCCBV BBCCAGCTCMBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 117 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- yaCATAYACay aaCAAAAACaa Reverse Complement Reverse Complement DTGTGTATGBD HHGTTTTTGHH DTGTKTWTGDD Direction: Backward Position #: 1 Overlap #: 11 Alignment: DTGTGTATGBD HHGTTTTTGHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXF2 Original Motif Reverse Complement DTGTKTWTGDD DTTGTTTACSBTBB DHTGTTTAYGDTBB Direction: Forward Position #: 2 Overlap #: 11 Alignment: -DTGTKTWTGDD-- DTTGTTTACSBTBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ctGAGTkTGAgg Original Motif Original Motif DHTGTTTAYGDTBB VBGAGTKTGADD VDGWGTTTRAGDTBB Direction: Forward Position #: 2 Overlap #: 11 Alignment: -DHTGTTTAYGDTBB VBGAGTKTGADD--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ysCmAGCACwy Original Motif Reverse Complement VDGWGTTTRAGDTBB DHGTGCTRGVH BHGTGYTKGHVDTBB Direction: Forward Position #: 1 Overlap #: 11 Alignment: VDGWGTTTRAGDTBB DHGTGCTRGVH---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 58 Reverse Complement Original Motif BHADVHCRAKCACHB CACACACACACACA CACACHCAMDCACDB Direction: Forward Position #: 1 Overlap #: 14 Alignment: BHADVHCRAKCACHB CACACACACACACA- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 118 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- yrCACATGCATGTGyr myyCCCACmTGCmyr Original Motif Original Motif HVCACATGCATGTGBD HBCCCCACMTGCMHV VCMCMYRCATGYVBDH Direction: Backward Position #: 1 Overlap #: 15 Alignment: HVCACATGCATGTGBD -HBCCCCACMTGCMHV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 58 Original Motif Original Motif VCMCMYRCATGYVBDH CACACACACACACA CACACACACAYRCRBDH Direction: Forward Position #: 2 Overlap #: 13 Alignment: -VCMCMYRCATGYVBDH CACACACACACACA--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pou5f1 Combined Motif Original Motif Original Motif CACACACACAYRCRBDH CWTTGTHATGCAAAT CACWYWSWCATGCADAH Direction: Forward Position #: 3 Overlap #: 15 Alignment: CACACACACAYRCRBDH --CWTTGTHATGCAAAT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Sox2 Reverse Complement Original Motif HTDTGCATGWSWMWGTG CCWTTGTYATGCAAA CHWTTGYHWKDSWAWGTG Direction: Forward Position #: 2 Overlap #: 14 Alignment: -HTDTGCATGWSWMWGTG CCWTTGTYATGCAAA--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yvTGCAGsCAcg Original Motif Reverse Complement CHWTTGYHWKDSWAWGTG VBTGSCTGCAVB CAVBHHTGBCTGCHWTTGYHWK Direction: Backward Position #: 5 Overlap #: 8 Alignment: CHWTTGYHWKDSWAWGTG---- ----------VBTGSCTGCAVB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 119 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cbCCAGCTCmyk csCCaGCTCCCgs Original Motif Original Motif BBCCAGCTCMBD BBCCAGCTCCCVB BBBCCAGCTCCCB Direction: Backward Position #: 2 Overlap #: 12 Alignment: BBCCAGCTCMBD- BBCCAGCTCCCVB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif asMAAGCTTKst Reverse Complement Original Motif BGGGAGCTGGBBB HBCAAGCTTGVD HBVRAGCTKGBDB Direction: Forward Position #: 1 Overlap #: 12 Alignment: BGGGAGCTGGBBB HBCAAGCTTGVD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif hsCCAGGCCTGGsr Reverse Complement Reverse Complement BHBCRAGCTKVBD HBCCAGGCCTGGVD BBBCARGCYTGBVD Direction: Forward Position #: 1 Overlap #: 13 Alignment: BHBCRAGCTKVBD- HBCCAGGCCTGGVD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ssCkGGYCCCsg Reverse Complement Reverse Complement HVBCAKGCMTGBBB VVGGGGCCRGBB HVSSRKSCVKGBBB Direction: Forward Position #: 1 Overlap #: 12 Alignment: HVBCAKGCMTGBBB VVGGGGCCRGBB-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ccCCmCaCCCCcc Reverse Complement Original Motif BBBCYBGSYMSSVD HBCCCCACCCCBH BBCCCCRCCCCBVD Direction: Forward Position #: 1 Overlap #: 13 Alignment: BBBCYBGSYMSSVD HBCCCCACCCCBH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 120 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wtTTTwAAAaw wwATkTTTAww Original Motif Reverse Complement HHTTTWAAADD HHTAAARATHD HHTWWAAAWHD Direction: Forward Position #: 1 Overlap #: 11 Alignment: HHTTTWAAADD HHTAAARATHD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXF2 Reverse Complement Reverse Complement DHWTTTWWAHH DTTGTTTACSBTBB DHTKTTTAMVHTBB Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHWTTTWWAHH--- DTTGTTTACSBTBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Lhx3 Reverse Complement Reverse Complement BHAHVYTAAARAHD BMWTAATTAATTW BMWTAWTWAAWWWD Direction: Forward Position #: 1 Overlap #: 13 Alignment: BHAHVYTAAARAHD BMWTAATTAATTW- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TBP Combined Motif Original Motif Original Motif BMWTAWTWAAWWWD STATAAAWRVVVVBV BMVTATWWAADDVVVBV Direction: Forward Position #: 3 Overlap #: 12 Alignment: BMWTAWTWAAWWWD--- --STATAAAWRVVVVBV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif awAACAcAAwa Reverse Complement Reverse Complement VBVVBDDTTWWATABYB BDTTGTGTTDD BBTTVTGTTWWATABYB Direction: Forward Position #: 1 Overlap #: 11 Alignment: VBVVBDDTTWWATABYB BDTTGTGTTDD------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 121 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ctGAGTCATCkb ctGAGTkTGAgg Reverse Complement Reverse Complement BHGATGACTCDD HHTCARACTCVV HHKMWRACTCVD Direction: Backward Position #: 1 Overlap #: 12 Alignment: BHGATGACTCDD HHTCARACTCVV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif hsCCAGGCCTGGsr Original Motif Original Motif HHKMWRACTCVD HVCCAGGCCTGGBD HBBCAGRCYYGGBD Direction: Forward Position #: 1 Overlap #: 12 Alignment: HHKMWRACTCVD-- HVCCAGGCCTGGBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssCkGGYCCCsg Combined Motif Reverse Complement Reverse Complement HBCCKKGKCTGBBD VVGGGGCCRGBB HBVVGGGKCHRGBB Direction: Forward Position #: 3 Overlap #: 12 Alignment: HBCCKKGKCTGBBD --VVGGGGCCRGBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif asMAAGCTTKst Reverse Complement Original Motif BBCMDGYCCCVVBD HBCAAGCTTGVD HBCAAGCYYBVDBD Direction: Forward Position #: 1 Overlap #: 12 Alignment: BBCMDGYCCCVVBD HBCAAGCTTGVD-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax4 Combined Motif Reverse Complement Reverse Complement HBHVBMMGCTTGBD GRKGRGDRHVHDDVBBHHBRGDWAWTWTTM HBBVBVVGVDHGHDDVBBHHBRGDWAWTWTTM Direction: Forward Position #: 3 Overlap #: 12 Alignment: HBHVBMMGCTTGBD------------------ --GRKGRGDRHVHDDVBBHHBRGDWAWTWTTM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 122 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- hsCCAGGCCTGGsr myyCCCACmTGCmyr Original Motif Original Motif HVCCAGGCCTGGBD HBCCCCACMTGCMHV VHBCCMSRCCTGSVB Direction: Backward Position #: 2 Overlap #: 14 Alignment: HVCCAGGCCTGGBD- HBCCCCACMTGCMHV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yrCACATGCATGTGyr Original Motif Original Motif VHBCCMSRCCTGSVB HVCACATGCATGTGBD HVCMCABGCMTGYGBD Direction: Forward Position #: 1 Overlap #: 15 Alignment: VHBCCMSRCCTGSVB- HVCACATGCATGTGBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax4 Combined Motif Reverse Complement Reverse Complement DVCMCAYGCVTGYGBD GRKGRGDRHVHDDVBBHHBRGDWAWTWTTM DDBVVRBGMVTGBVBBHHBRGDWAWTWTTM Direction: Forward Position #: 1 Overlap #: 16 Alignment: DVCMCAYGCVTGYGBD-------------- GRKGRGDRHVHDDVBBHHBRGDWAWTWTTM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- csCCaGCTCCCgs Combined Motif Original Motif Reverse Complement DDBVVRBGMVTGBVBBHHBRGDWAWTWTTM BVGGGAGCTGGBB DVBGSRDGCHBGBVBBHHBRGDWAWTWTTM Direction: Forward