Motif Name	Consensus	P-value	Log P-value	q-value (Benjamini)	# of Target Sequences with Motif(of 934)	% of Target Sequences with Motif	# of Background Sequences with Motif(of 792)	% of Background Sequences with Motif
PHA-4(Forkhead)/cElegans-Embryos-PHA4-ChIP-Seq(modEncode)/Homer	KTGTTTGC	1e-44	-1.030e+02	0.0000	418.0	44.75%	112.0	14.15%
FOXA1(Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WAAGTAAACA	1e-28	-6.450e+01	0.0000	237.0	25.37%	49.8	6.29%
Foxa2(Forkhead)/Liver-Foxa2-ChIP-Seq(GSE25694)/Homer	CYTGTTTACWYW	1e-27	-6.325e+01	0.0000	155.0	16.60%	15.6	1.97%
FOXA1(Forkhead)/MCF7-FOXA1-ChIP-Seq(GSE26831)/Homer	WAAGTAAACA	1e-24	-5.729e+01	0.0000	209.0	22.38%	42.8	5.41%
FOXM1(Forkhead)/MCF7-FOXM1-ChIP-Seq(GSE72977)/Homer	TRTTTACTTW	1e-23	-5.457e+01	0.0000	210.0	22.48%	45.0	5.69%
Foxo1(Forkhead)/RAW-Foxo1-ChIP-Seq(Fan_et_al.)/Homer	CTGTTTAC	1e-17	-3.931e+01	0.0000	207.0	22.16%	60.8	7.68%
FoxL2(Forkhead)/Ovary-FoxL2-ChIP-Seq(GSE60858)/Homer	WWTRTAAACAVG	1e-16	-3.867e+01	0.0000	147.0	15.74%	31.0	3.91%
Fox:Ebox(Forkhead,bHLH)/Panc1-Foxa2-ChIP-Seq(GSE47459)/Homer	NNNVCTGWGYAAACASN	1e-15	-3.468e+01	0.0000	128.0	13.70%	25.2	3.19%
TEAD4(TEA)/Tropoblast-Tead4-ChIP-Seq(GSE37350)/Homer	CCWGGAATGY	1e-14	-3.435e+01	0.0000	116.0	12.42%	20.6	2.60%
FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer	NYYTGTTTACHN	1e-14	-3.373e+01	0.0000	95.0	10.17%	13.0	1.64%
TEAD(TEA)/Fibroblast-PU.1-ChIP-Seq(Unpublished)/Homer	YCWGGAATGY	1e-12	-2.850e+01	0.0000	95.0	10.17%	16.7	2.11%
GATA3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATAASR	1e-12	-2.837e+01	0.0000	181.0	19.38%	60.6	7.66%
Gata4(Zf)/Heart-Gata4-ChIP-Seq(GSE35151)/Homer	NBWGATAAGR	1e-10	-2.429e+01	0.0000	116.0	12.42%	30.3	3.82%
TEAD2(TEA)/Py2T-Tead2-ChIP-Seq(GSE55709)/Homer	CCWGGAATGY	1e-10	-2.354e+01	0.0000	73.0	7.82%	11.3	1.43%
Gata2(Zf)/K562-GATA2-ChIP-Seq(GSE18829)/Homer	BBCTTATCTS	1e-8	-2.067e+01	0.0000	81.0	8.67%	17.5	2.21%
NF1-halfsite(CTF)/LNCaP-NF1-ChIP-Seq(Unpublished)/Homer	YTGCCAAG	1e-6	-1.602e+01	0.0000	153.0	16.38%	64.0	8.09%
ELF5(ETS)/T47D-ELF5-ChIP-Seq(GSE30407)/Homer	ACVAGGAAGT	1e-5	-1.286e+01	0.0001	57.0	6.10%	14.9	1.88%
Gata1(Zf)/K562-GATA1-ChIP-Seq(GSE18829)/Homer	SAGATAAGRV	1e-5	-1.205e+01	0.0001	61.0	6.53%	18.0	2.27%
Etv2(ETS)/ES-ER71-ChIP-Seq(GSE59402)/Homer(0.967)	NNAYTTCCTGHN	1e-5	-1.168e+01	0.0002	48.0	5.14%	11.5	1.46%
EHF(ETS)/LoVo-EHF-ChIP-Seq(GSE49402)/Homer	AVCAGGAAGT	1e-5	-1.155e+01	0.0002	85.0	9.10%	31.4	3.97%
ERG(ETS)/VCaP-ERG-ChIP-Seq(GSE14097)/Homer	ACAGGAAGTG	1e-4	-1.140e+01	0.0002	93.0	9.96%	36.7	4.64%
Stat3+il21(Stat)/CD4-Stat3-ChIP-Seq(GSE19198)/Homer	SVYTTCCNGGAARB	1e-4	-1.082e+01	0.0004	54.0	5.78%	15.7	1.99%
STAT4(Stat)/CD4-Stat4-ChIP-Seq(GSE22104)/Homer	NYTTCCWGGAAR	1e-4	-1.029e+01	0.0006	62.0	6.64%	20.7	2.62%
GATA(Zf),IR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NAGATWNBNATCTNN	1e-4	-9.255e+00	0.0015	15.0	1.61%	0.0	0.00%
Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer	NRYTTCCGGY	1e-3	-9.077e+00	0.0018	29.0	3.10%	5.6	0.71%
PQM-1(?)/cElegans-L3-ChIP-Seq(modEncode)/Homer	ACTGATAAGA	1e-3	-9.039e+00	0.0018	24.0	2.57%	3.3	0.42%
MafA(bZIP)/Islet-MafA-ChIP-Seq(GSE30298)/Homer	TGCTGACTCA	1e-3	-8.801e+00	0.0022	45.0	4.82%	13.7	1.73%
Fli1(ETS)/CD8-FLI-ChIP-Seq(GSE20898)/Homer	NRYTTCCGGH	1e-3	-8.788e+00	0.0022	56.0	6.00%	19.3	2.44%
Fosl2(bZIP)/3T3L1-Fosl2-ChIP-Seq(GSE56872)/Homer	NATGASTCABNN	1e-3	-8.780e+00	0.0022	26.0	2.78%	4.4	0.56%
GABPA(ETS)/Jurkat-GABPa-ChIP-Seq(GSE17954)/Homer	RACCGGAAGT	1e-3	-8.462e+00	0.0027	46.0	4.93%	14.9	1.88%
SPDEF(ETS)/VCaP-SPDEF-ChIP-Seq(SRA014231)/Homer	ASWTCCTGBT	1e-3	-8.363e+00	0.0029	60.0	6.42%	22.3	2.82%
Jun-AP1(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	GATGASTCATCN	1e-3	-8.349e+00	0.0029	20.0	2.14%	2.1	0.27%
ETV1(ETS)/GIST48-ETV1-ChIP-Seq(GSE22441)/Homer	AACCGGAAGT	1e-3	-8.134e+00	0.0034	71.0	7.60%	29.7	3.75%
LHY(Myb)/Seedling-LHY-ChIP-Seq(GSE52175)/Homer	ADAAATATCT	1e-3	-8.118e+00	0.0034	66.0	7.07%	26.7	3.38%
ETS1(ETS)/Jurkat-ETS1-ChIP-Seq(GSE17954)/Homer	ACAGGAAGTG	1e-3	-7.846e+00	0.0043	55.0	5.89%	20.7	2.62%
caudal(Homeobox)/Drosophila-Embryos-ChIP-Chip(modEncode)/Homer	GGYCATAAAW	1e-3	-7.756e+00	0.0046	53.0	5.67%	19.9	2.52%
Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer	HACTTCCGGY	1e-3	-7.541e+00	0.0056	30.0	3.21%	7.5	0.95%
Sox4(HMG)/proB-Sox4-ChIP-Seq(GSE50066)/Homer	YCTTTGTTCC	1e-3	-7.003e+00	0.0093	42.0	4.50%	14.8	1.87%
EWS:FLI1-fusion(ETS)/SK_N_MC-EWS:FLI1-ChIP-Seq(SRA014231)/Homer	VACAGGAAAT	1e-2	-6.763e+00	0.0115	34.0	3.64%	10.2	1.29%
PABPC1(?)/MEL-PABC1-CLIP-Seq(GSE69755)/Homer	HAATAAAGNN	1e-2	-6.745e+00	0.0115	155.0	16.60%	90.2	11.39%
EWS:ERG-fusion(ETS)/CADO_ES1-EWS:ERG-ChIP-Seq(SRA014231)/Homer	ATTTCCTGTN	1e-2	-6.652e+00	0.0122	41.0	4.39%	14.6	1.84%
Tal1	CATCTG	1e-2	-6.546e+00	0.0132	81.0	8.67%	39.5	4.99%
HOXB13(Homeobox)/ProstateTumor-HOXB13-ChIP-Seq(GSE56288)/Homer	TTTTATKRGG	1e-2	-6.541e+00	0.0132	84.0	8.99%	41.1	5.20%
BMYB(HTH)/Hela-BMYB-ChIP-Seq(GSE27030)/Homer	NHAACBGYYV	1e-2	-6.417e+00	0.0144	85.0	9.10%	42.8	5.41%
ELT-3(Gata)/cElegans-L1-ELT3-ChIP-Seq(modEncode)/Homer	AWTGATAAGA	1e-2	-6.384e+00	0.0145	33.0	3.53%	10.5	1.33%
c-Myc(bHLH)/LNCAP-cMyc-ChIP-Seq(Unpublished)/Homer	VCCACGTG	1e-2	-6.286e+00	0.0157	27.0	2.89%	7.5	0.95%
