Motif Name	Consensus	P-value	Log P-value	q-value (Benjamini)	# of Target Sequences with Motif(of 1582)	% of Target Sequences with Motif	# of Background Sequences with Motif(of 1622)	% of Background Sequences with Motif
PHA-4(Forkhead)/cElegans-Embryos-PHA4-ChIP-Seq(modEncode)/Homer	KTGTTTGC	1e-5	-1.328e+01	0.0007	272.0	17.19%	185.6	11.44%
PABPC1(?)/MEL-PABC1-CLIP-Seq(GSE69755)/Homer	HAATAAAGNN	1e-5	-1.306e+01	0.0007	249.0	15.74%	166.5	10.26%
FOXM1(Forkhead)/MCF7-FOXM1-ChIP-Seq(GSE72977)/Homer	TRTTTACTTW	1e-5	-1.211e+01	0.0007	89.0	5.63%	41.1	2.53%
FOXA1(Forkhead)/MCF7-FOXA1-ChIP-Seq(GSE26831)/Homer	WAAGTAAACA	1e-5	-1.190e+01	0.0007	94.0	5.94%	45.6	2.81%
FOXA1(Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WAAGTAAACA	1e-5	-1.170e+01	0.0007	107.0	6.76%	55.6	3.43%
ZNF416(Zf)/HEK293-ZNF416.GFP-ChIP-Seq(GSE58341)/Homer	WDNCTGGGCA	1e-4	-1.115e+01	0.0009	121.0	7.65%	67.4	4.15%
Pho2(bHLH)/Yeast-Pho2-ChIP-Seq(GSE29506)/Homer	CCCACGTGCT	1e-4	-1.095e+01	0.0010	24.0	1.52%	3.9	0.24%
Srebp2(bHLH)/HepG2-Srebp2-ChIP-Seq(GSE31477)/Homer	CGGTCACSCCAC	1e-4	-9.774e+00	0.0028	17.0	1.07%	1.6	0.10%
FoxL2(Forkhead)/Ovary-FoxL2-ChIP-Seq(GSE60858)/Homer	WWTRTAAACAVG	1e-3	-8.489e+00	0.0088	86.0	5.44%	47.1	2.91%
Bapx1(Homeobox)/VertebralCol-Bapx1-ChIP-Seq(GSE36672)/Homer	TTRAGTGSYK	1e-3	-8.476e+00	0.0088	190.0	12.01%	133.3	8.22%
GSC(Homeobox)/FrogEmbryos-GSC-ChIP-Seq(DRA000576)/Homer	RGGATTAR	1e-3	-8.065e+00	0.0111	188.0	11.88%	133.9	8.25%
c-Myc(bHLH)/LNCAP-cMyc-ChIP-Seq(Unpublished)/Homer	VCCACGTG	1e-3	-8.035e+00	0.0111	25.0	1.58%	6.4	0.40%
Pho4(bHLH)/Yeast-Pho4-ChIP-Seq(GSE29506)/Homer	AAGCACGTGBGD	1e-3	-8.002e+00	0.0111	19.0	1.20%	3.2	0.20%
MafK(bZIP)/C2C12-MafK-ChIP-Seq(GSE36030)/Homer	GCTGASTCAGCA	1e-3	-7.170e+00	0.0213	13.0	0.82%	1.9	0.12%
LHY(Myb)/Seedling-LHY-ChIP-Seq(GSE52175)/Homer	ADAAATATCT	1e-3	-7.141e+00	0.0213	123.0	7.77%	81.6	5.03%
Etv2(ETS)/ES-ER71-ChIP-Seq(GSE59402)/Homer(0.967)	NNAYTTCCTGHN	1e-3	-7.076e+00	0.0213	45.0	2.84%	21.0	1.29%
Nkx3.1(Homeobox)/LNCaP-Nkx3.1-ChIP-Seq(GSE28264)/Homer	AAGCACTTAA	1e-3	-6.931e+00	0.0222	164.0	10.37%	117.2	7.22%
Unknown4/Arabidopsis-Promoters/Homer	CKTCKTCTTY	1e-2	-6.885e+00	0.0222	74.0	4.68%	42.7	2.63%
CLOCK(bHLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer	GHCACGTG	1e-2	-6.825e+00	0.0222	34.0	2.15%	13.7	0.84%
SeqBias: TA-repeat	TATATATATA	1e-2	-6.797e+00	0.0222	436.0	27.56%	370.0	22.81%
