**************************************************************************************************************************************************************************************************** MOTIFSIM - Motif Similarity Detection Tool Version 2.1 **************************************************************************************************************************************************************************************************** INPUT **************************************************************************************************************************************************************************************************** Input Parameters Number of files: 4 Number of top significant motifs: 10 Number of best matches: 5 Similarity cutoff: >= 0.75 Matching motif database: UniProbe Mus Musculus Phylogenetic tree: Yes Combined similar motifs: Yes Output file type: All Output file format: All Input files and motif counts File name Count of motifs Dataset # 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--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXI1 Original Motif Original Motif TTKTTTTTKTBTTT KBDTRTTTRTTT DBDTKTTTRTTTTT Direction: Forward Position #: 1 Overlap #: 12 Alignment: TTKTTTTTKTBTTT KBDTRTTTRTTT-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif awAACAcAAwa Original Motif Reverse Complement DBDTKTTTRTTTTT BDTTGTGTTDD DDTTDTKTTTDTTT Direction: Forward Position #: 1 Overlap #: 11 Alignment: DBDTKTTTRTTTTT BDTTGTGTTDD--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwATkTTTAww Original Motif Original Motif DDTTDTKTTTDTTT DHATKTTTAHH DHWTKTTTWHDTTT Direction: Forward Position #: 1 Overlap #: 11 Alignment: DDTTDTKTTTDTTT 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 Original Motif Original Motif ACACACAC CACACACACACACA ACACAACACACACC Direction: Backward Position #: 6 Overlap #: 8 Alignment: -ACACACAC----- CACACACACACACA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yaCATAYACay Reverse Complement Reverse Complement GGTGTGTGTTGTGT DTGTGTATGBD DGGTGTRTGTKGTGT Direction: Forward Position #: 2 Overlap #: 10 Alignment: -GGTGTGTGTTGTGT DTGTGTATGBD---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 12 Original Motif Reverse Complement DGGTGTRTGTKGTGT MTGTGTGC VKGTGTGYGTKGTGT Direction: Forward Position #: 1 Overlap #: 8 Alignment: DGGTGTRTGTKGTGT MTGTGTGC------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 21 Original Motif Reverse Complement VKGTGTGYGTKGTGT GTTTGTTT GTKTGTKTGTKGTGT Direction: Forward Position #: 1 Overlap #: 8 Alignment: VKGTGTGYGTKGTGT GTTTGTTT------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 37 Original Motif Original Motif GTKTGTKTGTKGTGT GYATGTGY GYWTGTGYGTKGTGT Direction: Forward Position #: 1 Overlap #: 8 Alignment: GTKTGTKTGTKGTGT GYATGTGY------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 60 Original Motif Original Motif ADAHAAAAADBY AADAAAAMAAAAAM AAAAAAAMAAAMAM Direction: Forward Position #: 1 Overlap #: 12 Alignment: ADAHAAAAADBY-- AADAAAAMAAAAAM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ymTACATAyw Combined Motif Original Motif Original Motif AAAAAAAMAAAMAM HHTACATABD ADAWAMAHADHMAM Direction: Forward Position #: 2 Overlap #: 10 Alignment: AAAAAAAMAAAMAM -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 Reverse Complement Original Motif KCTRMCTC DHCTGCYTCHB DKCTGCCTCHB Direction: Forward Position #: 2 Overlap #: 8 Alignment: -KCTRMCTC-- DHCTGCYTCHB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif htCTGyKTCbt Original Motif Original Motif DKCTGCCTCHB HBCTGYTTCBH DBCTGYYTCHH Direction: Forward Position #: 1 Overlap #: 11 Alignment: DKCTGCCTCHB HBCTGYTTCBH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ctGAGTkTGAgg Reverse Complement Original Motif HHGAMKCAGVD VBGAGTKTGADD VHGAGTYWGADD Direction: Forward Position #: 1 Overlap #: 11 Alignment: HHGAMKCAGVD- VBGAGTKTGADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ctGAGTCATCkb Reverse Complement Reverse Complement HHTCWKACTCHV BHGATGACTCDD HHKMTGACTCHD Direction: Forward Position #: 1 Overlap #: 12 Alignment: HHTCWKACTCHV BHGATGACTCDD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 18 Combined Motif Original Motif Reverse Complement HHKMTGACTCHD TCTCTMKC HHTCTSWCTCHD Direction: Forward Position #: 3 Overlap #: 8 Alignment: HHKMTGACTCHD --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------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Foxd3 Original Motif Reverse Complement AAAMAAAMAAMAAM AAAHAAACAWTC AAAMAAAMAAHMAM Direction: Forward Position #: 1 Overlap #: 12 Alignment: AAAMAAAMAAMAAM AAAHAAACAWTC-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** 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 Original Motif Original Motif CACASASA CACACACACACACA CACACACACASACA Direction: Backward Position #: 7 Overlap #: 8 Alignment: CACASASA------ CACACACACACACA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 41 Reverse Complement Reverse Complement TGTSTGTGTGTGTG TKTCTGAG TGTCTGWGTGTGTG Direction: Forward Position #: 1 Overlap #: 8 Alignment: TGTSTGTGTGTGTG TKTCTGAG------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- yaCATAYACay Combined Motif Reverse Complement Original Motif CACACACWCAGACA HVCATACACAH CACACAYACASAYA Direction: Forward Position #: 3 Overlap #: 11 Alignment: CACACACWCAGACA --HVCATACACAH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yrCACATGCATGTGyr Original Motif Original Motif CACACAYACASAYA HVCACATGCATGTGBD CACACATRCAYRTRBD Direction: Forward Position #: 1 Overlap #: 14 Alignment: CACACAYACASAYA-- HVCACATGCATGTGBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif awAACAcAAwa Original Motif Original Motif CACACATRCAYRTRBD DDAACACAADV HAMACAYAMABRTRBD Direction: Forward Position #: 1 Overlap #: 11 Alignment: CACACATRCAYRTRBD 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 GKAGGCCASS Direction: Backward Position #: 2 Overlap #: 8 Alignment: -KAKGCCAG- SGARGCCACG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cgAKGyCAcg Original Motif Original Motif GKAGGCCASS CGAGGYCACV SGAGGCCASV Direction: Forward Position #: 1 Overlap #: 10 Alignment: GKAGGCCASS CGAGGYCACV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 27 Original Motif Reverse Complement SGAGGCCASV KRAGGCAG KRAGGCMRSV Direction: Forward Position #: 1 Overlap #: 8 Alignment: SGAGGCCASV KRAGGCAG-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 31 Combined Motif Original Motif Reverse Complement KRAGGCMRSV GAGSWCAG KGAGGYCAGV Direction: Forward Position #: 2 Overlap #: 8 Alignment: KRAGGCMRSV -GAGSWCAG- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 11 Original Motif Original Motif KGAGGYCAGV CTGDGTTC CTGAGKTCAGV Direction: Forward Position #: 2 Overlap #: 7 Alignment: -KGAGGYCAGV 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 Reverse Complement Original Motif TTTWWAAA