GRHL2(CP2)/HBE-GRHL2-ChIP-Seq(GSE46194)/Homer	AAACYKGTTWDACMRGTTTB	1e-2	-5.911e+00	0.0223	28.0	3.00%	8.9	1.13%
BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer	DATGASTCAT	1e-2	-5.830e+00	0.0237	42.0	4.50%	16.5	2.08%
SCL(bHLH)/HPC7-Scl-ChIP-Seq(GSE13511)/Homer	AVCAGCTG	1e-2	-5.772e+00	0.0246	224.0	23.98%	146.2	18.47%
Oct4(POU,Homeobox)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAW	1e-2	-5.541e+00	0.0303	36.0	3.85%	13.2	1.66%
ZNF467(Zf)/HEK293-ZNF467.GFP-ChIP-Seq(GSE58341)/Homer	TGGGGAAGGGCM	1e-2	-5.458e+00	0.0323	23.0	2.46%	6.7	0.85%
AP-2gamma(AP2)/MCF7-TFAP2C-ChIP-Seq(GSE21234)/Homer	SCCTSAGGSCAW	1e-2	-5.347e+00	0.0355	47.0	5.03%	20.1	2.54%
SeqBias: polyA-repeat	AAAAAAAAAA	1e-2	-5.094e+00	0.0448	892.0	95.50%	732.2	92.50%
Oct2(POU,Homeobox)/Bcell-Oct2-ChIP-Seq(GSE21512)/Homer	ATATGCAAAT	1e-2	-5.054e+00	0.0458	22.0	2.36%	6.6	0.84%
E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer	GGCGGGAARN	1e-2	-5.046e+00	0.0458	18.0	1.93%	4.3	0.55%
E2A(bHLH)/proBcell-E2A-ChIP-Seq(GSE21978)/Homer	DNRCAGCTGY	1e-2	-4.983e+00	0.0474	52.0	5.57%	24.7	3.12%
Zfp809(Zf)/ES-Zfp809-ChIP-Seq(GSE70799)/Homer	GGGGCTYGKCTGGGA	1e-2	-4.922e+00	0.0495	8.0	0.86%	0.4	0.05%
Atf3(bZIP)/GBM-ATF3-ChIP-Seq(GSE33912)/Homer	DATGASTCATHN	1e-2	-4.785e+00	0.0557	37.0	3.96%	15.4	1.94%
Zelda(Zf)/Embryo-zld-ChIP-Seq(GSE65441)/Homer	KBCTACCTGW	1e-2	-4.622e+00	0.0645	19.0	2.03%	5.7	0.72%
ETS(ETS)/Promoter/Homer	AACCGGAAGT	1e-2	-4.612e+00	0.0645	17.0	1.82%	4.9	0.62%
AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	VTGACTCATC	1e-1	-4.598e+00	0.0645	38.0	4.07%	16.1	2.04%
Fra1(bZIP)/BT549-Fra1-ChIP-Seq(GSE46166)/Homer	NNATGASTCATH	1e-1	-4.568e+00	0.0648	33.0	3.53%	13.0	1.65%
HLH-1(bHLH)/cElegans-Embryo-HLH1-ChIP-Seq(modEncode)/Homer	RACAGCTGTTBH	1e-1	-4.484e+00	0.0693	36.0	3.85%	15.4	1.94%
Klf9(Zf)/GBM-Klf9-ChIP-Seq(GSE62211)/Homer	GCCACRCCCACY	1e-1	-4.432e+00	0.0719	10.0	1.07%	1.4	0.18%
ELF1(ETS)/Jurkat-ELF1-ChIP-Seq(SRA014231)/Homer	AVCCGGAAGT	1e-1	-4.416e+00	0.0720	24.0	2.57%	8.2	1.04%
Atoh1(bHLH)/Cerebellum-Atoh1-ChIP-Seq(GSE22111)/Homer	VNRVCAGCTGGY	1e-1	-4.307e+00	0.0790	37.0	3.96%	16.1	2.03%
EBF1(EBF)/Near-E2A-ChIP-Seq(GSE21512)/Homer	GTCCCCWGGGGA	1e-1	-4.258e+00	0.0817	32.0	3.43%	13.2	1.67%
Esrrb(NR)/mES-Esrrb-ChIP-Seq(GSE11431)/Homer	KTGACCTTGA	1e-1	-4.157e+00	0.0891	25.0	2.68%	9.0	1.14%
IBL1(bHLH)/Seedling-IBL1-ChIP-Seq(GSE51120)/Homer	CACGTGCC	1e-1	-4.071e+00	0.0957	66.0	7.07%	36.8	4.64%
GATA3(Zf),DR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATGKDGAGATAAG	1e-1	-3.901e+00	0.1118	9.0	0.96%	1.2	0.15%
RBPJ:Ebox(?,bHLH)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	GGGRAARRGRMCAGMTG	1e-1	-3.774e+00	0.1252	11.0	1.18%	2.8	0.36%
Pho2(bHLH)/Yeast-Pho2-ChIP-Seq(GSE29506)/Homer	CCCACGTGCT	1e-1	-3.749e+00	0.1252	13.0	1.39%	3.6	0.45%
ERE(NR),IR3/MCF7-ERa-ChIP-Seq(Unpublished)/Homer	VAGGTCACNSTGACC	1e-1	-3.749e+00	0.1252	13.0	1.39%	3.1	0.39%
Oct6(POU,Homeobox)/NPC-Oct6-ChIP-Seq(GSE35496)/Homer	WATGCAAATGAG	1e-1	-3.720e+00	0.1268	22.0	2.36%	8.4	1.06%
Bach1(bZIP)/K562-Bach1-ChIP-Seq(GSE31477)/Homer	AWWNTGCTGAGTCAT	1e-1	-3.688e+00	0.1291	6.0	0.64%	0.8	0.10%
Sox10(HMG)/SciaticNerve-Sox3-ChIP-Seq(GSE35132)/Homer	CCWTTGTYYB	1e-1	-3.617e+00	0.1368	75.0	8.03%	44.2	5.59%
RUNX1(Runt)/Jurkat-RUNX1-ChIP-Seq(GSE29180)/Homer	AAACCACARM	1e-1	-3.593e+00	0.1383	42.0	4.50%	21.3	2.69%
Tcf12(bHLH)/GM12878-Tcf12-ChIP-Seq(GSE32465)/Homer	VCAGCTGYTG	1e-1	-3.501e+00	0.1478	31.0	3.32%	15.0	1.89%
Stat3(Stat)/mES-Stat3-ChIP-Seq(GSE11431)/Homer	CTTCCGGGAA	1e-1	-3.501e+00	0.1478	31.0	3.32%	14.1	1.78%
AP-2alpha(AP2)/Hela-AP2alpha-ChIP-Seq(GSE31477)/Homer	ATGCCCTGAGGC	1e-1	-3.478e+00	0.1493	34.0	3.64%	16.2	2.05%
HIF2a(bHLH)/785_O-HIF2a-ChIP-Seq(GSE34871)/Homer	GCACGTACCC	1e-1	-3.442e+00	0.1529	16.0	1.71%	5.4	0.68%
E-box/Drosophila-Promoters/Homer	AACAGCTGTTHN	1e-1	-3.377e+00	0.1592	8.0	0.86%	1.5	0.19%
Nur77(NR)/K562-NR4A1-ChIP-Seq(GSE31363)/Homer	TGACCTTTNCNT	1e-1	-3.377e+00	0.1592	8.0	0.86%	1.8	0.22%
SPCH(bHLH)/Seedling-SPCH-ChIP-Seq(GSE57497)/Homer	WNBCACGTGA	1e-1	-3.367e+00	0.1592	44.0	4.71%	23.3	2.94%
AMYB(HTH)/Testes-AMYB-ChIP-Seq(GSE44588)/Homer	TGGCAGTTGG	1e-1	-3.364e+00	0.1592	75.0	8.03%	45.2	5.71%
HEB(bHLH)/mES-Heb-ChIP-Seq(GSE53233)/Homer	VCAGCTGBNN	1e-1	-3.273e+00	0.1685	69.0	7.39%	41.7	5.27%
Bcl6(Zf)/Liver-Bcl6-ChIP-Seq(GSE31578)/Homer	NNNCTTTCCAGGAAA	1e-1	-3.273e+00	0.1685	69.0	7.39%	41.5	5.25%
NRF1(NRF)/MCF7-NRF1-ChIP-Seq(Unpublished)/Homer	CTGCGCATGCGC	1e-1	-3.072e+00	0.2014	5.0	0.54%	0.0	0.00%
VDR(NR),DR3/GM10855-VDR+vitD-ChIP-Seq(GSE22484)/Homer	ARAGGTCANWGAGTTCANNN	1e-1	-3.072e+00	0.2014	5.0	0.54%	0.6	0.08%
STAT5(Stat)/mCD4+-Stat5-ChIP-Seq(GSE12346)/Homer	RTTTCTNAGAAA	1e-1	-3.071e+00	0.2014	15.0	1.61%	5.9	0.75%
Sox9(HMG)/Limb-SOX9-ChIP-Seq(GSE73225)/Homer	AGGVNCCTTTGT	1e-1	-3.004e+00	0.2108	23.0	2.46%	10.2	1.28%
Olig2(bHLH)/Neuron-Olig2-ChIP-Seq(GSE30882)/Homer	RCCATMTGTT	1e-1	-2.945e+00	0.2212	90.0	9.64%	58.6	7.40%
NF1(CTF)/LNCAP-NF1-ChIP-Seq(Unpublished)/Homer	CYTGGCABNSTGCCAR	1e-1	-2.945e+00	0.2212	18.0	1.93%	7.3	0.93%
E2F1(E2F)/Hela-E2F1-ChIP-Seq(GSE22478)/Homer	CWGGCGGGAA	1e-1	-2.864e+00	0.2323	7.0	0.75%	1.2	0.16%
CRE(bZIP)/Promoter/Homer	CSGTGACGTCAC	1e-1	-2.864e+00	0.2323	7.0	0.75%	1.3	0.17%
Brachyury(T-box)/Mesoendoderm-Brachyury-ChIP-exo(GSE54963)/Homer	ANTTMRCASBNNNGTGYKAAN	1e-1	-2.851e+00	0.2323	9.0	0.96%	2.6	0.33%