GAGA-repeat/SacCer-Promoters/Homer	CTYTCTYTCTCTCTC	1e-2	-6.785e+00	0.0222	332.0	20.99%	271.1	16.71%
GABPA(ETS)/Jurkat-GABPa-ChIP-Seq(GSE17954)/Homer	RACCGGAAGT	1e-2	-6.362e+00	0.0304	43.0	2.72%	20.2	1.25%
Mef2c(MADS)/GM12878-Mef2c-ChIP-Seq(GSE32465)/Homer	DCYAAAAATAGM	1e-2	-6.128e+00	0.0352	70.0	4.42%	41.5	2.56%
ETV1(ETS)/GIST48-ETV1-ChIP-Seq(GSE22441)/Homer	AACCGGAAGT	1e-2	-6.128e+00	0.0352	70.0	4.42%	41.4	2.56%
Unknown2/Drosophila-Promoters/Homer	CATCMCTA	1e-2	-5.882e+00	0.0432	96.0	6.07%	63.2	3.89%
Tcf4(HMG)/Hct116-Tcf4-ChIP-Seq(SRA012054)/Homer	ASATCAAAGGVA	1e-2	-5.735e+00	0.0481	37.0	2.34%	17.1	1.05%
Srebp1a(bHLH)/HepG2-Srebp1a-ChIP-Seq(GSE31477)/Homer	RTCACSCCAY	1e-2	-5.581e+00	0.0540	20.0	1.26%	6.0	0.37%
FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer	NYYTGTTTACHN	1e-2	-5.470e+00	0.0582	32.0	2.02%	14.9	0.92%
USF1(bHLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer	SGTCACGTGR	1e-2	-5.470e+00	0.0582	23.0	1.45%	8.9	0.55%
bHLHE40(bHLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer	KCACGTGMCN	1e-2	-5.436e+00	0.0582	18.0	1.14%	5.7	0.35%
E-box/Arabidopsis-Promoters/Homer	GCCACGTG	1e-2	-5.234e+00	0.0666	24.0	1.52%	9.1	0.56%
Sox4(HMG)/proB-Sox4-ChIP-Seq(GSE50066)/Homer	YCTTTGTTCC	1e-2	-5.047e+00	0.0777	47.0	2.97%	26.0	1.60%
Sox2(HMG)/mES-Sox2-ChIP-Seq(GSE11431)/Homer	BCCATTGTTC	1e-2	-4.962e+00	0.0821	48.0	3.03%	28.0	1.72%
ERG(ETS)/VCaP-ERG-ChIP-Seq(GSE14097)/Homer	ACAGGAAGTG	1e-2	-4.957e+00	0.0821	80.0	5.06%	53.1	3.27%
Cdx2(Homeobox)/mES-Cdx2-ChIP-Seq(GSE14586)/Homer	GYMATAAAAH	1e-2	-4.793e+00	0.0917	84.0	5.31%	58.0	3.57%
Sox15(HMG)/CPA-Sox15-ChIP-Seq(GSE62909)/Homer	RAACAATGGN	1e-2	-4.774e+00	0.0917	78.0	4.93%	52.1	3.21%
Mef2d(MADS)/Retina-Mef2d-ChIP-Seq(GSE61391)/Homer	GCTATTTTTAGC	1e-2	-4.633e+00	0.1017	24.0	1.52%	10.6	0.65%
Foxo1(Forkhead)/RAW-Foxo1-ChIP-Seq(Fan_et_al.)/Homer	CTGTTTAC	1e-1	-4.519e+00	0.1110	116.0	7.33%	86.2	5.32%
PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	MGGAAGTGAAAC	1e-1	-4.394e+00	0.1225	96.0	6.07%	69.3	4.27%
ZNF382(Zf)/HEK293-ZNF382.GFP-ChIP-Seq(GSE58341)/Homer	GNCTGTASTRNTGBCTCHTT	1e-1	-4.239e+00	0.1395	6.0	0.38%	0.0	0.00%
Ets1-distal(ETS)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	MACAGGAAGT	1e-1	-4.173e+00	0.1454	12.0	0.76%	3.2	0.20%
Pitx1(Homeobox)/Chicken-Pitx1-ChIP-Seq(GSE38910)/Homer	TAATCCCN	1e-1	-3.988e+00	0.1707	416.0	26.30%	374.9	23.11%