Position #: 2 Overlap #: 13 Alignment: DDBVVRBGMVTGBVBBHHBRGDWAWTWTTM -BVGGGAGCTGGBB---------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ccCCmCaCCCCcc Combined Motif Reverse Complement Original Motif RAAWAWTWDCMBHHVBVBCBHGCDMSCBVH HBCCCCACCCCBH RAAWAWHHCCMCACCCCBCBHGCDMSCBVH Direction: Forward Position #: 7 Overlap #: 13 Alignment: RAAWAWTWDCMBHHVBVBCBHGCDMSCBVH ------HBCCCCACCCCBH----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 123 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- asMAAGCTTKst cbCCAGCTCmyk Reverse Complement Reverse Complement DVCAAGCTTGBH HBYGAGCTGGBB HBYRAGCTKGBD Direction: Backward Position #: 1 Overlap #: 12 Alignment: DVCAAGCTTGBH HBYGAGCTGGBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif hsCCAGGCCTGGsr Reverse Complement Original Motif DBCYAGCTMKBH HVCCAGGCCTGGBD HBCCAGSYCTGBBD Direction: Forward Position #: 1 Overlap #: 12 Alignment: DBCYAGCTMKBH-- HVCCAGGCCTGGBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- csCCaGCTCCCgs Combined Motif Reverse Complement Original Motif HBBCAGMSCTGGBD BBCCAGCTCCCVB HBBBVSMGCTSSCVB Direction: Forward Position #: 3 Overlap #: 12 Alignment: HBBCAGMSCTGGBD- --BBCCAGCTCCCVB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Evi1 Combined Motif Reverse Complement Reverse Complement BVGSSAGCYSVBBBD TBTTATCTTMTCTT BVGSSAGCYSVBBTTATCTTMTCTT Direction: Forward Position #: 12 Overlap #: 4 Alignment: BVGSSAGCYSVBBBD---------- -----------TBTTATCTTMTCTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ctGAGTCATCkb Original Motif Reverse Complement BVGSSAGCYSVBBTTATCTTMTCTT BHGATGACTCDD BHGVYRRCTCVBBTTATCTTMTCTT Direction: Forward Position #: 1 Overlap #: 12 Alignment: BVGSSAGCYSVBBTTATCTTMTCTT BHGATGACTCDD------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 124 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cswGGGCCCwsg ssCkGGYCCCsg Original Motif Original Motif VVWGGGCCCWBB BBCKGGCCCCVV BBMGGGCCCHBV Direction: Backward Position #: 1 Overlap #: 12 Alignment: VVWGGGCCCWBB BBCKGGCCCCVV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cbCCAGCTCmyk Original Motif Original Motif BBMGGGCCCHBV BBCCAGCTCMBD BBCSRGCYCMBD Direction: Forward Position #: 1 Overlap #: 12 Alignment: BBMGGGCCCHBV BBCCAGCTCMBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yvTGCAGsCAcg Reverse Complement Original Motif HBRGMGCKSGBB BVTGCAGSCABV BVDGCRSBCRBV Direction: Forward Position #: 1 Overlap #: 12 Alignment: HBRGMGCKSGBB BVTGCAGSCABV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif hsCCAGGCCTGGsr Original Motif Original Motif BVDGCRSBCRBV HVCCAGGCCTGGBD HVBSMGGCCDGGBD Direction: Forward Position #: 1 Overlap #: 12 Alignment: BVDGCRSBCRBV-- HVCCAGGCCTGGBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif csCCaGCTCCCgs Reverse Complement Original Motif HBCCDGGCCYSBVD BBCCAGCTCCCVB HBCCAGCBCCCBBD Direction: Forward Position #: 1 Overlap #: 13 Alignment: HBCCDGGCCYSBVD BBCCAGCTCCCVB- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 125 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwTAATwwATTAww HNF1A Original Motif Original Motif DDTAATWWATTAHH GGTTAATDATTAMC DGTWAWTWATTAHH Direction: Backward Position #: 1 Overlap #: 14 Alignment: DDTAATWWATTAHH GGTTAATDATTAMC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax4 Combined Motif Reverse Complement Original Motif DHTAATWAWTWACH RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC DHDAAWWAWTWACVHHVBBHHHVHMHCMCYMC Direction: Forward Position #: 3 Overlap #: 12 Alignment: DHTAATWAWTWACH------------------ --RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXF2 Original Motif Original Motif DHDAAWWAWTWACVHHVBBHHHVHMHCMCYMC BHADSGTAAACAAD BDHDMRTAAAYAAHVHHVBBHHHVHMHCMCYMC