Bach2(bZIP)/OCILy7-Bach2-ChIP-Seq(GSE44420)/Homer	TGCTGAGTCA	1e-1	-2.851e+00	0.2323	9.0	0.96%	2.3	0.29%
RUNX-AML(Runt)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	GCTGTGGTTW	1e-1	-2.846e+00	0.2323	24.0	2.57%	11.3	1.42%
Cdx2(Homeobox)/mES-Cdx2-ChIP-Seq(GSE14586)/Homer	GYMATAAAAH	1e-1	-2.831e+00	0.2323	43.0	4.60%	24.9	3.14%
ZBTB12(Zf)/HEK293-ZBTB12.GFP-ChIP-Seq(GSE58341)/Homer	NGNTCTAGAACCNGV	1e-1	-2.828e+00	0.2323	16.0	1.71%	6.8	0.86%
E2A(bHLH),near_PU.1/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	NVCACCTGBN	1e-1	-2.785e+00	0.2365	47.0	5.03%	27.2	3.44%
Foxh1(Forkhead)/hESC-FOXH1-ChIP-Seq(GSE29422)/Homer	NNTGTGGATTSS	1e-1	-2.741e+00	0.2446	34.0	3.64%	18.5	2.34%
HIF-1a(bHLH)/MCF7-HIF1a-ChIP-Seq(GSE28352)/Homer	TACGTGCV	1e-1	-2.712e+00	0.2470	14.0	1.50%	6.0	0.75%
Usf2(bHLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer	GTCACGTGGT	1e-1	-2.712e+00	0.2470	14.0	1.50%	5.2	0.66%
Ap4(bHLH)/AML-Tfap4-ChIP-Seq(GSE45738)/Homer	NAHCAGCTGD	1e-1	-2.665e+00	0.2565	45.0	4.82%	26.4	3.34%
USF1(bHLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer	SGTCACGTGR	1e-1	-2.625e+00	0.2645	17.0	1.82%	7.9	1.00%
Ascl1(bHLH)/NeuralTubes-Ascl1-ChIP-Seq(GSE55840)/Homer	NNVVCAGCTGBN	1e-1	-2.611e+00	0.2657	53.0	5.67%	32.4	4.10%
Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer	GCCACACCCA	1e-1	-2.601e+00	0.2659	12.0	1.28%	4.9	0.62%
E-box/Arabidopsis-Promoters/Homer	GCCACGTG	1e-1	-2.586e+00	0.2675	20.0	2.14%	9.9	1.25%
ZNF416(Zf)/HEK293-ZNF416.GFP-ChIP-Seq(GSE58341)/Homer	WDNCTGGGCA	1e-1	-2.546e+00	0.2759	54.0	5.78%	33.8	4.28%
Atf7(bZIP)/3T3L1-Atf7-ChIP-Seq(GSE56872)/Homer	NGRTGACGTCAY	1e-1	-2.498e+00	0.2869	10.0	1.07%	3.3	0.42%
NF-E2(bZIP)/K562-NFE2-ChIP-Seq(GSE31477)/Homer	GATGACTCAGCA	1e-1	-2.457e+00	0.2869	4.0	0.43%	0.3	0.04%
Unknown3/Arabidopsis-Promoters/Homer	AYTAAACCGG	1e-1	-2.457e+00	0.2869	4.0	0.43%	0.8	0.11%
E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer	VDTTTCCCGCCA	1e-1	-2.457e+00	0.2869	4.0	0.43%	0.0	0.00%
E-box(bHLH)/Promoter/Homer	SSGGTCACGTGA	1e-1	-2.457e+00	0.2869	4.0	0.43%	0.0	0.00%
Egr2(Zf)/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer	NGCGTGGGCGGR	1e-1	-2.457e+00	0.2869	4.0	0.43%	0.6	0.08%
Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer	GTTGCCATGGCAACM	1e-1	-2.457e+00	0.2869	4.0	0.43%	0.6	0.07%
RFX(HTH)/K562-RFX3-ChIP-Seq(SRA012198)/Homer	CGGTTGCCATGGCAAC	1e-1	-2.457e+00	0.2869	4.0	0.43%	0.6	0.07%
RORgt(NR)/EL4-RORgt.Flag-ChIP-Seq(GSE56019)/Homer	AAYTAGGTCA	1e-1	-2.457e+00	0.2869	4.0	0.43%	0.9	0.12%
HRE(HSF)/HepG2-HSF1-ChIP-Seq(GSE31477)/Homer	BSTTCTRGAABVTTCYAGAA	1e-1	-2.457e+00	0.2869	4.0	0.43%	0.0	0.00%
TR4(NR),DR1/Hela-TR4-ChIP-Seq(GSE24685)/Homer	GAGGTCAAAGGTCA	1e-1	-2.457e+00	0.2869	4.0	0.43%	0.0	0.00%
NRF(NRF)/Promoter/Homer	STGCGCATGCGC	1e-1	-2.457e+00	0.2869	4.0	0.43%	0.0	0.00%
Nrf2(bZIP)/Lymphoblast-Nrf2-ChIP-Seq(GSE37589)/Homer	HTGCTGAGTCAT	1e-1	-2.457e+00	0.2869	4.0	0.43%	0.3	0.04%
PGR(NR)/EndoStromal-PGR-ChIP-Seq(GSE69539)/Homer	AAGAACATWHTGTTC	1e-1	-2.411e+00	0.2869	8.0	0.86%	3.0	0.38%
GATA3(Zf),DR8/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATSTNDNNDSAGATAASN	1e-1	-2.411e+00	0.2869	8.0	0.86%	2.6	0.33%
Hoxc9(Homeobox)/Ainv15-Hoxc9-ChIP-Seq(GSE21812)/Homer	GGCCATAAATCA	1e-1	-2.388e+00	0.2869	31.0	3.32%	17.5	2.21%
PU.1:IRF8(ETS:IRF)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	GGAAGTGAAAST	1e-1	-2.364e+00	0.2869	6.0	0.64%	1.4	0.17%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	AGGTCAAGGTCA	1e-1	-2.364e+00	0.2869	6.0	0.64%	1.7	0.21%
REB1/SacCer-Promoters/Homer	KCCGGGTAAYRR	1e-1	-2.364e+00	0.2869	6.0	0.64%	1.8	0.23%
RUNX2(Runt)/PCa-RUNX2-ChIP-Seq(GSE33889)/Homer	NWAACCACADNN	1e-1	-2.330e+00	0.2897	25.0	2.68%	13.9	1.76%
PU.1(ETS)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	AGAGGAAGTG	1e-1	-2.318e+00	0.2910	16.0	1.71%	8.0	1.01%
RUNX(Runt)/HPC7-Runx1-ChIP-Seq(GSE22178)/Homer	SAAACCACAG	1e-1	-2.311e+00	0.2910	22.0	2.36%	11.8	1.49%
Ptf1a(bHLH)/Panc1-Ptf1a-ChIP-Seq(GSE47459)/Homer	ACAGCTGTTN	1e0	-2.301e+00	0.2913	101.0	10.81%	70.5	8.91%
Tcf21(bHLH)/ArterySmoothMuscle-Tcf21-ChIP-Seq(GSE61369)/Homer	NAACAGCTGG	1e0	-2.298e+00	0.2913	32.0	3.43%	18.0	2.28%
MYB(HTH)/ERMYB-Myb-ChIPSeq(GSE22095)/Homer	GGCVGTTR	1e0	-2.232e+00	0.3077	85.0	9.10%	58.5	7.39%
Ets1-distal(ETS)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	MACAGGAAGT	1e0	-2.180e+00	0.3217	14.0	1.50%	6.2	0.78%
Pit1+1bp(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGCATAATTCA	1e0	-2.166e+00	0.3238	17.0	1.82%	8.3	1.05%
Smad4(MAD)/ESC-SMAD4-ChIP-Seq(GSE29422)/Homer	VBSYGTCTGG	1e0	-2.150e+00	0.3244	53.0	5.67%	34.3	4.34%
HOXD13(Homeobox)/Chicken-Hoxd13-ChIP-Seq(GSE38910)/Homer	NCYAATAAAA	1e0	-2.150e+00	0.3244	53.0	5.67%	34.5	4.36%
Erra(NR)/HepG2-Erra-ChIP-Seq(GSE31477)/Homer	CAAAGGTCAG	1e0	-2.122e+00	0.3311	79.0	8.46%	54.7	6.91%
Pho4(bHLH)/Yeast-Pho4-ChIP-Seq(GSE29506)/Homer	AAGCACGTGBGD	1e0	-2.111e+00	0.3311	9.0	0.96%	3.5	0.44%
OCT4-SOX2-TCF-NANOG(POU,Homeobox,HMG)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAACAATG	1e0	-2.111e+00	0.3311	9.0	0.96%	3.1	0.39%
NeuroD1(bHLH)/Islet-NeuroD1-ChIP-Seq(GSE30298)/Homer	GCCATCTGTT	1e0	-2.064e+00	0.3436	35.0	3.75%	21.1	2.67%
Nr5a2(NR)/mES-Nr5a2-ChIP-Seq(GSE19019)/Homer	BTCAAGGTCA	1e0	-2.060e+00	0.3436	21.0	2.25%	11.1	1.40%