SUT1?/SacCer-Promoters/Homer	CCCCGCGC	1e-1	-3.972e+00	0.1707	376.0	23.77%	335.2	20.66%
Sox10(HMG)/SciaticNerve-Sox3-ChIP-Seq(GSE35132)/Homer	CCWTTGTYYB	1e-1	-3.790e+00	0.1988	104.0	6.57%	79.7	4.91%
SPCH(bHLH)/Seedling-SPCH-ChIP-Seq(GSE57497)/Homer	WNBCACGTGA	1e-1	-3.783e+00	0.1988	51.0	3.22%	33.3	2.06%
Unknown6/Drosophila-Promoters/Homer	AATTTTAAAA	1e-1	-3.740e+00	0.1998	97.0	6.13%	73.1	4.51%
RUNX(Runt)/HPC7-Runx1-ChIP-Seq(GSE22178)/Homer	SAAACCACAG	1e-1	-3.661e+00	0.2117	42.0	2.65%	26.9	1.66%
Sox3(HMG)/NPC-Sox3-ChIP-Seq(GSE33059)/Homer	CCWTTGTY	1e-1	-3.584e+00	0.2240	105.0	6.64%	81.9	5.05%
Pax7(Paired,Homeobox),longest/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	NTAATTDGCYAATTANNWWD	1e-1	-3.532e+00	0.2264	5.0	0.32%	0.6	0.04%
NRF(NRF)/Promoter/Homer	STGCGCATGCGC	1e-1	-3.532e+00	0.2264	5.0	0.32%	0.0	0.00%
EHF(ETS)/LoVo-EHF-ChIP-Seq(GSE49402)/Homer	AVCAGGAAGT	1e-1	-3.514e+00	0.2264	72.0	4.55%	52.9	3.26%
CEBP:AP1(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	DRTGTTGCAA	1e-1	-3.488e+00	0.2275	58.0	3.67%	41.0	2.53%
NPAS2(bHLH)/Liver-NPAS2-ChIP-Seq(GSE39860)/Homer	KCCACGTGAC	1e-1	-3.452e+00	0.2313	59.0	3.73%	41.0	2.53%
IRF2(IRF)/Erythroblas-IRF2-ChIP-Seq(GSE36985)/Homer	GAAASYGAAASY	1e-1	-3.431e+00	0.2318	7.0	0.44%	2.0	0.12%
Cbf1(bHLH)/Yeast-Cbf1-ChIP-Seq(GSE29506)/Homer	TCACGTGAYH	1e-1	-3.378e+00	0.2401	15.0	0.95%	6.4	0.39%
SeqBias: C/A-bias	MMMMMMMMMM	1e-1	-3.339e+00	0.2452	1510.0	95.45%	1524.8	94.00%
ZNF467(Zf)/HEK293-ZNF467.GFP-ChIP-Seq(GSE58341)/Homer	TGGGGAAGGGCM	1e-1	-3.317e+00	0.2463	49.0	3.10%	33.6	2.07%
ELF5(ETS)/T47D-ELF5-ChIP-Seq(GSE30407)/Homer	ACVAGGAAGT	1e-1	-3.261e+00	0.2558	38.0	2.40%	24.2	1.49%
Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer	GCCACACCCA	1e-1	-3.188e+00	0.2706	24.0	1.52%	13.7	0.84%
c-Myc(bHLH)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	VVCCACGTGG	1e-1	-2.948e+00	0.3381	27.0	1.71%	16.7	1.03%
Fox:Ebox(Forkhead,bHLH)/Panc1-Foxa2-ChIP-Seq(GSE47459)/Homer	NNNVCTGWGYAAACASN	1e-1	-2.948e+00	0.3381	45.0	2.84%	31.8	1.96%
SeqBias: GA-repeat	GAGAGAGAGA	1e-1	-2.946e+00	0.3381	525.0	33.19%	494.6	30.49%
CRX(Homeobox)/Retina-Crx-ChIP-Seq(GSE20012)/Homer	GCTAATCC	1e-1	-2.784e+00	0.3794	249.0	15.74%	223.1	13.75%
RUNX2(Runt)/PCa-RUNX2-ChIP-Seq(GSE33889)/Homer	NWAACCACADNN	1e-1	-2.784e+00	0.3794	50.0	3.16%	36.9	2.27%