HHTTTWAAADD DTTTWAAAAHH Direction: Backward Position #: 2 Overlap #: 8 Alignment: --TTTWWAAA- HHTTTWAAADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwATkTTTAww Original Motif Reverse Complement DTTTWAAAAHH HHTAAARATHD DTTWAAAAWHH Direction: Forward Position #: 1 Overlap #: 11 Alignment: DTTTWAAAAHH HHTAAARATHD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TBP Combined Motif Original Motif Original Motif DTTWAAAAWHH STATAAAWRVVVVBV DBTAWAAAWDBVVVBV Direction: Forward Position #: 2 Overlap #: 10 Alignment: DTTWAAAAWHH----- -STATAAAWRVVVVBV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif MEF2A Original Motif Reverse Complement DBTAWAAAWDBVVVBV CTAWAAATAG CTATAWAWADDBVVVBV Direction: Forward Position #: 2 Overlap #: 9 Alignment: -DBTAWAAAWDBVVVBV CTAWAAATAG------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wtATTTTAww Original Motif Reverse Complement CTATAWAWADDBVVVBV HWTAAAATHD CWTWAAATADDBVVVBV Direction: Forward Position #: 1 Overlap #: 10 Alignment: CTATAWAWADDBVVVBV 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: Backward 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 CTTTCCTTTRAYGTTGA Direction: Backward Position #: 5 Overlap #: 8 Alignment: -----CCTYTAAT---- GTTGACCTTTGACCTTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 19 Combined Motif Original Motif Original Motif CTTTCCTTTRAYGTTGA CCTGGARC CTTTCCTKKAACGTTGA Direction: Forward Position #: 5 Overlap #: 8 Alignment: CTTTCCTTTRAYGTTGA ----CCTGGARC----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Lhx3 Combined Motif Reverse Complement Original Motif TCAACGTTYYAGGAAAG WAATTAATTAWYB AGGAAAGTYAAYKWTYYTCAACGT Direction: Backward Position #: 8 Overlap #: 10 Alignment: ---TCAACGTTYYAGGAAAG -------WAATTAATTAWYB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** 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 AMAAACAAAMAADA Direction: Backward Position #: 3 Overlap #: 8 Alignment: ----AAACAAAC-- AADAAAAMAAAAAM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- FOXI1 Combined Motif Original Motif Reverse Complement AMAAACAAAMAADA AAAMAAAMADBY AMAAAMAAAMAAVM Direction: Forward Position #: 3 Overlap #: 12 Alignment: AMAAACAAAMAADA --AAAMAAAMADBY ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 5 Reverse Complement Reverse Complement YBTTRTTTRTTTYT TTTTSTTT TTTTSTTTRTTTYT Direction: Forward Position #: 1 Overlap #: 8 Alignment: YBTTRTTTRTTTYT TTTTSTTT------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Foxd3 Combined Motif Reverse Complement Reverse Complement AMAAAMAAASAAAA AAAHAAACAWTC AMAAAMAAACAAWM Direction: Forward Position #: 3 Overlap #: 12 Alignment: AMAAAMAAASAAAA --AAAHAAACAWTC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaACAAAACaa Original Motif Original Motif AMAAAMAAACAAWM AAACAAAACHV AAAMAAAAMMAAWM Direction: Forward Position #: 1 Overlap #: 11 Alignment: AMAAAMAAACAAWM 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 Reverse Complement Original Motif TACASAR CACASASA WMMRRRAC Direction: Backward Position #: 1 Overlap #: 7 Alignment: -TACASAR CACASASA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ymTACATAyw Reverse Complement Reverse Complement GTKKKYYW DBTATGTAHH DBTATGTDBBYYW Direction: Forward Position #: 6 Overlap #: 5 Alignment: -----GTKKKYYW DBTATGTAHH--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 12 Original Motif Reverse Complement DBTATGTDBBYYW MTGTGTGC MTGTRTGYDBBYYW Direction: Forward Position #: 2 Overlap #: 7 Alignment: -DBTATGTDBBYYW MTGTGTGC------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif awAACAcAAwa Original Motif Reverse Complement MTGTRTGYDBBYYW BDTTGTGTTDD HDKTRTGTTHBYYW Direction: Forward Position #: 1 Overlap #: 11 Alignment: MTGTRTGYDBBYYW BDTTGTGTTDD--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXF2 Reverse Complement Original Motif WKKVHAACAMARDH BHADSGTAAACAAD BWDDVRTAMACAADH Direction: Forward Position #: 2 Overlap #: 13 Alignment: -WKKVHAACAMARDH 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 Original Motif Original Motif CACGB CACGGA ACACGG Direction: Backward Position #: 2 Overlap #: 5 Alignment: CACGB- CACGGA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ysCmAGCACwy Reverse Complement Reverse Complement CCGTGT DHGTGCTRGVH BCGTGYTRGVH Direction: Forward Position #: 1 Overlap #: 6 Alignment: CCGTGT----- DHGTGCTRGVH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif crCGyGCRcg Reverse Complement Original Motif HVCMAMCACGB CGCGTGCACG HVCVWRCACGB Direction: Forward Position #: 1 Overlap #: 10 Alignment: HVCMAMCACGB CGCGTGCACG- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 12 Combined Motif Original Motif Original Motif HVCVWRCACGB GCACACAY HGCACACAYGB Direction: Forward Position #: 2 Overlap #: 8 Alignment: HVCVWRCACGB -GCACACAY-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 7 Original Motif Original Motif HGCACACAYGB CACASASA CRCASACAYGB Direction: Forward Position #: 1 Overlap #: 8 Alignment: HGCACACAYGB 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 AAAGAAAA Direction: Forward Position #: 1 Overlap #: 7 Alignment: AVAGAAA- AAASAAAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 49 Reverse Complement Reverse Complement TTTTCTTT KTTTATCT TTTTMTYT Direction: Forward Position #: 1 Overlap #: 8 Alignment: TTTTCTTT KTTTATCT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 21 Original Motif Reverse Complement TTTTMTYT GTTTGTTT KTTTGTTT Direction: Forward Position #: 1 Overlap #: 8 Alignment: TTTTMTYT GTTTGTTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 18 Reverse Complement Original Motif AAACAAAY GRRAGAGA GARAGARAY Direction: Forward Position #: 2 Overlap #: 7 Alignment: -AAACAAAY GRRAGAGA- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaACAAAACaa Original Motif Original Motif GARAGARAY AAACAAAACHV GAAMRAAACHV Direction: Forward Position #: 1 Overlap #: 9 Alignment: GARAGARAY-- 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- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ccCCmCaCCCCcc Original Motif Original Motif BBCYRGCCCCBVB HBCCCCACCCCBH BBCCMSMCCCCBB Direction: Forward Position #: 1 Overlap #: 13 Alignment: BBCYRGCCCCBVB HBCCCCACCCCBH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ysCmAGCACwy Original Motif Original Motif BBCCMSMCCCCBB HVCMAGCACHH BBCCAGCMCCBBB Direction: Forward Position #: 1 Overlap #: 11 Alignment: BBCCMSMCCCCBB 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 Original Motif Reverse Complement CAGGARGM CAGCAGCR CAGSAGSA Direction: Forward Position #: 1 Overlap #: 8 Alignment: CAGGARGM CAGCAGCR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 4 Original Motif 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--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 58 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: Forward 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 Reverse