c-Myc(bHLH)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	VVCCACGTGG	1e0	-2.039e+00	0.3450	12.0	1.28%	5.6	0.71%
HNF4a(NR),DR1/HepG2-HNF4a-ChIP-Seq(GSE25021)/Homer	CARRGKBCAAAGTYCA	1e0	-2.039e+00	0.3450	12.0	1.28%	5.8	0.74%
BMAL1(bHLH)/Liver-Bmal1-ChIP-Seq(GSE39860)/Homer	GNCACGTG	1e0	-2.023e+00	0.3483	64.0	6.85%	43.1	5.44%
Atf2(bZIP)/3T3L1-Atf2-ChIP-Seq(GSE56872)/Homer	NRRTGACGTCAT	1e0	-1.987e+00	0.3585	7.0	0.75%	2.3	0.29%
HIF-1b(HLH)/T47D-HIF1b-ChIP-Seq(GSE59937)/Homer	RTACGTGC	1e0	-1.930e+00	0.3770	45.0	4.82%	29.4	3.71%
SeqBias: CG-repeat	CGCGCGCGCG	1e0	-1.900e+00	0.3858	67.0	7.17%	46.9	5.92%
MafK(bZIP)/C2C12-MafK-ChIP-Seq(GSE36030)/Homer	GCTGASTCAGCA	1e0	-1.894e+00	0.3858	10.0	1.07%	4.9	0.62%
SpiB(ETS)/OCILY3-SPIB-ChIP-Seq(GSE56857)/Homer	AAAGRGGAAGTG	1e0	-1.879e+00	0.3865	5.0	0.54%	1.5	0.19%
Unknown4/Drosophila-Promoters/Homer	AAAAATACCRMA	1e0	-1.879e+00	0.3865	5.0	0.54%	1.1	0.15%
bHLHE40(bHLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer	KCACGTGMCN	1e0	-1.879e+00	0.3865	13.0	1.39%	6.2	0.79%
FOXA1:AR(Forkhead,NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	AGTAAACAAAAAAGAACAND	1e0	-1.842e+00	0.3932	3.0	0.32%	0.3	0.04%
ABF1/SacCer-Promoters/Homer	CGTRNAAARTGA	1e0	-1.842e+00	0.3932	3.0	0.32%	0.0	0.00%
PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer	ADGGYAGYAGCATCT	1e0	-1.780e+00	0.4155	17.0	1.82%	9.2	1.16%
ZBTB18(Zf)/HEK293-ZBTB18.GFP-ChIP-Seq(GSE58341)/Homer	AACATCTGGA	1e0	-1.746e+00	0.4272	14.0	1.50%	7.4	0.94%
Tgif2(Homeobox)/mES-Tgif2-ChIP-Seq(GSE55404)/Homer	TGTCANYT	1e0	-1.728e+00	0.4326	126.0	13.49%	94.6	11.95%
CLOCK(bHLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer	GHCACGTG	1e0	-1.709e+00	0.4379	25.0	2.68%	15.7	1.98%
PIF5ox(bHLH)/Arabidopsis-PIF5ox-ChIP-Seq(GSE35062)/Homer	BCACGTGVDN	1e0	-1.698e+00	0.4398	33.0	3.53%	21.6	2.73%
ZNF264(Zf)/HEK293-ZNF264.GFP-ChIP-Seq(GSE58341)/Homer	RGGGCACTAACY	1e0	-1.682e+00	0.4443	18.0	1.93%	11.0	1.39%
AR-halfsite(NR)/LNCaP-AR-ChIP-Seq(GSE27824)/Homer	CCAGGAACAG	1e0	-1.650e+00	0.4558	140.0	14.99%	106.1	13.40%
Atf1(bZIP)/K562-ATF1-ChIP-Seq(GSE31477)/Homer	GATGACGTCA	1e0	-1.635e+00	0.4601	15.0	1.61%	8.5	1.07%
GATA(Zf),IR3/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NNNNNBAGATAWYATCTVHN	1e0	-1.594e+00	0.4736	12.0	1.28%	6.6	0.84%
E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer	GGCGGGAAAH	1e0	-1.594e+00	0.4736	12.0	1.28%	6.5	0.83%
Rfx1(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	KGTTGCCATGGCAA	1e0	-1.584e+00	0.4736	6.0	0.64%	2.7	0.35%
c-Jun-CRE(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	ATGACGTCATCY	1e0	-1.584e+00	0.4736	6.0	0.64%	2.3	0.29%
SeqBias: TA-repeat	TATATATATA	1e0	-1.580e+00	0.4736	193.0	20.66%	150.3	18.99%
PAX5(Paired,Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GCAGCCAAGCRTGACH	1e0	-1.567e+00	0.4736	9.0	0.96%	4.1	0.52%
FHY3(FAR1)/Arabidopsis-FHY3-ChIP-Seq(GSE30711)/Homer	HHCACGCGCBTN	1e0	-1.567e+00	0.4736	9.0	0.96%	4.4	0.56%
STAT1(Stat)/HelaS3-STAT1-ChIP-Seq(GSE12782)/Homer	NATTTCCNGGAAAT	1e0	-1.539e+00	0.4827	16.0	1.71%	9.2	1.17%
SUT1?/SacCer-Promoters/Homer	CCCCGCGC	1e0	-1.535e+00	0.4827	236.0	25.27%	186.2	23.52%
NFkB-p65(RHD)/GM12787-p65-ChIP-Seq(GSE19485)/Homer	WGGGGATTTCCC	1e0	-1.484e+00	0.5041	13.0	1.39%	7.0	0.89%
MafF(bZIP)/HepG2-MafF-ChIP-Seq(GSE31477)/Homer	HWWGTCAGCAWWTTT	1e0	-1.456e+00	0.5156	17.0	1.82%	10.8	1.37%
Sox15(HMG)/CPA-Sox15-ChIP-Seq(GSE62909)/Homer	RAACAATGGN	1e0	-1.434e+00	0.5238	43.0	4.60%	30.6	3.87%
ZNF165(Zf)/WHIM12-ZNF165-ChIP-Seq(GSE65937)/Homer	AAGGKGRCGCAGGCA	1e0	-1.414e+00	0.5259	4.0	0.43%	1.9	0.23%
Pbx3(Homeobox)/GM12878-PBX3-ChIP-Seq(GSE32465)/Homer	SCTGTCAMTCAN	1e0	-1.414e+00	0.5259	4.0	0.43%	1.8	0.23%
Tcf3(HMG)/mES-Tcf3-ChIP-Seq(GSE11724)/Homer	ASWTCAAAGG	1e0	-1.414e+00	0.5259	4.0	0.43%	1.4	0.17%
NF1:FOXA1(CTF,Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WNTGTTTRYTTTGGCA	1e0	-1.396e+00	0.5323	7.0	0.75%	3.3	0.41%
Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer	SCCTAGCAACAG	1e0	-1.392e+00	0.5323	14.0	1.50%	8.6	1.09%
RXR(NR),DR1/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer	TAGGGCAAAGGTCA	1e0	-1.389e+00	0.5323	35.0	3.75%	24.8	3.13%
Max(bHLH)/K562-Max-ChIP-Seq(GSE31477)/Homer	RCCACGTGGYYN	1e0	-1.318e+00	0.5631	19.0	2.03%	12.8	1.62%
PRDM1(Zf)/Hela-PRDM1-ChIP-Seq(GSE31477)/Homer	ACTTTCACTTTC	1e0	-1.318e+00	0.5631	19.0	2.03%	12.6	1.60%
Brn1(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	TATGCWAATBAV	1e0	-1.313e+00	0.5631	15.0	1.61%	9.2	1.17%
Unknown5/Drosophila-Promoters/Homer	GCTGATAASV	1e0	-1.313e+00	0.5631	15.0	1.61%	9.4	1.19%
KLF14(Zf)/HEK293-KLF14.GFP-ChIP-Seq(GSE58341)/Homer	RGKGGGCGKGGC	1e0	-1.267e+00	0.5830	43.0	4.60%	31.4	3.97%
ZNF322(Zf)/HEK293-ZNF322.GFP-ChIP-Seq(GSE58341)/Homer	GAGCCTGGTACTGWGCCTGR	1e0	-1.263e+00	0.5830	8.0	0.86%	4.1	0.52%
NPAS2(bHLH)/Liver-NPAS2-ChIP-Seq(GSE39860)/Homer	KCCACGTGAC	1e0	-1.238e+00	0.5939	39.0	4.18%	28.4	3.59%
NFkB-p65-Rel(RHD)/ThioMac-LPS-Expression(GSE23622)/Homer	GGAAATTCCC	1e0	-1.228e+00	0.5939	2.0	0.21%	0.0	0.00%
GFY(?)/Promoter/Homer	ACTACAATTCCC	1e0	-1.228e+00	0.5939	2.0	0.21%	0.5	0.06%
JunD(bZIP)/K562-JunD-ChIP-Seq/Homer	ATGACGTCATCN	1e0	-1.228e+00	0.5939	2.0	0.21%	0.3	0.04%
ZNF692(Zf)/HEK293-ZNF692.GFP-ChIP-Seq(GSE58341)/Homer	GTGGGCCCCA	1e0	-1.228e+00	0.5939	2.0	0.21%	0.4	0.05%