ERE(NR),IR3/MCF7-ERa-ChIP-Seq(Unpublished)/Homer	VAGGTCACNSTGACC	1e-1	-2.742e+00	0.3835	12.0	0.76%	6.0	0.37%
Sox6(HMG)/Myotubes-Sox6-ChIP-Seq(GSE32627)/Homer	CCATTGTTNY	1e-1	-2.721e+00	0.3859	94.0	5.94%	76.9	4.74%
ZNF692(Zf)/HEK293-ZNF692.GFP-ChIP-Seq(GSE58341)/Homer	GTGGGCCCCA	1e-1	-2.706e+00	0.3859	9.0	0.57%	3.1	0.19%
AR-halfsite(NR)/LNCaP-AR-ChIP-Seq(GSE27824)/Homer	CCAGGAACAG	1e-1	-2.675e+00	0.3923	219.0	13.84%	195.8	12.07%
Rfx1(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	KGTTGCCATGGCAA	1e-1	-2.502e+00	0.4595	10.0	0.63%	4.8	0.30%
CHR(?)/Hela-CellCycle-Expression/Homer	SRGTTTCAAA	1e-1	-2.373e+00	0.5152	59.0	3.73%	46.6	2.87%
ELF1(ETS)/Jurkat-ELF1-ChIP-Seq(SRA014231)/Homer	AVCCGGAAGT	1e-1	-2.368e+00	0.5152	15.0	0.95%	8.1	0.50%
IBL1(bHLH)/Seedling-IBL1-ChIP-Seq(GSE51120)/Homer	CACGTGCC	1e-1	-2.352e+00	0.5152	72.0	4.55%	58.1	3.58%
Brn1(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	TATGCWAATBAV	1e-1	-2.311e+00	0.5184	27.0	1.71%	18.1	1.12%
Max(bHLH)/K562-Max-ChIP-Seq(GSE31477)/Homer	RCCACGTGGYYN	1e-1	-2.311e+00	0.5184	27.0	1.71%	19.0	1.17%
EWS:FLI1-fusion(ETS)/SK_N_MC-EWS:FLI1-ChIP-Seq(SRA014231)/Homer	VACAGGAAAT	1e-1	-2.303e+00	0.5184	21.0	1.33%	13.2	0.81%
RUNX-AML(Runt)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	GCTGTGGTTW	1e0	-2.297e+00	0.5184	43.0	2.72%	32.0	1.97%
Tbox:Smad(T-box,MAD)/ESCd5-Smad2_3-ChIP-Seq(GSE29422)/Homer	AGGTGHCAGACA	1e0	-2.253e+00	0.5279	8.0	0.51%	3.9	0.24%
Foxa2(Forkhead)/Liver-Foxa2-ChIP-Seq(GSE25694)/Homer	CYTGTTTACWYW	1e0	-2.230e+00	0.5336	46.0	2.91%	35.4	2.18%
PU.1:IRF8(ETS:IRF)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	GGAAGTGAAAST	1e0	-2.207e+00	0.5392	17.0	1.07%	10.0	0.62%
GEI-11(Myb?)/cElegans-L4-GEI11-ChIP-Seq(modEncode)/Homer	CCGACAYYTYACGGG	1e0	-2.118e+00	0.5818	3.0	0.19%	0.4	0.02%
THRa(NR)/C17.2-THRa-ChIP-Seq(GSE38347)/Homer	GGTCANYTGAGGWCA	1e0	-2.073e+00	0.6010	26.0	1.64%	18.7	1.15%
Usf2(bHLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer	GTCACGTGGT	1e0	-2.034e+00	0.6174	20.0	1.26%	13.7	0.84%
Rbpj1(?)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	HTTTCCCASG	1e0	-2.009e+00	0.6255	93.0	5.88%	80.3	4.95%
Bach2(bZIP)/OCILy7-Bach2-ChIP-Seq(GSE44420)/Homer	TGCTGAGTCA	1e0	-1.994e+00	0.6255	6.0	0.38%	2.2	0.13%
TATA-box/Drosophila-Promoters/Homer	CTATAAAAGCSV	1e0	-1.994e+00	0.6255	6.0	0.38%	2.5	0.16%
SeqBias: CG bias	SSSSSSSSSS	1e0	-1.990e+00	0.6255	609.0	38.50%	593.1	36.56%