Direction: Forward Position #: 2 Overlap #: 13 Alignment: -DHDAAWWAWTWACVHHVBBHHHVHMHCMCYMC BHADSGTAAACAAD------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TBP Combined Motif Original Motif Reverse Complement BDHDMRTAAAYAAHVHHVBBHHHVHMHCMCYMC VBVVVVMWTTTATAS BVVVVVHWWWTAWAVHHVBBHHHVHMHCMCYMC Direction: Forward Position #: 1 Overlap #: 15 Alignment: BDHDMRTAAAYAAHVHHVBBHHHVHMHCMCYMC VBVVVVMWTTTATAS------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Sox2 Combined Motif Reverse Complement Reverse Complement GRKGRGDRHVHDDVBBHHVTWTAWWWHVBVBVB TTTGCATMACAAWGG GRKGDKDGHATVACAAWBGTWTAWWWHVBVBVB Direction: Forward Position #: 5 Overlap #: 15 Alignment: GRKGRGDRHVHDDVBBHHVTWTAWWWHVBVBVB ----TTTGCATMACAAWGG-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 126 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- yvTGCAGsCAcg cgCCCwGGScsg Original Motif Original Motif BVTGCAGSCABV VDCCCWGGGCBB VVYSCAGGSMBV Direction: Backward Position #: 1 Overlap #: 12 Alignment: BVTGCAGSCABV VDCCCWGGGCBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yrCACATGCATGTGyr Original Motif Original Motif VVYSCAGGSMBV HVCACATGCATGTGBD HVCRCAKGCATGTGBD Direction: Forward Position #: 1 Overlap #: 12 Alignment: VVYSCAGGSMBV---- HVCACATGCATGTGBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif myyCCCACmTGCmyr Reverse Complement Reverse Complement DVCACATGCRTGKGBD VDRGCAYGTGGGGVD DDVRCATGYGKGKDDD Direction: Forward Position #: 1 Overlap #: 15 Alignment: DVCACATGCRTGKGBD VDRGCAYGTGGGGVD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cswGGGCCCwsg Reverse Complement Original Motif HHHYCYCMCATGMVDH VVWGGGCCCWBB HBHGSGCCCWBGMVDH Direction: Forward Position #: 1 Overlap #: 12 Alignment: HHHYCYCMCATGMVDH VVWGGGCCCWBB---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- csCCaGCTCCCgs Combined Motif Reverse Complement Reverse Complement DDVRCVWGGGCSCHBD BVGGGAGCTGGBB DDVVVGDGRGCBSBBB Direction: Forward Position #: 4 Overlap #: 13 Alignment: DDVRCVWGGGCSCHBD ---BVGGGAGCTGGBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** Combined Motifs for Top Best Match Motif ID 127 and Its Best Matches ************************************************************** ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 1st motif name 2nd motif name 1st format 2nd format 1st motif 2nd motif Combined motif ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- rryCAGGGAyw graGGGGGArr Original Motif Original Motif DDYCAGGGAHD DVAGGGGGADD DDHSRGGGAHD Direction: Backward Position #: 1 Overlap #: 11 Alignment: DDYCAGGGAHD DVAGGGGGADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yvTGCAGsCAcg Reverse Complement Original Motif HHTCCCMSHDH BVTGCAGSCABV HVTSCMVSCABV Direction: Forward Position #: 1 Overlap #: 11 Alignment: HHTCCCMSHDH- BVTGCAGSCABV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cgCCCwGGScsg Original Motif Original Motif HVTSCMVSCABV VDCCCWGGGCBB VDYSCHGGSVBV Direction: Forward Position #: 1 Overlap #: 12 Alignment: HVTSCMVSCABV VDCCCWGGGCBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif hsCCAGGCCTGGsr Original Motif Original Motif VDYSCHGGSVBV HVCCAGGCCTGGBD HVCCMVGSCHGGBD Direction: Forward Position #: 1 Overlap #: 12 Alignment: VDYSCHGGSVBV-- HVCCAGGCCTGGBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cbCCAGCTCmyk Original Motif Original Motif HVCCMVGSCHGGBD BBCCAGCTCMBD HBCCAGSYCHBBBD Direction: Forward Position #: 1 Overlap #: 12 Alignment: HVCCMVGSCHGGBD BBCCAGCTCMBD-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Results created by MOTIFSIM on 06-18-2018 16:26:48 Runtime: 858.069 seconds MOTIFSIM is written by Ngoc Tam L. 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