ZSCAN22(Zf)/HEK293-ZSCAN22.GFP-ChIP-Seq(GSE58341)/Homer	SMCAGTCWGAKGGAGGAGGC	1e0	-1.228e+00	0.5939	2.0	0.21%	0.0	0.00%
p53(p53)/Saos-p53-ChIP-Seq(GSE15780)/Homer	RRCATGYCYRGRCATGYYYN	1e0	-1.228e+00	0.5939	2.0	0.21%	0.8	0.10%
p53(p53)/Saos-p53-ChIP-Seq/Homer	RRCATGYCYRGRCATGYYYN	1e0	-1.228e+00	0.5939	2.0	0.21%	0.8	0.10%
SeqBias: CA-repeat	CACACACACA	1e0	-1.224e+00	0.5939	224.0	23.98%	180.8	22.84%
Reverb(NR),DR2/RAW-Reverba.biotin-ChIP-Seq(GSE45914)/Homer	GTRGGTCASTGGGTCA	1e0	-1.205e+00	0.5939	5.0	0.54%	2.5	0.32%
X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	GGTTGCCATGGCAA	1e0	-1.205e+00	0.5939	5.0	0.54%	2.7	0.35%
Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer	TGCGTGGGYG	1e0	-1.161e+00	0.6059	9.0	0.96%	5.4	0.68%
Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer	BAACAGCTGT	1e0	-1.103e+00	0.6389	14.0	1.50%	9.2	1.16%
Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo_et_al.)/Homer	TBGCACGCAA	1e0	-1.082e+00	0.6493	19.0	2.03%	13.8	1.74%
Pax8(Paired,Homeobox)/Thyroid-Pax8-ChIP-Seq(GSE26938)/Homer	GTCATGCHTGRCTGS	1e0	-1.080e+00	0.6493	10.0	1.07%	6.9	0.87%
Cbf1(bHLH)/Yeast-Cbf1-ChIP-Seq(GSE29506)/Homer	TCACGTGAYH	1e0	-1.080e+00	0.6493	10.0	1.07%	7.0	0.88%
Tgif1(Homeobox)/mES-Tgif1-ChIP-Seq(GSE55404)/Homer	YTGWCADY	1e0	-1.051e+00	0.6600	113.0	12.10%	90.1	11.38%
PIF4(bHLH)/Seedling-PIF4-ChIP-Seq(GSE35315)/Homer	NNBCACGTGN	1e0	-1.017e+00	0.6792	36.0	3.85%	27.5	3.47%
MITF(bHLH)/MastCells-MITF-ChIP-Seq(GSE48085)/Homer	RTCATGTGAC	1e0	-9.800e-01	0.7017	32.0	3.43%	24.0	3.03%
ETS:RUNX(ETS,Runt)/Jurkat-RUNX1-ChIP-Seq(GSE17954)/Homer	RCAGGATGTGGT	1e0	-9.757e-01	0.7017	3.0	0.32%	1.3	0.17%
PAX5(Paired,Homeobox),condensed/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GTCACGCTCSCTGM	1e0	-9.757e-01	0.7017	3.0	0.32%	1.2	0.15%
PAX6(Paired,Homeobox)/Forebrain-Pax6-ChIP-Seq(GSE66961)/Homer	NGTGTTCAVTSAAGCGKAAA	1e0	-9.757e-01	0.7017	3.0	0.32%	1.8	0.22%
Unknown1/Arabidopsis-Promoters/Homer	RGGGTAWWWTHGTAA	1e0	-9.757e-01	0.7017	3.0	0.32%	2.0	0.25%
ZNF675(Zf)/HEK293-ZNF675.GFP-ChIP-Seq(GSE58341)/Homer	ARGAGGMCAAAATGW	1e0	-9.757e-01	0.7017	3.0	0.32%	1.4	0.17%
SeqBias: G/A bias	RRRRRRRRRR	1e0	-9.282e-01	0.7182	911.0	97.54%	769.8	97.25%
Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer	GGGGGGGG	1e0	-8.781e-01	0.7515	36.0	3.85%	28.0	3.54%
Pit1(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGMATATDC	1e0	-8.702e-01	0.7539	48.0	5.14%	38.4	4.85%
Nr5a2(NR)/Pancreas-LRH1-ChIP-Seq(GSE34295)/Homer	BTCAAGGTCA	1e0	-8.685e-01	0.7539	25.0	2.68%	19.1	2.42%
PPARE(NR),DR1/3T3L1-Pparg-ChIP-Seq(GSE13511)/Homer	TGACCTTTGCCCCA	1e0	-8.685e-01	0.7539	25.0	2.68%	19.1	2.41%
Pknox1(Homeobox)/ES-Prep1-ChIP-Seq(GSE63282)/Homer	SCTGTCAVTCAV	1e0	-8.577e-01	0.7539	4.0	0.43%	2.3	0.29%
NFAT:AP1(RHD,bZIP)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	SARTGGAAAAWRTGAGTCAB	1e0	-8.577e-01	0.7539	4.0	0.43%	2.7	0.34%
PRDM14(Zf)/H1-PRDM14-ChIP-Seq(GSE22767)/Homer	RGGTCTCTAACY	1e0	-8.577e-01	0.7539	4.0	0.43%	2.0	0.25%
GLI3(Zf)/Limb-GLI3-ChIP-Chip(GSE11077)/Homer	CGTGGGTGGTCC	1e0	-8.577e-01	0.7539	4.0	0.43%	2.4	0.31%
MyoG(bHLH)/C2C12-MyoG-ChIP-Seq(GSE36024)/Homer	AACAGCTG	1e0	-8.416e-01	0.7539	26.0	2.78%	20.5	2.59%
Initiator/Drosophila-Promoters/Homer	NTCAGTYG	1e0	-8.369e-01	0.7539	74.0	7.92%	60.5	7.65%
PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	MGGAAGTGAAAC	1e0	-8.345e-01	0.7539	38.0	4.07%	31.0	3.91%
MyoD(bHLH)/Myotube-MyoD-ChIP-Seq(GSE21614)/Homer	RRCAGCTGYTSY	1e0	-8.306e-01	0.7539	15.0	1.61%	12.0	1.51%
KLF5(Zf)/LoVo-KLF5-ChIP-Seq(GSE49402)/Homer	DGGGYGKGGC	1e0	-8.146e-01	0.7583	33.0	3.53%	26.9	3.40%
HOXA9(Homeobox)/HSC-Hoxa9-ChIP-Seq(GSE33509)/Homer	GGCCATAAATCA	1e0	-8.142e-01	0.7583	39.0	4.18%	31.6	3.99%
LIN-39(Homeobox)/cElegans.L3-LIN39-ChIP-Seq(modEncode)/Homer	ATGATTRATG	1e0	-8.009e-01	0.7620	58.0	6.21%	47.2	5.96%
GRE(NR),IR3/RAW264.7-GRE-ChIP-Seq(Unpublished)/Homer	VAGRACAKWCTGTYC	1e0	-7.833e-01	0.7722	5.0	0.54%	3.7	0.47%
SeqBias: GCW-triplet	GCWGCWGCWGCW	1e0	-7.594e-01	0.7874	905.0	96.90%	765.5	96.70%
HRE(HSF)/Striatum-HSF1-ChIP-Seq(GSE38000)/Homer	TTCTAGAABNTTCTA	1e0	-7.296e-01	0.8007	6.0	0.64%	4.8	0.61%
EBF(EBF)/proBcell-EBF-ChIP-Seq(GSE21978)/Homer	DGTCCCYRGGGA	1e0	-7.296e-01	0.8007	6.0	0.64%	4.7	0.59%
Tbx20(T-box)/Heart-Tbx20-ChIP-Seq(GSE29636)/Homer	GGTGYTGACAGS	1e0	-7.296e-01	0.8007	6.0	0.64%	4.7	0.60%
n-Myc(bHLH)/mES-nMyc-ChIP-Seq(GSE11431)/Homer	VRCCACGTGG	1e0	-7.148e-01	0.8092	19.0	2.03%	15.2	1.92%
Hoxb4(Homeobox)/ES-Hoxb4-ChIP-Seq(GSE34014)/Homer	TGATTRATGGCY	1e0	-7.042e-01	0.8143	13.0	1.39%	10.0	1.27%
Pdx1(Homeobox)/Islet-Pdx1-ChIP-Seq(SRA008281)/Homer	YCATYAATCA	1e0	-7.016e-01	0.8143	52.0	5.57%	43.8	5.53%
Mef2d(MADS)/Retina-Mef2d-ChIP-Seq(GSE61391)/Homer	GCTATTTTTAGC	1e0	-6.878e-01	0.8208	7.0	0.75%	5.4	0.69%
SeqBias: A/T bias	WWWWWWWWWW	1e0	-6.860e-01	0.8208	720.0	77.09%	609.0	76.94%
CEBP:AP1(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	DRTGTTGCAA	1e0	-6.830e-01	0.8208	27.0	2.89%	22.3	2.81%
STAT6(Stat)/Macrophage-Stat6-ChIP-Seq(GSE38377)/Homer	TTCCKNAGAA	1e0	-6.702e-01	0.8249	21.0	2.25%	17.0	2.15%
Sox6(HMG)/Myotubes-Sox6-ChIP-Seq(GSE32627)/Homer	CCATTGTTNY	1e0	-6.649e-01	0.8259	68.0	7.28%	57.5	7.27%
CTCF-SatelliteElement(Zf?)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	TGCAGTTCCMVNWRTGGCCA	1e0	-6.135e-01	0.8315	1.0	0.11%	0.4	0.06%