IRF4(IRF)/GM12878-IRF4-ChIP-Seq(GSE32465)/Homer	ACTGAAACCA	1e0	-1.977e+00	0.6255	29.0	1.83%	21.6	1.33%
Tcf3(HMG)/mES-Tcf3-ChIP-Seq(GSE11724)/Homer	ASWTCAAAGG	1e0	-1.976e+00	0.6255	15.0	0.95%	9.1	0.56%
AARE(HLH)/mES-cMyc-ChIP-Seq/Homer	GATTGCATCA	1e0	-1.972e+00	0.6255	10.0	0.63%	5.2	0.32%
PU.1(ETS)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	AGAGGAAGTG	1e0	-1.948e+00	0.6255	22.0	1.39%	15.9	0.98%
ELT-3(Gata)/cElegans-L1-ELT3-ChIP-Seq(modEncode)/Homer	AWTGATAAGA	1e0	-1.944e+00	0.6255	40.0	2.53%	31.8	1.96%
Gata4(Zf)/Heart-Gata4-ChIP-Seq(GSE35151)/Homer	NBWGATAAGR	1e0	-1.926e+00	0.6255	68.0	4.30%	57.6	3.55%
ZNF675(Zf)/HEK293-ZNF675.GFP-ChIP-Seq(GSE58341)/Homer	ARGAGGMCAAAATGW	1e0	-1.878e+00	0.6293	11.0	0.70%	6.7	0.41%
RORgt(NR)/EL4-RORgt.Flag-ChIP-Seq(GSE56019)/Homer	AAYTAGGTCA	1e0	-1.878e+00	0.6293	11.0	0.70%	6.6	0.41%
caudal(Homeobox)/Drosophila-Embryos-ChIP-Chip(modEncode)/Homer	GGYCATAAAW	1e0	-1.876e+00	0.6293	74.0	4.68%	63.7	3.93%
RUNX1(Runt)/Jurkat-RUNX1-ChIP-Seq(GSE29180)/Homer	AAACCACARM	1e0	-1.841e+00	0.6393	61.0	3.86%	51.6	3.18%
PIF4(bHLH)/Seedling-PIF4-ChIP-Seq(GSE35315)/Homer	NNBCACGTGN	1e0	-1.832e+00	0.6393	62.0	3.92%	52.4	3.23%
GLI3(Zf)/Limb-GLI3-ChIP-Chip(GSE11077)/Homer	CGTGGGTGGTCC	1e0	-1.824e+00	0.6393	7.0	0.44%	3.3	0.20%
PRDM1(Zf)/Hela-PRDM1-ChIP-Seq(GSE31477)/Homer	ACTTTCACTTTC	1e0	-1.768e+00	0.6671	39.0	2.47%	31.0	1.91%
HOXD13(Homeobox)/Chicken-Hoxd13-ChIP-Seq(GSE38910)/Homer	NCYAATAAAA	1e0	-1.762e+00	0.6671	93.0	5.88%	82.7	5.10%
PCF/Arabidopsis-Promoters/Homer	NNWWWTGGGCYTDDN	1e0	-1.740e+00	0.6671	13.0	0.82%	8.5	0.52%
ZNF519(Zf)/HEK293-ZNF519.GFP-ChIP-Seq(GSE58341)/Homer	GAGSCCGAGC	1e0	-1.740e+00	0.6671	13.0	0.82%	8.8	0.54%
TCFL2(HMG)/K562-TCF7L2-ChIP-Seq(GSE29196)/Homer	ACWTCAAAGG	1e0	-1.717e+00	0.6671	4.0	0.25%	1.9	0.12%
YY1(Zf)/Promoter/Homer	CAAGATGGCGGC	1e0	-1.717e+00	0.6671	4.0	0.25%	1.1	0.07%
Mouse_Recombination_Hotspot(Zf)/Testis-DMC1-ChIP-Seq(GSE24438)/Homer	ACTYKNATTCGTGNTACTTC	1e0	-1.717e+00	0.6671	4.0	0.25%	1.8	0.11%
ETS(ETS)/Promoter/Homer	AACCGGAAGT	1e0	-1.706e+00	0.6671	8.0	0.51%	4.6	0.28%
GATA3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATAASR	1e0	-1.649e+00	0.6952	127.0	8.03%	116.8	7.20%
PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer	ADGGYAGYAGCATCT	1e0	-1.604e+00	0.7207	16.0	1.01%	11.8	0.73%