Complement Original Motif KGGCAGAG AAAGGTCAAAGGTCAAC AAAGGKCARAGGTCAAC Direction: Forward Position #: 4 Overlap #: 8 Alignment: ---KGGCAGAG------ AAAGGTCAAAGGTCAAC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 59 Combined Motif Reverse Complement Original Motif GTTGACCTMTGYCCTTT CTBCCTCHSYCYCC GTTGACCTVTSYCYKYYYCC Direction: Forward Position #: 7 Overlap #: 11 Alignment: GTTGACCTMTGYCCTTT--- ------CTBCCTCHSYCYCC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dyCTGCyTCyc Reverse Complement Reverse Complement GGMKMRKGMSAVAGGTCAAC BHGAKGCAGHH BVGAKGCRGMBAVAGGTCAAC Direction: Forward Position #: 2 Overlap #: 10 Alignment: -GGMKMRKGMSAVAGGTCAAC BHGAKGCAGHH---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ygCTyTTCsg Original Motif Reverse Complement BVGAKGCRGMBAVAGGTCAAC BCGAAMAGHH BVGARVAGGHBAVAGGTCAAC Direction: Forward Position #: 1 Overlap #: 10 Alignment: BVGAKGCRGMBAVAGGTCAAC BCGAAMAGHH----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR2F1 Original Motif Reverse Complement BVGARVAGGHBAVAGGTCAAC AKGYYCAAAGRTCA AKGBGMAAAGRTCAVAGGTCAAC Direction: Forward Position #: 3 Overlap #: 12 Alignment: --BVGARVAGGHBAVAGGTCAAC AKGYYCAAAGRTCA--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** 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: Backward 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 RGGAARSA Direction: Backward Position #: 2 Overlap #: 7 Alignment: GGAAASA- GGAAGSAR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 33 Reverse Complement Original Motif TSKTTCCM CMTTTCC YVTTTCCM Direction: Forward Position #: 1 Overlap #: 7 Alignment: TSKTTCCM CMTTTCC- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXF2 Original Motif Reverse Complement YVTTTCCM DTTGTTTACSBTBB DTTGTTTMCVBTBB Direction: Forward Position #: 3 Overlap #: 8 Alignment: --YVTTTCCM---- DTTGTTTACSBTBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- FOXO3 Combined Motif Original Motif Reverse Complement DTTGTTTMCVBTBB TGTTTACR DTTGTTTACRBTBB Direction: Forward Position #: 3 Overlap #: 8 Alignment: DTTGTTTMCVBTBB --TGTTTACR---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif htCTGyKTCbt Original Motif Original Motif DTTGTTTACRBTBB HBCTGYTTCBH DHYKKTTWCVHTBB Direction: Forward Position #: 1 Overlap #: 11 Alignment: DTTGTTTACRBTBB 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-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 60 Original Motif Original Motif AARAWAASATAAAR AADAAAAMAAAAAM AARAAAAVAWAAAA Direction: Forward Position #: 1 Overlap #: 14 Alignment: AARAWAASATAAAR AADAAAAMAAAAAM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 21 Original Motif Original Motif AARAAAAVAWAAAA AAACAAAC AAAMAAACAWAAAA Direction: Forward Position #: 1 Overlap #: 8 Alignment: AARAAAAVAWAAAA AAACAAAC------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif NR1H2RXRA Reverse Complement Reverse Complement TTTTWTGTTTRTTT GTTGACCTTTGACCTTT GTTGACCTTTGACYTTTTGTTTRTTT Direction: Forward Position #: 13 Overlap #: 5 Alignment: ------------TTTTWTGTTTRTTT 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 Reverse Complement Reverse Complement AAGAGAAGARAABB AKGYYCAAAGRTCA AKGYYCAAAGAKMAGARAABB Direction: Forward Position #: 8 Overlap #: 7 Alignment: -------AAGAGAAGARAABB AKGYYCAAAGRTCA------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 5 Reverse Complement Reverse Complement BBTTMTCTYRTCTTTGMMCYT TTTTSTTT TTTTCTYTYRTCTTTGMMCYT Direction: Forward Position #: 1 Overlap #: 8 Alignment: BBTTMTCTYRTCTTTGMMCYT TTTTSTTT------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif awAACAcAAwa Original Motif Reverse Complement TTTTCTYTYRTCTTTGMMCYT BDTTGTGTTDD TDTTSTKTTDTCTTTGMMCYT Direction: Forward Position #: 1 Overlap #: 11 Alignment: TTTTCTYTYRTCTTTGMMCYT BDTTGTGTTDD---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** 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 Original Motif Reverse Complement AGAGCWGG HBYGAGCTGGBB HBHGAGCTGGBB Direction: Forward Position #: 3 Overlap #: 8 Alignment: --AGAGCWGG-- HBYGAGCTGGBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 38 Combined Motif Original Motif Reverse Complement HBHGAGCTGGBB GGAGMAGG HBGGAGCWGGBB Direction: Forward Position #: 3 Overlap #: 8 Alignment: HBHGAGCTGGBB --GGAGMAGG-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 15 Reverse Complement Original Motif BBCCWGCTCCBD AGCCCWGG AGCCCWGSTCCBD Direction: Forward Position #: 2 Overlap #: 7 Alignment: -BBCCWGCTCCBD AGCCCWGG----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif csCCaGCTCCCgs Reverse Complement Reverse Complement HBGGASCWGGGCT BVGGGAGCTGGBB BBGGGAGCWGGBBT Direction: Forward Position #: 2 Overlap #: 12 Alignment: -HBGGASCWGGGCT BVGGGAGCTGGBB- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- cmCARCACTwr Combined Motif Original Motif Reverse Complement BBGGGAGCWGGBBT VHAGTGCTGHB BVBRGWGCTGGBBT 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 AGRCAGGG Direction: Backward Position #: 1 Overlap #: 7 Alignment: -AGVCAGG GAGRMAGR ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dyCTGCyTCyc Reverse Complement Original Motif CCCTGMCT DHCTGCYTCHB CCCTGCCTCHB Direction: Forward Position #: 1 Overlap #: 8 Alignment: CCCTGMCT--- DHCTGCYTCHB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif rryCAGGGAyw Reverse Complement Original Motif BHGAGGCAGGG DDYCAGGGAHD DDHSAGGSAGDG Direction: Forward Position #: 2 Overlap #: 10 Alignment: -BHGAGGCAGGG DDYCAGGGAHD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif htCTGyKTCbt Reverse Complement Original Motif CHCTSCCTSHHD HBCTGYTTCBH HHCTGYYTCHHD Direction: Forward Position #: 1 Overlap #: 11 Alignment: CHCTSCCTSHHD HBCTGYTTCBH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yvTGCAGsCAcg Original Motif Reverse Complement HHCTGYYTCHHD VBTGSCTGCAVB HBYKSCTKCAVD Direction: Forward Position #: 1 Overlap #: 12 Alignment: HHCTGYYTCHHD 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--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 58 Reverse Complement Original Motif YACACACAYAC CACACACACACACA CACACACACACACA Direction: Forward Position #: 1 Overlap #: 11 Alignment: YACACACAYAC--- CACACACACACACA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** 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 Original Motif Original Motif RGAAA RGARGAAA RGAAARGA Direction: Backward Position #: 1 Overlap #: 5 Alignment: ---RGAAA RGARGAAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 28 Original Motif Original Motif RGAAARGA AVAGAAA AGARAARA Direction: Forward Position #: 1 Overlap #: 7 Alignment: RGAAARGA AVAGAAA- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 33 Original Motif Reverse Complement AGARAARA GGAAARG RGAAARGA Direction: Forward Position #: 1 Overlap #: 7 Alignment: AGARAARA GGAAARG- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 46 Original Motif Original Motif RGAAARGA