p53(p53)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	ACATGCCCGGGCAT	1e0	-6.135e-01	0.8315	1.0	0.11%	0.0	0.00%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	RGGTCADNNAGAGGTCAV	1e0	-6.135e-01	0.8315	1.0	0.11%	0.0	0.00%
ZNF41(Zf)/HEK293-ZNF41.GFP-ChIP-Seq(GSE58341)/Homer	CCTCATGGTGYCYTWYTCCCTTGTG	1e0	-6.135e-01	0.8315	1.0	0.11%	0.4	0.05%
GFY-Staf(?,Zf)/Promoter/Homer	RACTACAATTCCCAGAAKGC	1e0	-6.135e-01	0.8315	1.0	0.11%	0.0	0.00%
NFkB-p50,p52(RHD)/Monocyte-p50-ChIP-Chip(Schreiber_et_al.)/Homer	GGGGGAATCCCC	1e0	-6.135e-01	0.8315	1.0	0.11%	0.7	0.09%
ZBTB33(Zf)/GM12878-ZBTB33-ChIP-Seq(GSE32465)/Homer	GGVTCTCGCGAGAAC	1e0	-6.135e-01	0.8315	1.0	0.11%	0.0	0.00%
E2F(E2F)/Hela-CellCycle-Expression/Homer	TTSGCGCGAAAA	1e0	-6.135e-01	0.8315	1.0	0.11%	0.0	0.00%
TCFL2(HMG)/K562-TCF7L2-ChIP-Seq(GSE29196)/Homer	ACWTCAAAGG	1e0	-6.135e-01	0.8315	1.0	0.11%	0.6	0.08%
ZNF669(Zf)/HEK293-ZNF669.GFP-ChIP-Seq(GSE58341)/Homer	GARTGGTCATCGCCC	1e0	-6.135e-01	0.8315	1.0	0.11%	0.6	0.07%
CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	AYAGTGCCMYCTRGTGGCCA	1e0	-6.135e-01	0.8315	1.0	0.11%	0.0	0.00%
TATA-box/Drosophila-Promoters/Homer	CTATAAAAGCSV	1e0	-5.761e-01	0.8598	2.0	0.21%	1.8	0.22%
Sox3(HMG)/NPC-Sox3-ChIP-Seq(GSE33059)/Homer	CCWTTGTY	1e0	-5.703e-01	0.8614	70.0	7.49%	60.0	7.58%
ZNF189(Zf)/HEK293-ZNF189.GFP-ChIP-Seq(GSE58341)/Homer	TGGAACAGMA	1e0	-5.538e-01	0.8723	28.0	3.00%	24.8	3.13%
GSC(Homeobox)/FrogEmbryos-GSC-ChIP-Seq(DRA000576)/Homer	RGGATTAR	1e0	-5.500e-01	0.8723	65.0	6.96%	56.3	7.11%
IRF:BATF(IRF:bZIP)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	CTTTCANTATGACTV	1e0	-5.491e-01	0.8723	3.0	0.32%	2.0	0.26%
GATA:SCL(Zf,bHLH)/Ter119-SCL-ChIP-Seq(GSE18720)/Homer	CRGCTGBNGNSNNSAGATAA	1e0	-5.491e-01	0.8723	3.0	0.32%	2.4	0.30%
Srebp2(bHLH)/HepG2-Srebp2-ChIP-Seq(GSE31477)/Homer	CGGTCACSCCAC	1e0	-5.491e-01	0.8723	3.0	0.32%	2.6	0.33%
ZNF143|STAF(Zf)/CUTLL-ZNF143-ChIP-Seq(GSE29600)/Homer	ATTTCCCAGVAKSCY	1e0	-5.273e-01	0.8785	4.0	0.43%	3.1	0.39%
Dorsal(RHD)/Embryo-dl-ChIP-Seq(GSE65441)/Homer	GGGAAAAMCCCG	1e0	-5.087e-01	0.8916	5.0	0.54%	4.9	0.62%
Unknown-ESC-element(?)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	CACAGCAGGGGG	1e0	-5.086e-01	0.8916	15.0	1.61%	14.0	1.76%
Six1(Homeobox)/Myoblast-Six1-ChIP-Chip(GSE20150)/Homer	GKVTCADRTTWC	1e0	-4.923e-01	0.8994	6.0	0.64%	5.2	0.65%
Zic(Zf)/Cerebellum-ZIC1.2-ChIP-Seq(GSE60731)/Homer	CCTGCTGAGH	1e0	-4.910e-01	0.8994	25.0	2.68%	22.8	2.88%
Tlx?(NR)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	CTGGCAGSCTGCCA	1e0	-4.816e-01	0.9022	17.0	1.82%	15.3	1.93%
Atf4(bZIP)/MEF-Atf4-ChIP-Seq(GSE35681)/Homer	MTGATGCAAT	1e0	-4.775e-01	0.9025	7.0	0.75%	6.7	0.84%
Phox2a(Homeobox)/Neuron-Phox2a-ChIP-Seq(GSE31456)/Homer	YTAATYNRATTA	1e0	-4.694e-01	0.9064	18.0	1.93%	16.6	2.09%
Smad3(MAD)/NPC-Smad3-ChIP-Seq(GSE36673)/Homer	TWGTCTGV	1e0	-4.606e-01	0.9111	98.0	10.49%	86.2	10.88%
CRX(Homeobox)/Retina-Crx-ChIP-Seq(GSE20012)/Homer	GCTAATCC	1e0	-4.016e-01	0.9628	130.0	13.92%	115.0	14.53%
Mef2a(MADS)/HL1-Mef2a.biotin-ChIP-Seq(GSE21529)/Homer	CYAAAAATAG	1e0	-3.843e-01	0.9760	16.0	1.71%	15.7	1.98%
Unknown2/Drosophila-Promoters/Homer	CATCMCTA	1e0	-3.682e-01	0.9882	39.0	4.18%	36.1	4.57%
Mef2c(MADS)/GM12878-Mef2c-ChIP-Seq(GSE32465)/Homer	DCYAAAAATAGM	1e0	-3.619e-01	0.9908	19.0	2.03%	18.6	2.34%
KANADI1(Myb)/Seedling-KAN1-ChIP-Seq(GSE48081)/Homer	ARGAATAWWN	1e0	-3.429e-01	1.0000	43.0	4.60%	40.8	5.15%
Tcf4(HMG)/Hct116-Tcf4-ChIP-Seq(SRA012054)/Homer	ASATCAAAGGVA	1e0	-3.278e-01	1.0000	7.0	0.75%	7.6	0.97%
KLF10(Zf)/HEK293-KLF10.GFP-ChIP-Seq(GSE58341)/Homer	GGGGGTGTGTCC	1e0	-3.257e-01	1.0000	8.0	0.86%	8.5	1.08%
Srebp1a(bHLH)/HepG2-Srebp1a-ChIP-Seq(GSE31477)/Homer	RTCACSCCAY	1e0	-3.237e-01	1.0000	4.0	0.43%	4.8	0.60%
PAX3:FKHR-fusion(Paired,Homeobox)/Rh4-PAX3:FKHR-ChIP-Seq(GSE19063)/Homer	ACCRTGACTAATTNN	1e0	-3.237e-01	1.0000	4.0	0.43%	4.0	0.51%
CEBP:CEBP(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	NTNATGCAAYMNNHTGMAAY	1e0	-3.237e-01	1.0000	4.0	0.43%	4.8	0.60%
SFP1/SacCer-Promoters/Homer	DDAAAAATTTTY	1e0	-3.137e-01	1.0000	3.0	0.32%	3.6	0.45%
BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer	CNNBRGCGCCCCCTGSTGGC	1e0	-3.137e-01	1.0000	3.0	0.32%	3.2	0.41%
Tbox:Smad(T-box,MAD)/ESCd5-Smad2_3-ChIP-Seq(GSE29422)/Homer	AGGTGHCAGACA	1e0	-3.137e-01	1.0000	3.0	0.32%	3.5	0.44%
Unknown(Homeobox)/Limb-p300-ChIP-Seq/Homer	SSCMATWAAA	1e0	-3.025e-01	1.0000	29.0	3.10%	28.2	3.56%
ZNF136(Zf)/HEK293-ZNF136.GFP-ChIP-Seq(GSE58341)/Homer	YTKGATAHAGTATTCTWGGTNGGCA	1e0	-2.914e-01	1.0000	2.0	0.21%	2.2	0.27%
AARE(HLH)/mES-cMyc-ChIP-Seq/Homer	GATTGCATCA	1e0	-2.914e-01	1.0000	2.0	0.21%	2.7	0.34%
ZFX(Zf)/mES-Zfx-ChIP-Seq(GSE11431)/Homer	AGGCCTRG	1e0	-2.847e-01	1.0000	44.0	4.71%	42.0	5.31%
NFY(CCAAT)/Promoter/Homer	RGCCAATSRG	1e0	-2.834e-01	1.0000	19.0	2.03%	19.3	2.44%
PR(NR)/T47D-PR-ChIP-Seq(GSE31130)/Homer	VAGRACAKNCTGTBC	1e0	-2.733e-01	1.0000	76.0	8.14%	71.6	9.04%
Nkx2.2(Homeobox)/NPC-Nkx2.2-ChIP-Seq(GSE61673)/Homer	BTBRAGTGSN	1e0	-2.476e-01	1.0000	53.0	5.67%	51.5	6.51%
LXRE(NR),DR4/RAW-LXRb.biotin-ChIP-Seq(GSE21512)/Homer	RGGTTACTANAGGTCA	1e0	-2.359e-01	1.0000	1.0	0.11%	1.2	0.15%
Otx2(Homeobox)/EpiLC-Otx2-ChIP-Seq(GSE56098)/Homer	NYTAATCCYB	1e0	-2.356e-01	1.0000	32.0	3.43%	32.8	4.14%