Phox2a(Homeobox)/Neuron-Phox2a-ChIP-Seq(GSE31456)/Homer	YTAATYNRATTA	1e0	-1.600e+00	0.7207	38.0	2.40%	31.2	1.92%
AP-2gamma(AP2)/MCF7-TFAP2C-ChIP-Seq(GSE21234)/Homer	SCCTSAGGSCAW	1e0	-1.556e+00	0.7424	42.0	2.65%	35.9	2.21%
LXRE(NR),DR4/RAW-LXRb.biotin-ChIP-Seq(GSE21512)/Homer	RGGTTACTANAGGTCA	1e0	-1.553e+00	0.7424	10.0	0.63%	7.0	0.43%
EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer	NWGGGTGTGGCY	1e0	-1.553e+00	0.7424	10.0	0.63%	6.8	0.42%
n-Myc(bHLH)/mES-nMyc-ChIP-Seq(GSE11431)/Homer	VRCCACGTGG	1e0	-1.538e+00	0.7424	29.0	1.83%	23.7	1.46%
p53(p53)/Saos-p53-ChIP-Seq/Homer	RRCATGYCYRGRCATGYYYN	1e0	-1.532e+00	0.7424	5.0	0.32%	2.3	0.14%
p53(p53)/Saos-p53-ChIP-Seq(GSE15780)/Homer	RRCATGYCYRGRCATGYYYN	1e0	-1.532e+00	0.7424	5.0	0.32%	2.3	0.14%
HOXB13(Homeobox)/ProstateTumor-HOXB13-ChIP-Seq(GSE56288)/Homer	TTTTATKRGG	1e0	-1.471e+00	0.7667	80.0	5.06%	73.0	4.50%
DMRT1(DM)/Testis-DMRT1-ChIP-Seq(GSE64892)/Homer	TWGHWACAWTGTWDC	1e0	-1.468e+00	0.7667	21.0	1.33%	16.3	1.00%
STAT4(Stat)/CD4-Stat4-ChIP-Seq(GSE22104)/Homer	NYTTCCWGGAAR	1e0	-1.436e+00	0.7798	59.0	3.73%	52.8	3.25%
Mef2b(MADS)/HEK293-Mef2b.V5-ChIP-Seq(GSE67450)/Homer	GCTATTTTTGGM	1e0	-1.436e+00	0.7798	92.0	5.82%	84.7	5.22%
BMAL1(bHLH)/Liver-Bmal1-ChIP-Seq(GSE39860)/Homer	GNCACGTG	1e0	-1.431e+00	0.7798	94.0	5.94%	86.5	5.33%
ETS1(ETS)/Jurkat-ETS1-ChIP-Seq(GSE17954)/Homer	ACAGGAAGTG	1e0	-1.423e+00	0.7798	39.0	2.47%	33.5	2.06%
GFY-Staf(?,Zf)/Promoter/Homer	RACTACAATTCCCAGAAKGC	1e0	-1.412e+00	0.7798	2.0	0.13%	0.0	0.00%
GFY(?)/Promoter/Homer	ACTACAATTCCC	1e0	-1.412e+00	0.7798	2.0	0.13%	0.6	0.04%
EBNA1(EBV-virus)/Raji-EBNA1-ChIP-Seq(GSE30709)/Homer	GGYAGCAYDTGCTDCCCNNN	1e0	-1.412e+00	0.7798	2.0	0.13%	0.0	0.00%
JunD(bZIP)/K562-JunD-ChIP-Seq/Homer	ATGACGTCATCN	1e0	-1.412e+00	0.7798	2.0	0.13%	0.9	0.05%
ZNF143|STAF(Zf)/CUTLL-ZNF143-ChIP-Seq(GSE29600)/Homer	ATTTCCCAGVAKSCY	1e0	-1.387e+00	0.7798	14.0	0.88%	10.8	0.66%
Unknown3/Arabidopsis-Promoters/Homer	AYTAAACCGG	1e0	-1.347e+00	0.7865	7.0	0.44%	4.8	0.30%
IRF1(IRF)/PBMC-IRF1-ChIP-Seq(GSE43036)/Homer	GAAAGTGAAAGT	1e0	-1.347e+00	0.7865	7.0	0.44%	4.1	0.25%
Mef2a(MADS)/HL1-Mef2a.biotin-ChIP-Seq(GSE21529)/Homer	CYAAAAATAG	1e0	-1.346e+00	0.7865	51.0	3.22%	45.1	2.78%
c-Jun-CRE(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	ATGACGTCATCY	1e0	-1.337e+00	0.7865	16.0	1.01%	12.7	0.78%
RLR1?/SacCer-Promoters/Homer	WTTTTCYYTTTT	1e0	-1.324e+00	0.7865	56.0	3.54%	50.5	3.11%