GGAAASA GGAAAVRA Direction: Forward Position #: 1 Overlap #: 7 Alignment: RGAAARGA GGAAASA- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 44 Original Motif Original Motif GGAAAVRA AGAAATG RGAAATGA Direction: Forward Position #: 1 Overlap #: 7 Alignment: GGAAAVRA AGAAATG- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** 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-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif myyCCCACmTGCmyr Original Motif Reverse Complement BGDGKVTGDRKGWGBH VDRGCAYGTGGGGVD BBDGBATGTGKGDGBH Direction: Forward Position #: 1 Overlap #: 15 Alignment: BGDGKVTGDRKGWGBH VDRGCAYGTGGGGVD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ccCCmCaCCCCcc Combined Motif Reverse Complement Original Motif HVCDCYCACATBCHBB HBCCCCACCCCBH HVCVCCCMCACCCCBH Direction: Forward Position #: 4 Overlap #: 13 Alignment: HVCDCYCACATBCHBB ---HBCCCCACCCCBH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Direction: Backward Position #: 2 Overlap #: 13 Alignment: HVCDCYCACATBCHBB ---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 Reverse Complement Reverse Complement GRKGDGHGKVHGHGBVAGBRGDWAWTWTTM VDRGCAYGTGGGGVD VDGGSRYGTGDGDBBVAGBRGDWAWTWTTM Direction: Forward Position #: 1 Overlap #: 15 Alignment: GRKGDGHGKVHGHGBVAGBRGDWAWTWTTM VDRGCAYGTGGGGVD--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 58 Original Motif Reverse Complement VDGGSRYGTGDGDBBVAGBRGDWAWTWTTM TGTGTGTGTGTGTG KGKGYGTGTGTGTGBVAGBRGDWAWTWTTM Direction: Forward Position #: 1 Overlap #: 14 Alignment: VDGGSRYGTGDGDBBVAGBRGDWAWTWTTM TGTGTGTGTGTGTG---------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ccCCmCaCCCCcc Combined Motif Original Motif Reverse Complement KGKGYGTGTGTGTGBVAGBRGDWAWTWTTM DBGGGGTGGGGBD KGDGBGKGTGDGKGDVAGBRGDWAWTWTTM Direction: Forward Position #: 3 Overlap #: 13 Alignment: KGKGYGTGTGTGTGBVAGBRGDWAWTWTTM --DBGGGGTGGGGBD--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- csCCaGCTCCCgs Combined Motif Original Motif Reverse Complement KGDGBGKGTGDGKGDVAGBRGDWAWTWTTM BVGGGAGCTGGBB KGDBBGGGWGBKGGBVAGBRGDWAWTWTTM Direction: Forward Position #: 4 Overlap #: 13 Alignment: KGDGBGKGTGDGKGDVAGBRGDWAWTWTTM ---BVGGGAGCTGGBB-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Pax4 Original Motif Original Motif AAGAWAASAWAADA RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC RARAAAADAHAAHHVBBHHHVHMHCMCYMC Direction: Forward Position #: 1 Overlap #: 14 Alignment: AAGAWAASAWAADA---------------- RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TBP Combined Motif Original Motif Original Motif RARAAAADAHAAHHVBBHHHVHMHCMCYMC STATAAAWRVVVVBV RARAVWATAWAAVVVVBVBHVHMHCMCYMC Direction: Forward Position #: 5 Overlap #: 15 Alignment: RARAAAADAHAAHHVBBHHHVHMHCMCYMC ----STATAAAWRVVVVBV----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwTAATwwATTAww Combined Motif Original Motif Reverse Complement RARAVWATAWAAVVVVBVBHVHMHCMCYMC HHTAATWWATTADD RARAVWADWAAWWHATTAHHVHMHCMCYMC Direction: Forward Position #: 7 Overlap #: 14 Alignment: RARAVWATAWAAVVVVBVBHVHMHCMCYMC ------HHTAATWWATTADD---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- FOXF2 Combined Motif Original Motif Reverse Complement RARAVWADWAAWWHATTAHHVHMHCMCYMC DTTGTTTACSBTBB RARAVWDTTRWTTAMBTHHBVHMHCMCYMC Direction: Forward Position #: 7 Overlap #: 14 Alignment: RARAVWADWAAWWHATTAHHVHMHCMCYMC ------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 Original Motif VWATAAWWTAAHHWATTAHHVHMHCMCYMC GGTTAATDATTAMC VDRTWAATDAWTWHMTTAHHVHMHCMCYMC Direction: Forward Position #: 2 Overlap #: 14 Alignment: VWATAAWWTAAHHWATTAHHVHMHCMCYMC -GGTTAATDATTAMC--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 60 Original Motif Original Motif VDRTWAATDAWTWHMTTAHHVHMHCMCYMC AADAAAAMAAAAAM DARWAAAHAAAWAVMTTAHHVHMHCMCYMC Direction: Forward Position #: 1 Overlap #: 14 Alignment: VDRTWAATDAWTWHMTTAHHVHMHCMCYMC AADAAAAMAAAAAM---------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif myyCCCACmTGCmyr Reverse Complement Reverse Complement GRKGRGDRHVHDTAAYBTWTTTHTTTWKTD VDRGCAYGTGGGGVD VDRGSABGKVGDDHVAYBTWTTTHTTTWKTD Direction: Forward Position #: 2 Overlap #: 14 Alignment: -GRKGRGDRHVHDTAAYBTWTTTHTTTWKTD 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----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Sox2 Reverse Complement Reverse Complement VVHVHVTATAAAKAKD TTTGCATMACAAWGG BDHDHATAWMAAWRGD Direction: Forward Position #: 1 Overlap #: 15 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: Backward 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 RAAWAAWTAAHHAHHHBHHHVHMHCMCYMC Direction: Forward Position #: 1 Overlap #: 16 Alignment: AADAAAWTAAWTAWYH-------------- RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- HNF1A Combined Motif Original Motif Reverse Complement RAAWAAWTAAHHAHHHBHHHVHMHCMCYMC GYTAATDATTAACC RAAWAADHWAAWHATTAACMVHMHCMCYMC Direction: Forward Position #: 7 Overlap #: 14 Alignment: RAAWAAWTAAHHAHHHBHHHVHMHCMCYMC ------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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif TBP Original Motif Original Motif HWAWTAATTAACCG STATAAAWRVVVVBV BTATWAAWTAVCVDV Direction: Forward Position #: 1 Overlap #: 14 Alignment: HWAWTAATTAACCG- STATAAAWRVVVVBV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Evi1 Original Motif Original Motif BTATWAAWTAVCVDV AAGAYAAGATAABA ADKATAARATAABVDV Direction: Forward Position #: 2 Overlap #: 13 Alignment: -BTATWAAWTAVCVDV AAGAYAAGATAABA-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAATwwATTAww Original Motif Original Motif ADKATAARATAABVDV DDTAATWWATTAHH DDTAWWWAATWAHHDV Direction: Forward Position #: 1 Overlap #: 14 Alignment: ADKATAARATAABVDV DDTAATWWATTAHH-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 60 Reverse Complement Reverse Complement VHHDTWATTWWWTADD YTTTTTRTTTTDTT BBTTTTRTTTTWTWDD Direction: Forward Position #: 1 Overlap #: 14 Alignment: VHHDTWATTWWWTADD 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: Forward 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 AARAWAAHTATAAAHDVVBVBVVHMHCMCYMC Direction: Forward Position #: 8 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 GRKGRGDVHVHVBMWTWTATRVHHTTTRWCCTTT Direction: Forward Position #: 8 Overlap #: 15 Alignment: GRKGRGDRHVHDTAATWHHTGAHHTTTRWCCTTT -------VBVVVVMWTTTATAS------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Sox2 Combined Motif Reverse Complement Reverse Complement AAAGGWMAAADDBKATAWAWYVVDVDVHCMCYMC TTTGCATMACAAWGG AAAGGWMWWWKBDTAWMAAWKVVDVDVHCMCYMC Direction: Forward Position #: 8 Overlap #: 15 Alignment: AAAGGWMAAADDBKATAWAWYVVDVDVHCMCYMC -------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- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 60 Combined Motif Original Motif Original Motif AAATAAAMAWWHA AADAAAAMAAAAAM AAAAAAAAAHAAAAAM Direction: Forward Position #: 3 Overlap #: 11 Alignment: AAATAAAMAWWHA--- --AADAAAAMAAAAAM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif awAACAcAAwa Original Motif Original Motif AAAAAAAAAHAAAAAM DDAACACAADV AAAAMAMAAHAAAAAM Direction: Forward Position #: 1 Overlap #: 11 Alignment: AAAAAAAAAHAAAAAM DDAACACAADV----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** 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 DADAAWAHWWWMVVHHVBBHHHVHMHCMCYMC Direction: Forward Position #: 3 Overlap #: 12 Alignment: DAYAAWAHATWADH------------------ --RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Lhx3 Original Motif Original Motif DADAAWAHWWWMVVHHVBBHHHVHMHCMCYMC WAATTAATTAWYB WAAWWAATTWWHHVHHVBBHHHVHMHCMCYMC Direction: Forward Position #: 1 Overlap #: 13 Alignment: DADAAWAHWWWMVVHHVBBHHHVHMHCMCYMC WAATTAATTAWYB------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- FOXF2 Combined Motif Original Motif Reverse Complement WAAWWAATTWWHHVHHVBBHHHVHMHCMCYMC DTTGTTTACSBTBB WAAWWAAHTTGTTTAMVBTHBHVHMHCMCYMC Direction: Forward Position #: 8 Overlap #: 14 Alignment: WAAWWAATTWWHHVHHVBBHHHVHMHCMCYMC -------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 MWWWTHHWAATTA Direction: Backward Position #: 1 Overlap #: 7 Alignment: ------CARTTAW WAATTAATTAWYB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAATwwATTAww Original Motif Original Motif MWWWTHHWAATTA DDTAATWWATTAHH HWTWWTWWAWTWAH Direction: Forward Position #: 1 Overlap #: 13 Alignment: MWWWTHHWAATTA- DDTAATWWATTAHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wtAATTAAtw Reverse Complement Original Motif HTWAWTWWAWWAWH DTAATTAATH DTAATTAAWWWAWH Direction: Forward Position #: 1 Overlap #: 10 Alignment: HTWAWTWWAWWAWH DTAATTAATH---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF1A Original Motif Reverse Complement DTAATTAAWWWAWH GYTAATDATTAACC DTWAWTWATTWACH Direction: Forward Position #: 1 Overlap #: 14 Alignment: DTAATTAAWWWAWH GYTAATDATTAACC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 45 Original Motif Original Motif DTWAWTWATTWACH ATTATTAW ATTATTAWTTWACH Direction: Forward Position #: 1 Overlap #: 8 Alignment: DTWAWTWATTWACH 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Foxd3 Reverse Complement Original Motif CCWTTGTTWTBCAAA GAWTGTTTDTTT BHWTKKTTDTTYAAA Direction: Forward Position #: 1 Overlap #: 12 Alignment: CCWTTGTTWTBCAAA GAWTGTTTDTTT--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXF2 Reverse Complement Original Motif TTTMAADAARRAWDB BHADSGTAAACAAD TDWMVRTAAAVAWDB Direction: Forward Position #: 1 Overlap #: 14 Alignment: TTTMAADAARRAWDB BHADSGTAAACAAD- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Foxq1 Reverse Complement Original Motif BDWTVTTTAKBYWDA HATTGTTTATW BAWTGTTTAKDYWDA Direction: Forward Position #: 1 Overlap #: 11 Alignment: BDWTVTTTAKBYWDA HATTGTTTATW---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif mdAAcCAACG Original Motif Reverse Complement BAWTGTTTAKDYWDA CGTTGGTTDB CRTTGKTTABDYWDA Direction: Forward Position #: 1 Overlap #: 10 Alignment: BAWTGTTTAKDYWDA 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 VAWAAHTWAHMAHHVBBHHHVHMHCMCYMC Direction: Forward Position #: 1 Overlap #: 14 Alignment: VHWAVYTAAWMAHD---------------- RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Sox2 Original Motif Reverse Complement VAWAAHTWAHMAHHVBBHHHVHMHCMCYMC TTTGCATMACAAWGG DDWDHATAACAAWDVBBHHHVHMHCMCYMC Direction: Forward Position #: 1 Overlap #: 15 Alignment: VAWAAHTWAHMAHHVBBHHHVHMHCMCYMC TTTGCATMACAAWGG--------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 60 Combined Motif Original Motif Original Motif DDWDHATAACAAWDVBBHHHVHMHCMCYMC AADAAAAMAAAAAM DDWDHAWAAAAAMAAAHAVHVHMHCMCYMC Direction: Forward Position #: 6 Overlap #: 14 Alignment: DDWDHATAACAAWDVBBHHHVHMHCMCYMC -----AADAAAAMAAAAAM----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pou5f1 Combined Motif Original Motif Reverse Complement DDWDHAWAAAAAMAAAHAVHVHMHCMCYMC ATTTGCATHACAAWG DDWDVWWWRCAWHAVAAABHVHMHCMCYMC Direction: Forward Position #: 5 Overlap #: 15 Alignment: DDWDHAWAAAAAMAAAHAVHVHMHCMCYMC ----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 Original Motif RAAWAWTTDHVCATMACAAWBBMHCMCYMC CWTTGTHATGCAAAT RMWTWVTTATGCADAHCAAWBBMHCMCYMC Direction: Forward Position #: 2 Overlap #: 15 Alignment: RAAWAWTTDHVCATMACAAWBBMHCMCYMC -CWTTGTHATGCAAAT-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwTAATwwATTAww Combined Motif Original Motif Original Motif RMWTWVTTATGCADAHCAAWBBMHCMCYMC DDTAATWWATTAHH RMWTWVWHWWRYWWATYAHHBBMHCMCYMC Direction: Forward Position #: 7 Overlap #: 14 Alignment: RMWTWVTTATGCADAHCAAWBBMHCMCYMC ------DDTAATWWATTAHH---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- FOXF2 Combined Motif Original Motif Original Motif RMWTWVWHWWRYWWATYAHHBBMHCMCYMC BHADSGTAAACAAD RMWTWVBHWWVDTAAWCAADBBMHCMCYMC Direction: Forward Position #: 7 Overlap #: 14 Alignment: RMWTWVWHWWRYWWATYAHHBBMHCMCYMC ------BHADSGTAAACAAD---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- HNF1A Combined Motif Reverse Complement Original Motif GRKGRGDRBBDTTGWTTAHVWWHVVWAWYM GGTTAATDATTAMC GRKGRGGGTTAWTDWTTAHMWWHVVWAWYM Direction: Forward Position #: 7 Overlap #: 14 Alignment: GRKGRGDRBBDTTGWTTAHVWWHVVWAWYM ------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 ATTGTTHCM Direction: Backward Position #: 1 Overlap #: 7 Alignment: --ATTGTTH CMATTGTTH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif SRY Reverse Complement Original Motif RGHAACAAT BDWAACAAT DDHAACAAT Direction: Forward Position #: 1 Overlap #: 9 Alignment: RGHAACAAT BDWAACAAT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Sox2 Reverse Complement Reverse Complement ATTGTTHHH TTTGCATMACAAWGG WTTGYWTHACAAWGG Direction: Forward Position #: 1 Overlap #: 9 Alignment: ATTGTTHHH------ TTTGCATMACAAWGG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Foxq1 Original Motif Original Motif WTTGYWTHACAAWGG HATTGTTTATW HATTGTTTADHAAWGG Direction: Forward Position #: 2 Overlap #: 10 Alignment: -WTTGYWTHACAAWGG HATTGTTTATW----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaACAAAACaa Original Motif Reverse Complement HATTGTTTADHAAWGG BHGTTTTGTTT HWKTKTTKWDHAAWGG Direction: Forward Position #: 1 Overlap #: 11 Alignment: HATTGTTTADHAAWGG 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 AAAGGTYAAAGGTCAAC Direction: Forward Position #: 6 Overlap #: 10 Alignment: -----AWVDAGGTCA-- AAAGGTCAAAGGTCAAC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- NR2F1 Combined Motif Original Motif Reverse Complement AAAGGTYAAAGGTCAAC AKGYYCAAAGRTCA AARGGTCAAAGGTCAAC Direction: Forward Position #: 2 Overlap #: 14 Alignment: AAAGGTYAAAGGTCAAC -AKGYYCAAAGRTCA-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cbCCAGCTCmyk Reverse Complement Reverse Complement GTTGACCTTTGACCKTT HBYGAGCTGGBB BTTGASCTKKDVCCKTT Direction: Forward Position #: 1 Overlap #: 12 Alignment: GTTGACCTTTGACCKTT