FXR(NR),IR1/Liver-FXR-ChIP-Seq(Chong_et_al.)/Homer	AGGTCANTGACCTB	1e0	-2.290e-01	1.0000	10.0	1.07%	11.4	1.44%
GAGA-repeat/SacCer-Promoters/Homer	CTYTCTYTCTCTCTC	1e0	-2.280e-01	1.0000	141.0	15.10%	130.7	16.51%
RBFox2(?)/Heart-RBFox2-CLIP-Seq(GSE57926)/Homer	TGCATGCA	1e0	-2.266e-01	1.0000	59.0	6.32%	57.3	7.24%
STAT6(Stat)/CD4-Stat6-ChIP-Seq(GSE22104)/Homer	ABTTCYYRRGAA	1e0	-2.178e-01	1.0000	20.0	2.14%	21.2	2.68%
Rbpj1(?)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	HTTTCCCASG	1e0	-2.168e-01	1.0000	38.0	4.07%	38.9	4.92%
Tbx5(T-box)/HL1-Tbx5.biotin-ChIP-Seq(GSE21529)/Homer	AGGTGTCA	1e0	-2.111e-01	1.0000	94.0	10.06%	89.4	11.30%
Tbet(T-box)/CD8-Tbet-ChIP-Seq(GSE33802)/Homer	AGGTGTGAAM	1e0	-2.026e-01	1.0000	27.0	2.89%	28.8	3.64%
Pitx1(Homeobox)/Chicken-Pitx1-ChIP-Seq(GSE38910)/Homer	TAATCCCN	1e0	-1.947e-01	1.0000	217.0	23.23%	198.2	25.04%
SeqBias: GA-repeat	GAGAGAGAGA	1e0	-1.918e-01	1.0000	256.0	27.41%	233.0	29.43%
ZNF711(Zf)/SHSY5Y-ZNF711-ChIP-Seq(GSE20673)/Homer	AGGCCTAG	1e0	-1.828e-01	1.0000	63.0	6.75%	62.7	7.92%
PCF/Arabidopsis-Promoters/Homer	NNWWWTGGGCYTDDN	1e0	-1.789e-01	1.0000	3.0	0.32%	4.8	0.61%
Meis1(Homeobox)/MastCells-Meis1-ChIP-Seq(GSE48085)/Homer	VGCTGWCAVB	1e0	-1.783e-01	1.0000	38.0	4.07%	39.7	5.01%
IRF4(IRF)/GM12878-IRF4-ChIP-Seq(GSE32465)/Homer	ACTGAAACCA	1e0	-1.679e-01	1.0000	13.0	1.39%	15.1	1.91%
Sp1(Zf)/Promoter/Homer	GGCCCCGCCCCC	1e0	-1.665e-01	1.0000	12.0	1.28%	14.2	1.79%
Eomes(T-box)/H9-Eomes-ChIP-Seq(GSE26097)/Homer	ATTAACACCT	1e0	-1.617e-01	1.0000	60.0	6.42%	60.4	7.63%
TOD6?/SacCer-Promoters/Homer	GCGATGAGMT	1e0	-1.504e-01	1.0000	2.0	0.21%	3.9	0.49%
ZNF519(Zf)/HEK293-ZNF519.GFP-ChIP-Seq(GSE58341)/Homer	GAGSCCGAGC	1e0	-1.504e-01	1.0000	2.0	0.21%	3.5	0.45%
EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer	NWGGGTGTGGCY	1e0	-1.504e-01	1.0000	2.0	0.21%	3.2	0.40%
Pax7(Paired,Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCAATTA	1e0	-1.504e-01	1.0000	2.0	0.21%	3.0	0.38%
Mef2b(MADS)/HEK293-Mef2b.V5-ChIP-Seq(GSE67450)/Homer	GCTATTTTTGGM	1e0	-1.443e-01	1.0000	39.0	4.18%	42.0	5.30%
Chop(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	ATTGCATCAT	1e0	-1.311e-01	1.0000	5.0	0.54%	7.0	0.89%
CEBP(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	ATTGCGCAAC	1e0	-1.275e-01	1.0000	26.0	2.78%	29.1	3.68%
HNF6(Homeobox)/Liver-Hnf6-ChIP-Seq(ERP000394)/Homer	NTATYGATCH	1e0	-1.272e-01	1.0000	17.0	1.82%	20.6	2.60%
CHR(?)/Hela-CellCycle-Expression/Homer	SRGTTTCAAA	1e0	-1.236e-01	1.0000	14.0	1.50%	17.8	2.24%
Hnf1(Homeobox)/Liver-Foxa2-Chip-Seq(GSE25694)/Homer	GGTTAAWCATTAA	1e0	-1.183e-01	1.0000	4.0	0.43%	6.5	0.82%
Nkx3.1(Homeobox)/LNCaP-Nkx3.1-ChIP-Seq(GSE28264)/Homer	AAGCACTTAA	1e0	-1.179e-01	1.0000	72.0	7.71%	73.5	9.28%
GRE(NR),IR3/A549-GR-ChIP-Seq(GSE32465)/Homer	NRGVACABNVTGTYCY	1e0	-1.012e-01	1.0000	1.0	0.11%	3.0	0.38%
HOXA2(Homeobox)/mES-Hoxa2-ChIP-Seq(Donaldson_et_al.)/Homer	GYCATCMATCAT	1e0	-1.012e-01	1.0000	1.0	0.11%	2.8	0.35%
Oct4:Sox17(POU,Homeobox,HMG)/F9-Sox17-ChIP-Seq(GSE44553)/Homer	CCATTGTATGCAAAT	1e0	-1.012e-01	1.0000	3.0	0.32%	5.1	0.64%
Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq(GSE22178)/Homer	MAATCACTGC	1e0	-9.849e-02	1.0000	22.0	2.36%	26.1	3.29%
bZIP:IRF(bZIP,IRF)/Th17-BatF-ChIP-Seq(GSE39756)/Homer	NAGTTTCABTHTGACTNW	1e0	-9.762e-02	1.0000	7.0	0.75%	10.7	1.35%
CES-1(Homeobox)/cElegans-L1-CES1-ChIP-Seq(modEncode)/Homer	AAATTSAATTTN	1e0	-9.735e-02	1.0000	20.0	2.14%	24.1	3.04%
SeqBias: C/A-bias	MMMMMMMMMM	1e0	-9.513e-02	1.0000	890.0	95.29%	763.7	96.48%
SeqBias: CG bias	SSSSSSSSSS	1e0	-8.941e-02	1.0000	350.0	37.47%	321.6	40.63%
SeqBias: polyC-repeat	CCCCCCCCCC	1e0	-8.493e-02	1.0000	719.0	76.98%	630.6	79.67%
Unknown3/Drosophila-Promoters/Homer	ACVAKCTGGCAGCGC	1e0	-8.112e-02	1.0000	5.0	0.54%	8.9	1.12%
Tcfcp2l1(CP2)/mES-Tcfcp2l1-ChIP-Seq(GSE11431)/Homer	NRAACCRGTTYRAACCRGYT	1e0	-7.775e-02	1.0000	2.0	0.21%	4.3	0.54%
ETS:E-box(ETS,bHLH)/HPC7-Scl-ChIP-Seq(GSE22178)/Homer	AGGAARCAGCTG	1e0	-7.775e-02	1.0000	2.0	0.21%	4.0	0.51%
Sox2(HMG)/mES-Sox2-ChIP-Seq(GSE11431)/Homer	BCCATTGTTC	1e0	-7.188e-02	1.0000	19.0	2.03%	24.7	3.12%
Unknown1(NR/Ini-like)/Drosophila-Promoters/Homer	MYGGTCACACTG	1e0	-7.006e-02	1.0000	4.0	0.43%	7.5	0.95%
Nkx6.1(Homeobox)/Islet-Nkx6.1-ChIP-Seq(GSE40975)/Homer	GKTAATGR	1e0	-6.498e-02	1.0000	108.0	11.56%	110.8	14.00%
p63(p53)/Keratinocyte-p63-ChIP-Seq(GSE17611)/Homer	NNDRCATGYCYNRRCATGYH	1e0	-6.325e-02	1.0000	7.0	0.75%	11.0	1.40%
Lhx2(Homeobox)/HFSC-Lhx2-ChIP-Seq(GSE48068)/Homer	TAATTAGN	1e0	-6.074e-02	1.0000	35.0	3.75%	41.7	5.26%
Unknown4/Arabidopsis-Promoters/Homer	CKTCKTCTTY	1e0	-5.813e-02	1.0000	25.0	2.68%	31.7	4.00%
ARE(NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	RGRACASNSTGTYCYB	1e0	-5.652e-02	1.0000	3.0	0.32%	6.5	0.83%
GAGA-repeat/Arabidopsis-Promoters/Homer	CTCTCTCTCY	1e0	-5.408e-02	1.0000	20.0	2.14%	26.3	3.32%
NFAT(RHD)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	ATTTTCCATT	1e0	-5.168e-02	1.0000	18.0	1.93%	24.8	3.14%
Lhx1(Homeobox)/EmbryoCarcinoma-Lhx1-ChIP-Seq(GSE70957)/Homer	NNYTAATTAR	1e0	-4.789e-02	1.0000	40.0	4.28%	47.8	6.04%
TATA-Box(TBP)/Promoter/Homer	CCTTTTAWAGSC	1e0	-4.784e-02	1.0000	42.0	4.50%	49.7	6.28%
Mouse_Recombination_Hotspot(Zf)/Testis-DMC1-ChIP-Seq(GSE24438)/Homer	ACTYKNATTCGTGNTACTTC	1e0	-4.503e-02	1.0000	1.0	0.11%	3.8	0.47%