Pax8(Paired,Homeobox)/Thyroid-Pax8-ChIP-Seq(GSE26938)/Homer	GTCATGCHTGRCTGS	1e0	-1.298e+00	0.8007	18.0	1.14%	14.7	0.90%
ARE(NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	RGRACASNSTGTYCYB	1e0	-1.292e+00	0.8007	8.0	0.51%	5.5	0.34%
Jun-AP1(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	GATGASTCATCN	1e0	-1.292e+00	0.8007	8.0	0.51%	5.8	0.36%
bZIP:IRF(bZIP,IRF)/Th17-BatF-ChIP-Seq(GSE39756)/Homer	NAGTTTCABTHTGACTNW	1e0	-1.242e+00	0.8283	22.0	1.39%	18.4	1.14%
PQM-1(?)/cElegans-L3-ChIP-Seq(modEncode)/Homer	ACTGATAAGA	1e0	-1.231e+00	0.8283	23.0	1.45%	19.7	1.22%
Atf7(bZIP)/3T3L1-Atf7-ChIP-Seq(GSE56872)/Homer	NGRTGACGTCAY	1e0	-1.231e+00	0.8283	23.0	1.45%	19.7	1.21%
PRDM14(Zf)/H1-PRDM14-ChIP-Seq(GSE22767)/Homer	RGGTCTCTAACY	1e0	-1.218e+00	0.8283	10.0	0.63%	7.7	0.48%
Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer	HACTTCCGGY	1e0	-1.218e+00	0.8283	10.0	0.63%	7.5	0.46%
ZNF317(Zf)/HEK293-ZNF317.GFP-ChIP-Seq(GSE58341)/Homer	GTCWGCTGTYYCTCT	1e0	-1.194e+00	0.8283	3.0	0.19%	1.7	0.10%
ISRE(IRF)/ThioMac-LPS-Expression(GSE23622)/Homer	AGTTTCASTTTC	1e0	-1.194e+00	0.8283	3.0	0.19%	1.9	0.12%
Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer	GTTGCCATGGCAACM	1e0	-1.194e+00	0.8283	3.0	0.19%	1.8	0.11%
SpiB(ETS)/OCILY3-SPIB-ChIP-Seq(GSE56857)/Homer	AAAGRGGAAGTG	1e0	-1.192e+00	0.8283	11.0	0.70%	8.5	0.52%
AP-2alpha(AP2)/Hela-AP2alpha-ChIP-Seq(GSE31477)/Homer	ATGCCCTGAGGC	1e0	-1.174e+00	0.8305	30.0	1.90%	26.0	1.60%
Sox9(HMG)/Limb-SOX9-ChIP-Seq(GSE73225)/Homer	AGGVNCCTTTGT	1e0	-1.126e+00	0.8657	41.0	2.59%	37.2	2.29%
FOXA1:AR(Forkhead,NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	AGTAAACAAAAAAGAACAND	1e0	-1.103e+00	0.8799	4.0	0.25%	2.7	0.17%
DMRT6(DM)/Testis-DMRT6-ChIP-Seq(GSE60440)/Homer	YDGHTACAWTGTADC	1e0	-1.098e+00	0.8799	17.0	1.07%	14.2	0.88%
KLF5(Zf)/LoVo-KLF5-ChIP-Seq(GSE49402)/Homer	DGGGYGKGGC	1e0	-1.090e+00	0.8799	58.0	3.67%	54.2	3.34%
Zelda(Zf)/Embryo-zld-ChIP-Seq(GSE65441)/Homer	KBCTACCTGW	1e0	-1.060e+00	0.9000	22.0	1.39%	19.4	1.20%
FHY3(FAR1)/Arabidopsis-FHY3-ChIP-Seq(GSE30711)/Homer	HHCACGCGCBTN	1e0	-1.051e+00	0.9018	5.0	0.32%	3.2	0.19%
MafA(bZIP)/Islet-MafA-ChIP-Seq(GSE30298)/Homer	TGCTGACTCA	1e0	-1.032e+00	0.9129	28.0	1.77%	25.4	1.56%
Sp1(Zf)/Promoter/Homer	GGCCCCGCCCCC	1e0	-1.018e+00	0.9203	6.0	0.38%	4.3	0.27%
Fli1(ETS)/CD8-FLI-ChIP-Seq(GSE20898)/Homer	NRYTTCCGGH	1e0	-1.006e+00	0.9251	39.0	2.47%	36.2	2.23%