HBYGAGCTGGBB----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif hsCCAGGCCTGGsr Original Motif Original Motif BTTGASCTKKDVCCKTT HVCCAGGCCTGGBD HBBYRRGCYTGGVBCKTT Direction: Forward Position #: 2 Overlap #: 13 Alignment: -BTTGASCTKKDVCCKTT HVCCAGGCCTGGBD---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Sox2 Reverse Complement Original Motif AARGBBCCAKGCKMKBBD CCWTTGTYATGCAAA AASBWYYRTKMTVBDAARGB Direction: Backward Position #: 3 Overlap #: 13 Alignment: AARGBBCCAKGCKMKBBD-- -----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 Original Motif Original Motif AATTA DTAATTAATH DTAATTAATH Direction: Forward Position #: 3 Overlap #: 5 Alignment: --AATTA--- DTAATTAATH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Lhx3 Reverse Complement Reverse Complement HATTAATTAD BMWTAATTAATTW DATTAATTAATTW Direction: Forward Position #: 1 Overlap #: 10 Alignment: HATTAATTAD--- BMWTAATTAATTW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Nobox Reverse Complement Original Motif WAATTAATTAATD TAATTRSY TAATTAATTAATD Direction: Forward Position #: 1 Overlap #: 8 Alignment: WAATTAATTAATD TAATTRSY----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAATwwATTAww Reverse Complement Reverse Complement DATTAATTAATTA HHTAATWWATTADD DHTWAWTWAWTWWD Direction: Forward Position #: 1 Overlap #: 13 Alignment: DATTAATTAATTA- HHTAATWWATTADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF1A Reverse Complement Reverse Complement DWWAWTWAWTWAHD GYTAATDATTAACC DHWAATWATTAACH Direction: Forward Position #: 1 Overlap #: 14 Alignment: DWWAWTWAWTWAHD GYTAATDATTAACC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Sox2 Combined Motif Original Motif Original Motif RAAWATTWGCAHHWVAAHBHVHMHCMCYMC CCWTTGTYATGCAAA RMMWWTKTBMWBHWVAAHBHVHMHCMCYMC Direction: Forward Position #: 2 Overlap #: 15 Alignment: RAAWATTWGCAHHWVAAHBHVHMHCMCYMC -CCWTTGTYATGCAAA-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXF2 Reverse Complement Reverse Complement GRKGRGDRHVHBHTTBWDBWRVAYAWWYYM DTTGTTTACSBTBB DDTGTTTAMVHBHBTBWDBWRVAYAWWYYM Direction: Forward Position #: 1 Overlap #: 14 Alignment: GRKGRGDRHVHBHTTBWDBWRVAYAWWYYM DTTGTTTACSBTBB---------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- myyCCCACmTGCmyr Combined Motif Original Motif Reverse Complement DDTGTTTAMVHBHBTBWDBWRVAYAWWYYM VDRGCAYGTGGGGVD DDTGTTDDVGCHYGTGDGBHDVAYAWWYYM Direction: Forward Position #: 7 Overlap #: 15 Alignment: DDTGTTTAMVHBHBTBWDBWRVAYAWWYYM ------VDRGCAYGTGGGGVD--------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- yrCACATGCATGTGyr Combined Motif Original Motif Original Motif DDTGTTDDVGCHYGTGDGBHDVAYAWWYYM HVCACATGCATGTGBD DDBGYWCAHGCATGTGBDBHDVAYAWWYYM Direction: Forward Position #: 3 Overlap #: 16 Alignment: DDTGTTDDVGCHYGTGDGBHDVAYAWWYYM --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 GRKGVDRGCAYGTGGGDVVVVHWTTTATWV Direction: Forward Position #: 5 Overlap #: 15 Alignment: GRKGRGDRHVHDDVBBHVVVVHWTTTATWV ----VDRGCAYGTGGGGVD----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 59 Combined Motif Original Motif Reverse Complement GRKGVDRGCAYGTGGGDVVVVHWTTTATWV GGMGKSHGAGGBAG GRKGVDGGMGBGHGVGBBVGVHWTTTATWV Direction: Forward Position #: 7 Overlap #: 14 Alignment: GRKGVDRGCAYGTGGGDVVVVHWTTTATWV ------GGMGKSHGAGGBAG---------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAATwwATTAww Reverse Complement Reverse Complement VWATAAAWDVCBBBCBCHCVCRCCHVCYMC HHTAATWWATTADD VWWWAWWWATYWDHCBCHCVCRCCHVCYMC Direction: Forward Position #: 1 Overlap #: 14 Alignment: VWATAAAWDVCBBBCBCHCVCRCCHVCYMC HHTAATWWATTADD---------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF1A Original Motif Original Motif VWWWAWWWATYWDHCBCHCVCRCCHVCYMC GGTTAATDATTAMC RGTTAWTWATTAVHCBCHCVCRCCHVCYMC Direction: Forward Position #: 1 Overlap #: 14 Alignment: VWWWAWWWATYWDHCBCHCVCRCCHVCYMC 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------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif myyCCCACmTGCmyr Reverse Complement Reverse Complement TTGACCTTTGACSYVGTGDRHVHDDVBBHHBRGDWAWTWTTM VDRGCAYGTGGGGVD HTGRCMTKTGRSBHDGTGDRHVHDDVBBHHBRGDWAWTWTTM Direction: Forward Position #: 1 Overlap #: 15 Alignment: TTGACCTTTGACSYVGTGDRHVHDDVBBHHBRGDWAWTWTTM VDRGCAYGTGGGGVD--------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Evi1 Combined Motif Reverse Complement Original Motif RAAWAWTWDCMBHHVBBHHHVHMHCACHDBSMCARARGKCAH AAGAYAAGATAABA RAAWAAKABAAGATAABHHHVHMHCACHDBSMCARARGKCAH Direction: Forward Position #: 5 Overlap #: 14 Alignment: RAAWAWTWDCMBHHVBBHHHVHMHCACHDBSMCARARGKCAH ----AAGAYAAGATAABA------------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif HNF1A Original Motif Original Motif RAAWAAKABAAGATAABHHHVHMHCACHDBSMCARARGKCAH GGTTAATDATTAMC GGWWAAWDATWAVMTAABHHHVHMHCACHDBSMCARARGKCAH Direction: Forward Position #: 2 Overlap #: 13 Alignment: -RAAWAAKABAAGATAABHHHVHMHCACHDBSMCARARGKCAH GGTTAATDATTAMC----------------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** 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 DTTGTTTACRBTBB Direction: Forward Position #: 3 Overlap #: 8 Alignment: --TGTTTACR---- DTTGTTTACSBTBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Foxq1 Original Motif Original Motif DTTGTTTACRBTBB HATTGTTTATW HATTGTTTAYDBTBB Direction: Forward Position #: 2 Overlap #: 10 Alignment: -DTTGTTTACRBTBB HATTGTTTATW---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwATkTTTAww Original Motif Original Motif HATTGTTTAYDBTBB DHATKTTTAHH HDATKTTTAHDBTBB Direction: Forward Position #: 1 Overlap #: 11 Alignment: HATTGTTTAYDBTBB DHATKTTTAHH---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- FOXI1 Combined Motif Reverse Complement Reverse Complement BHADDHTAAAYATDH AAAMAAAMADBY BHAAAMWAAAMAHHH Direction: Forward Position #: 3 Overlap #: 12 Alignment: BHADDHTAAAYATDH --AAAMAAAMADBY- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif MEF2A Reverse Complement Original Motif HHHTYTTTWRTTTBB CTATTTWTAG CTATTTTTAGTTTBB Direction: Forward Position #: 1 Overlap #: 10 Alignment: HHHTYTTTWRTTTBB 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 Original Motif CAAWGGDDWSMATVR RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC SAAWDDTWDCMAHHRBBHHHVHMHCMCYMC Direction: Forward Position #: 1 Overlap #: 15 Alignment: CAAWGGDDWSMATVR--------------- RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- aaACAAAACaa Combined Motif Original Motif Original Motif SAAWDDTWDCMAHHRBBHHHVHMHCMCYMC AAACAAAACHV SAAWDDTWDMCAAAACHVHHVHMHCMCYMC Direction: Forward Position #: 8 Overlap #: 11 Alignment: SAAWDDTWDCMAHHRBBHHHVHMHCMCYMC -------AAACAAAACHV------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwATkTTTAww Original Motif Original Motif SAAWDDTWDMCAAAACHVHHVHMHCMCYMC DHATKTTTAHH DVAWTTTTAHHCAAAACHVHHVHMHCMCYMC Direction: Forward Position #: 2 Overlap #: 10 Alignment: -SAAWDDTWDMCAAAACHVHHVHMHCMCYMC DHATKTTTAHH-------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif MEF2A Original Motif Original Motif DVAWTTTTAHHCAAAACHVHHVHMHCMCYMC CTATTTWTAG YTATTTWTARHCAAAACHVHHVHMHCMCYMC Direction: Forward Position #: 1 Overlap #: 10 Alignment: DVAWTTTTAHHCAAAACHVHHVHMHCMCYMC CTATTTWTAG--------------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** 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 HVGRAACAGVH Direction: Forward Position #: 2 Overlap #: 10 Alignment: -BCGAAMAGHH HVGAAMCAGVH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXI1 Reverse Complement Original Motif HBCTGTTMCVH KBDTRTTTRTTT DBCTRTTYVKDT Direction: Forward Position #: 1 Overlap #: 11 Alignment: HBCTGTTMCVH- KBDTRTTTRTTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaCAAAAACaa Original Motif Reverse Complement DBCTRTTYVKDT HHGTTTTTGHH DBGTKTTTGDHT Direction: Forward Position #: 1 Overlap #: 11 Alignment: DBCTRTTYVKDT HHGTTTTTGHH- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wtATTTTAww Original Motif Original Motif DBGTKTTTGDHT DHATTTTAWH DHRTTTTWDDHT Direction: Forward Position #: 1 Overlap #: 10 Alignment: DBGTKTTTGDHT DHATTTTAWH-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cbCCAGCTCmyk Reverse Complement Original Motif AHDHWAAAAKHD BBCCAGCTCMBD BBCCAGCTMMHHWAAAAKHD Direction: Forward Position #: 9 Overlap #: 4 Alignment: --------AHDHWAAAAKHD 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-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwATkTTTAww Original Motif Original Motif DHTKTTTWVBTTTBTT DHATKTTTAHH DHWTTTTTADHTTBTT Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHTKTTTWVBTTTBTT DHATKTTTAHH----- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** 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 MHCMCYMCHDCCCCACMTGCMHHRAAWAWT Direction: Backward Position #: 9 Overlap #: 15 Alignment: -------HBCCCCACMTGCMHV-------- RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- yrCACATGCATGTGyr Combined Motif Reverse Complement Original Motif AWTWTTMHDRGCAYGTGGGGDHGRKGRGDR HVCACATGCATGTGBD AWTHDYACADGCATGTGBVGDHGRKGRGDR Direction: Forward Position #: 4 Overlap #: 16 Alignment: AWTWTTMHDRGCAYGTGGGGDHGRKGRGDR ---HVCACATGCATGTGBD----------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif hsCCAGGCCTGGsr Reverse Complement Reverse Complement MHCMCYMCHDCVBCACATGCDTGTMDHAWT HBCCAGGCCTGGVD HHCCASSCCTGBVBCACATGCDTGTMDHAWT Direction: Forward Position #: 2 Overlap #: 13 Alignment: -MHCMCYMCHDCVBCACATGCDTGTMDHAWT HBCCAGGCCTGGVD----------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 59 Combined Motif Original Motif Original Motif HHCCASSCCTGBVBCACATGCDTGTMDHAWT CTBCCTCHSYCYCC HHCCHSBCYYBBHCYMCATGCDTGTMDHAWT Direction: Forward Position #: 4 Overlap #: 14 Alignment: HHCCASSCCTGBVBCACATGCDTGTMDHAWT ---CTBCCTCHSYCYCC-------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 58 Combined Motif Reverse Complement Reverse Complement AWTHDYACADGCATGYKGDBBKKGBSHGGDD TGTGTGTGTGTGTG DKGTGTGKGYGTGTGAWTHDYACADGCATGY Direction: Backward Position #: 2 Overlap #: 14 Alignment: AWTHDYACADGCATGYKGDBBKKGBSHGGDD ----------------TGTGTGTGTGTGTG- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 59 Original Motif Reverse Complement DDHSRGGGAHD GGMGKSHGAGGBAG VVHGRGVGAGBBAG Direction: Forward Position #: 1 Overlap #: 11 Alignment: DDHSRGGGAHD--- GGMGKSHGAGGBAG ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cmCCACACCcm Original Motif Reverse Complement VVHGRGVGAGBBAG VBGGTGTGGBD VDGGDGBGRBBBAG Direction: Forward Position #: 1 Overlap #: 11 Alignment: VVHGRGVGAGBBAG VBGGTGTGGBD--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif ctGAGTkTGAgg Original Motif Original Motif VDGGDGBGRBBBAG VBGAGTKTGADD VDGAGTKTGADDBAG Direction: Forward Position #: 2 Overlap #: 11 Alignment: -VDGGDGBGRBBBAG VBGAGTKTGADD--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ccCCmCaCCCCcc Combined Motif Reverse Complement Original Motif CTBHHTCAYACTCDV HBCCCCACCCCBH CTBBCYCMHMCYCVV Direction: Forward Position #: 3 Overlap #: 13 Alignment: CTBHHTCAYACTCDV --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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wwTAATwwATTAww Combined Motif Reverse Complement Original Motif DHATTTTTAHH DDTAATWWATTAHH DHDTWWTTAATTAHH Direction: Forward Position #: 2 Overlap #: 10 Alignment: DHATTTTTAHH---- -DDTAATWWATTAHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- wtAATTAAtw Combined Motif Original Motif Original Motif DHDTWWTTAATTAHH DTAATTAATH DHDTAATTAATTAHH Direction: Forward Position #: 3 Overlap #: 10 Alignment: DHDTWWTTAATTAHH --DTAATTAATH--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif aaCAAAAACaa Original Motif Reverse Complement DHDTAATTAATTAHH HHGTTTTTGHH HHGTWWTTRWTTAHH Direction: Forward Position #: 1 Overlap #: 11 Alignment: DHDTAATTAATTAHH HHGTTTTTGHH---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** 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- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ccCCmCaCCCCcc Combined Motif Reverse Complement Reverse Complement BBVSCAGGMSYGGBD DBGGGGTGGGGBD BBVSSRGGHGBGGBD Direction: Forward Position #: 3 Overlap #: 13 Alignment: BBVSCAGGMSYGGBD --DBGGGGTGGGGBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax4 Combined Motif Original Motif Reverse Complement BBVSSRGGHGBGGBD GRKGRGDRHVHDDVBBHHBRGDWAWTWTTM BDBGVRGGHGBGGVDBHHBRGDWAWTWTTM Direction: Forward Position #: 1 Overlap #: 15 Alignment: BBVSSRGGHGBGGBD--------------- GRKGRGDRHVHDDVBBHHBRGDWAWTWTTM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 59 Combined Motif Reverse Complement Original Motif RAAWAWTWDCMBHHVHBCCVCHCCMVCBHB CTBCCTCHSYCYCC RAAWAWYTBCCTCHVHCYCVCHCCMVCBHB Direction: Forward Position #: 7 Overlap #: 14 Alignment: RAAWAWTWDCMBHHVHBCCVCHCCMVCBHB ------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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif myyCCCACmTGCmyr Original Motif Reverse Complement DVBBGSSWGCKGGBB VDRGCAYGTGGGGVD VBVGSRBGKSGGGVD Direction: Forward Position #: 1 Overlap #: 15 Alignment: DVBBGSSWGCKGGBB VDRGCAYGTGGGGVD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 59 Reverse Complement Original Motif HVCCCSYCBKSCVBV CTBCCTCHSYCYCC CBBCCBCHBBCYCBV Direction: Forward Position #: 1 Overlap #: 14 Alignment: HVCCCSYCBKSCVBV CTBCCTCHSYCYCC- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ssCkGGYCCCsg Combined Motif Reverse Complement Reverse Complement BBSMGGCTSCCVB VVGGGGCCRGBB BBVVGGSKCCVGBB Direction: Forward Position #: 3 Overlap #: 11 Alignment: BBSMGGCTSCCVB- --VVGGGGCCRGBB ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cbCCAGCTCmyk Original Motif Original Motif BBVVGGSKCCVGBB BBCCAGCTCMBD BBCCRGCTCCVVBB Direction: Forward Position #: 1 Overlap #: 12 Alignment: BBVVGGSKCCVGBB BBCCAGCTCMBD-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif dyCTGCyTCyc Original Motif Original Motif BBCCRGCTCCVVBB DHCTGCYTCHB BBCYGSCTCHVVBB Direction: Forward