IRF2(IRF)/Erythroblas-IRF2-ChIP-Seq(GSE36985)/Homer	GAAASYGAAASY	1e0	-4.503e-02	1.0000	1.0	0.11%	3.1	0.40%
DMRT6(DM)/Testis-DMRT6-ChIP-Seq(GSE60440)/Homer	YDGHTACAWTGTADC	1e0	-3.999e-02	1.0000	2.0	0.21%	5.8	0.74%
IRF1(IRF)/PBMC-IRF1-ChIP-Seq(GSE43036)/Homer	GAAAGTGAAAGT	1e0	-3.999e-02	1.0000	2.0	0.21%	5.7	0.72%
Nkx2.1(Homeobox)/LungAC-Nkx2.1-ChIP-Seq(GSE43252)/Homer	RSCACTYRAG	1e0	-3.974e-02	1.0000	75.0	8.03%	82.7	10.45%
Znf263(Zf)/K562-Znf263-ChIP-Seq(GSE31477)/Homer	CVGTSCTCCC	1e0	-3.399e-02	1.0000	27.0	2.89%	35.7	4.51%
Trl(Zf)/S2-GAGAfactor-ChIP-Seq(GSE40646)/Homer	RGAGAGAG	1e0	-2.993e-02	1.0000	52.0	5.57%	61.3	7.74%
Smad2(MAD)/ES-SMAD2-ChIP-Seq(GSE29422)/Homer	CTGTCTGG	1e0	-2.971e-02	1.0000	42.0	4.50%	51.7	6.54%
Lhx3(Homeobox)/Neuron-Lhx3-ChIP-Seq(GSE31456)/Homer	ADBTAATTAR	1e0	-2.916e-02	1.0000	61.0	6.53%	70.7	8.94%
Brn2(POU,Homeobox)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATATTC	1e0	-2.034e-02	1.0000	1.0	0.11%	4.9	0.62%
Bapx1(Homeobox)/VertebralCol-Bapx1-ChIP-Seq(GSE36672)/Homer	TTRAGTGSYK	1e0	-1.887e-02	1.0000	53.0	5.67%	64.9	8.19%
DPL-1(E2F)/cElegans-Adult-ChIP-Seq(modEncode)/Homer	TAGCGCGC	1e0	-1.857e-02	1.0000	12.0	1.28%	20.4	2.58%
Nkx2.5(Homeobox)/HL1-Nkx2.5.biotin-ChIP-Seq(GSE21529)/Homer	RRSCACTYAA	1e0	-1.480e-02	1.0000	52.0	5.57%	64.4	8.13%
ZNF415(Zf)/HEK293-ZNF415.GFP-ChIP-Seq(GSE58341)/Homer	GRTGMTRGAGCC	1e0	-1.297e-02	1.0000	6.0	0.64%	13.1	1.66%
SOC1(MADS)/Seedling-SOC1-ChIP-Seq(GSE45846)/Homer	TWCCAWWTWTGG	1e0	-1.297e-02	1.0000	6.0	0.64%	13.4	1.69%
EGL-5(Homeobox)/cElegans-L3-EGL5-ChIP-Seq(modEncode)/Homer	ATTTAATGGG	1e0	-1.168e-02	1.0000	54.0	5.78%	67.7	8.55%
THRa(NR)/C17.2-THRa-ChIP-Seq(GSE38347)/Homer	GGTCANYTGAGGWCA	1e0	-9.107e-03	1.0000	3.0	0.32%	9.6	1.22%
Nanog(Homeobox)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	RGCCATTAAC	1e0	-8.268e-03	1.0000	156.0	16.70%	167.5	21.16%
CArG(MADS)/PUER-Srf-ChIP-Seq(Sullivan_et_al.)/Homer	CCATATATGGNM	1e0	-5.847e-03	1.0000	5.0	0.54%	13.2	1.67%
Unknown6/Drosophila-Promoters/Homer	AATTTTAAAA	1e0	-3.188e-03	1.0000	15.0	1.61%	28.5	3.60%
DMRT1(DM)/Testis-DMRT1-ChIP-Seq(GSE64892)/Homer	TWGHWACAWTGTWDC	1e0	-2.572e-03	1.0000	2.0	0.21%	10.0	1.26%
TATA-box/SacCer-Promoters/Homer	BBHWTATATA	1e0	-1.334e-03	1.0000	12.0	1.28%	26.1	3.30%
Isl1(Homeobox)/Neuron-Isl1-ChIP-Seq(GSE31456)/Homer	CTAATKGV	1e0	-8.360e-04	1.0000	59.0	6.32%	83.0	10.48%
SEP3(MADS)/Arabidoposis-Flower-Sep3-ChIP-Seq/Homer	CCAAAAAGGG	1e0	-0.000e+00	1.0000	16.0	1.71%	49.8	6.30%
RLR1?/SacCer-Promoters/Homer	WTTTTCYYTTTT	1e0	-0.000e+00	1.0000	2.0	0.21%	23.5	2.97%
Pax7(Paired,Homeobox),long/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCHGATTAC	1e0	-0.000e+00	1.0000	0.0	0.00%	2.6	0.33%
ISRE(IRF)/ThioMac-LPS-Expression(GSE23622)/Homer	AGTTTCASTTTC	1e0	-0.000e+00	1.0000	0.0	0.00%	2.7	0.34%
Pax7(Paired,Homeobox),longest/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	NTAATTDGCYAATTANNWWD	1e0	-0.000e+00	1.0000	0.0	0.00%	3.4	0.43%
DREF/Drosophila-Promoters/Homer	AVYTATCGATAD	1e0	-0.000e+00	1.0000	0.0	0.00%	1.5	0.19%
ZNF382(Zf)/HEK293-ZNF382.GFP-ChIP-Seq(GSE58341)/Homer	GNCTGTASTRNTGBCTCHTT	1e0	-0.000e+00	1.0000	0.0	0.00%	2.0	0.25%
PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer	GSCTGTCACTCA	1e0	0.000e+00	1.0000	0.0	0.00%	0.4	0.05%
ZNF528(Zf)/HEK293-ZNF528.GFP-ChIP-Seq(GSE58341)/Homer	AGAAATGACTTCCCT	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
ZNF317(Zf)/HEK293-ZNF317.GFP-ChIP-Seq(GSE58341)/Homer	GTCWGCTGTYYCTCT	1e0	0.000e+00	1.0000	0.0	0.00%	0.3	0.04%
 Ik-1	NHTTGGGAATRCC	1e0	0.000e+00	1.0000	934.0	100.00%	791.6	100.00%
ZNF16(Zf)/HEK293-ZNF16.GFP-ChIP-Seq(GSE58341)/Homer	MACCTTCYATGGCTCCCTAKTGCCY	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
ZFP3(Zf)/HEK293-ZFP3.GFP-ChIP-Seq(GSE58341)/Homer	GGGTTTTGAAGGATGARTAGGAGTT	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
YY1(Zf)/Promoter/Homer	CAAGATGGCGGC	1e0	0.000e+00	1.0000	0.0	0.00%	0.5	0.07%
EBNA1(EBV-virus)/Raji-EBNA1-ChIP-Seq(GSE30709)/Homer	GGYAGCAYDTGCTDCCCNNN	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
T1ISRE(IRF)/ThioMac-Ifnb-Expression/Homer	ACTTTCGTTTCT	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
Unknown2/Arabidopsis-Promoters/Homer	AAACGACGTCGTTTT	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
EFL-1(E2F)/cElegans-L1-EFL1-ChIP-Seq(modEncode)/Homer	TGCAARYGCGCTCYA	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
GEI-11(Myb?)/cElegans-L4-GEI11-ChIP-Seq(modEncode)/Homer	CCGACAYYTYACGGG	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
LIN-15B(Zf)/cElegans-L3-LIN15B-ChIP-Seq(modEncode)/Homer	CARTGGAGCGCRYTTGCATT	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
OCT:OCT(POU,Homeobox,IR1)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATWATTCATGA	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
OCT:OCT(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	ATGAATATTCATGAG	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
REST-NRSF(Zf)/Jurkat-NRSF-ChIP-Seq/Homer	GGMGCTGTCCATGGTGCTGA	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
RARg(NR)/ES-RARg-ChIP-Seq(GSE30538)/Homer	AGGTCAAGGTCA	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
GFX(?)/Promoter/Homer	ATTCTCGCGAGA	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%