Position #: 1 Overlap #: 11 Alignment: BBCCRGCTCCVVBB 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 BHWWAWTWAATTW Direction: Forward Position #: 2 Overlap #: 10 Alignment: -DTAATTAATH-- BMWTAATTAATTW ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAATwwATTAww Original Motif Reverse Complement BHWWAWTWAATTW HHTAATWWATTADD DHTAATTWAWTWWD Direction: Forward Position #: 1 Overlap #: 13 Alignment: BHWWAWTWAATTW- HHTAATWWATTADD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wtATTTTAww Original Motif Reverse Complement DHTAATTWAWTWWD HWTAAAATHD DHTAAWWTAWTWWD Direction: Forward Position #: 1 Overlap #: 10 Alignment: DHTAATTWAWTWWD HWTAAAATHD---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif wwTAATAAww Original Motif Original Motif DHTAAWWTAWTWWD DHTAATAADD DHTAATAWADTWWD Direction: Forward Position #: 1 Overlap #: 10 Alignment: DHTAAWWTAWTWWD DHTAATAADD---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- HNF1A Combined Motif Reverse Complement Reverse Complement DWWADTWTATTAHD GYTAATDATTAACC DDHWAWTTATTAACC Direction: Forward Position #: 2 Overlap #: 13 Alignment: DWWADTWTATTAHD- -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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Motif 59 Original Motif Original Motif CCCCMCAYSCCBVHB CTBCCTCHSYCYCC CYCCCYMYSCCHVVB Direction: Forward Position #: 1 Overlap #: 14 Alignment: CCCCMCAYSCCBVHB CTBCCTCHSYCYCC- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif csCCaGCTCCCgs Original Motif Original Motif CYCCCYMYSCCHVVB BBCCAGCTCCCVB CBCCMSCTSCCBBVB Direction: Forward Position #: 1 Overlap #: 13 Alignment: CYCCCYMYSCCHVVB BBCCAGCTCCCVB-- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax4 Combined Motif Reverse Complement Reverse Complement VVBVGGSAGSRGGBG GRKGRGDRHVHDDVBBHHBRGDWAWTWTTM VVGDGGVVGVVGBBDVBBHHBRGDWAWTWTTM Direction: Forward Position #: 3 Overlap #: 13 Alignment: VVBVGGSAGSRGGBG----------------- --GRKGRGDRHVHDDVBBHHBRGDWAWTWTTM ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- hsCCAGGCCTGGsr Combined Motif Original Motif Original Motif VVGDGGVVGVVGBBDVBBHHBRGDWAWTWTTM HVCCAGGCCTGGBD HVSCRGGVSTGGBDDVBBHHBRGDWAWTWTTM Direction: Forward Position #: 1 Overlap #: 14 Alignment: VVGDGGVVGVVGBBDVBBHHBRGDWAWTWTTM HVCCAGGCCTGGBD------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Evi1 Combined Motif Reverse Complement Reverse Complement YTTTTTRTYTTDTT TBTTATCTTMTCTT YTTBTTATCTTHTYTT Direction: Forward Position #: 3 Overlap #: 12 Alignment: YTTTTTRTYTTDTT-- --TBTTATCTTMTCTT ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- FOXI1 Combined Motif Reverse Complement Reverse Complement AAKAHAAGATAAVAAM AAAMAAAMADBY AAKAHAARAWAADVHM Direction: Forward Position #: 4 Overlap #: 12 Alignment: AAKAHAAGATAAVAAM ---AAAMAAAMADBY- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Sox2 Combined Motif Reverse Complement Original Motif YHBDTTWTKTTHTYTT CCWTTGTYATGCAAA YHBBYTTTGTTWTBYWAA Direction: Forward Position #: 4 Overlap #: 13 Alignment: YHBDTTWTKTTHTYTT-- ---CCWTTGTYATGCAAA ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yaCATAYACay Original Motif Reverse Complement YHBBYTTTGTTWTBYWAA DTGTGTATGBD BTGTKTWTGTBWTBYWAA Direction: Forward Position #: 1 Overlap #: 11 Alignment: YHBBYTTTGTTWTBYWAA 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 Reverse Complement Original Motif DDTTTWAAAHH DHATKTTTAHH DHWTTTWWAHH Direction: Backward Position #: 1 Overlap #: 11 Alignment: DDTTTWAAAHH DHATKTTTAHH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif FOXF2 Original Motif 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 HBCCMSRCCTGSVBV Direction: Forward Position #: 1 Overlap #: 14 Alignment: HVCCAGGCCTGGBD- HBCCCCACMTGCMHV ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif yrCACATGCATGTGyr Reverse Complement Reverse Complement VVVSCAGGKSYGGBD DVCACATGCATGTGBH DVCRCAKGBVTGKGBH Direction: Forward Position #: 1 Overlap #: 15 Alignment: VVVSCAGGKSYGGBD- DVCACATGCATGTGBH ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pax4 Combined Motif Reverse Complement Original Motif HVCRCABBCRTGKGBH RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC HVCRMAHDMDTGBVVHHVBBHHHVHMHCMCYMC Direction: Forward Position #: 4 Overlap #: 13 Alignment: HVCRCABBCRTGKGBH----------------- ---RAAWAWTWDCMVHHVBBHHHVHMHCMCYMC ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- csCCaGCTCCCgs Combined Motif Reverse Complement Reverse Complement GRKGRGDRHVHDDVBBHHVVBCADRDHTYKGBH BVGGGAGCTGGBB GRKGRGDDHGBGRGCTVBBVBCADRDHTYKGBH Direction: Forward Position #: 8 Overlap #: 13 Alignment: GRKGRGDRHVHDDVBBHHVVBCADRDHTYKGBH -------BVGGGAGCTGGBB------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- ccCCmCaCCCCcc Combined Motif Original Motif Reverse Complement GRKGRGDDHGBGRGCTVBBVBCADRDHTYKGBH DBGGGGTGGGGBD GRBBGGGGHGGGGVBTVBBVBCADRDHTYKGBH Direction: Forward Position #: 3 Overlap #: 13 Alignment: GRKGRGDDHGBGRGCTVBBVBCADRDHTYKGBH --DBGGGGTGGGGBD------------------ ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- csCCaGCTCCCgs Combined Motif Reverse Complement Original Motif HBCCDGGCCYSBVD BBCCAGCTCCCVB HBBBVSVSCTSSCDB Direction: Forward Position #: 3 Overlap #: 12 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 Original Motif BDHDMRTAAAYAAHVHHVBBHHHVHMHCMCYMC STATAAAWRVVVVBV BDHDMVTAWAWAAVVVHVBBHHHVHMHCMCYMC Direction: Forward Position #: 6 Overlap #: 15 Alignment: BDHDMRTAAAYAAHVHHVBBHHHVHMHCMCYMC -----STATAAAWRVVVVBV------------- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif Sox2 Original Motif Reverse Complement BDHDMVTAWAWAAVVVHVBBHHHVHMHCMCYMC TTTGCATMACAAWGG TBDDHADHAHAAADVVVHVBBHHHVHMHCMCYMC Direction: Forward Position #: 2 Overlap #: 14 Alignment: -BDHDMVTAWAWAAVVVHVBBHHHVHMHCMCYMC 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---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif csCCaGCTCCCgs Original Motif Original Motif HBHGSGCCCWBGMVDH BBCCAGCTCCCVB BBHSVGCBCHCVVVDH Direction: Forward Position #: 1 Overlap #: 13 Alignment: HBHGSGCCCWBGMVDH BBCCAGCTCCCVB--- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- *************************************************************** 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- hsCCAGGCCTGGsr Combined Motif Reverse Complement Original Motif VBVSCCHGSKHV HVCCAGGCCTGGBD VBVVCCAGGBCTGGBD Direction: Forward Position #: 3 Overlap #: 10 Alignment: VBVSCCHGSKHV---- --HVCCAGGCCTGGBD ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Combined Motif cbCCAGCTCmyk Reverse Complement Original Motif HBCCAGBCCTGGVVBV BBCCAGCTCMBD HBCCAGCYCHGGVVBV Direction: Forward Position #: 1 Overlap #: 12 Alignment: HBCCAGBCCTGGVVBV BBCCAGCTCMBD---- ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Results created by MOTIFSIM on 11-19-2016 22:23:05 Runtime: 867.303 seconds MOTIFSIM is written by Ngoc Tam L. 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