PIF5ox(bHLH)/Arabidopsis-PIF5ox-ChIP-Seq(GSE35062)/Homer	BCACGTGVDN	1e0	-9.981e-01	0.9263	45.0	2.84%	42.2	2.60%
Unknown1/Arabidopsis-Promoters/Homer	RGGGTAWWWTHGTAA	1e0	-9.938e-01	0.9263	7.0	0.44%	5.1	0.32%
REB1/SacCer-Promoters/Homer	KCCGGGTAAYRR	1e0	-9.938e-01	0.9263	7.0	0.44%	5.5	0.34%
GATA(Zf),IR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NAGATWNBNATCTNN	1e0	-9.760e-01	0.9263	8.0	0.51%	7.0	0.43%
TOD6?/SacCer-Promoters/Homer	GCGATGAGMT	1e0	-9.760e-01	0.9263	8.0	0.51%	6.1	0.38%
E2F1(E2F)/Hela-E2F1-ChIP-Seq(GSE22478)/Homer	CWGGCGGGAA	1e0	-9.513e-01	0.9401	10.0	0.63%	8.2	0.50%
Unknown4/Drosophila-Promoters/Homer	AAAAATACCRMA	1e0	-9.288e-01	0.9555	13.0	0.82%	11.2	0.69%
Olig2(bHLH)/Neuron-Olig2-ChIP-Seq(GSE30882)/Homer	RCCATMTGTT	1e0	-9.283e-01	0.9555	117.0	7.40%	115.0	7.09%
Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer	SCCTAGCAACAG	1e0	-9.235e-01	0.9555	14.0	0.88%	12.6	0.78%
Atf2(bZIP)/3T3L1-Atf2-ChIP-Seq(GSE56872)/Homer	NRRTGACGTCAT	1e0	-9.235e-01	0.9555	14.0	0.88%	12.2	0.75%
Atf3(bZIP)/GBM-ATF3-ChIP-Seq(GSE33912)/Homer	DATGASTCATHN	1e0	-9.064e-01	0.9555	19.0	1.20%	17.7	1.09%
HNF6(Homeobox)/Liver-Hnf6-ChIP-Seq(ERP000394)/Homer	NTATYGATCH	1e0	-8.912e-01	0.9621	34.0	2.15%	32.8	2.02%
EWS:ERG-fusion(ETS)/CADO_ES1-EWS:ERG-ChIP-Seq(SRA014231)/Homer	ATTTCCTGTN	1e0	-7.723e-01	1.0000	29.0	1.83%	28.8	1.77%
Oct2(POU,Homeobox)/Bcell-Oct2-ChIP-Seq(GSE21512)/Homer	ATATGCAAAT	1e0	-7.678e-01	1.0000	26.0	1.64%	25.7	1.58%
BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer	DATGASTCAT	1e0	-7.615e-01	1.0000	22.0	1.39%	21.6	1.33%
HIF-1a(bHLH)/MCF7-HIF1a-ChIP-Seq(GSE28352)/Homer	TACGTGCV	1e0	-7.428e-01	1.0000	12.0	0.76%	11.2	0.69%
Dorsal(RHD)/Embryo-dl-ChIP-Seq(GSE65441)/Homer	GGGAAAAMCCCG	1e0	-7.332e-01	1.0000	8.0	0.51%	7.1	0.44%
ZNF165(Zf)/WHIM12-ZNF165-ChIP-Seq(GSE65937)/Homer	AAGGKGRCGCAGGCA	1e0	-7.332e-01	1.0000	8.0	0.51%	7.5	0.46%
Fosl2(bZIP)/3T3L1-Fosl2-ChIP-Seq(GSE56872)/Homer	NATGASTCABNN	1e0	-7.332e-01	1.0000	8.0	0.51%	7.7	0.48%
ZNF136(Zf)/HEK293-ZNF136.GFP-ChIP-Seq(GSE58341)/Homer	YTKGATAHAGTATTCTWGGTNGGCA	1e0	-7.276e-01	1.0000	6.0	0.38%	5.1	0.32%
HOXA2(Homeobox)/mES-Hoxa2-ChIP-Seq(Donaldson_et_al.)/Homer	GYCATCMATCAT	1e0	-7.244e-01	1.0000	5.0	0.32%	4.1	0.25%
X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	GGTTGCCATGGCAA	1e0	-7.209e-01	1.0000	4.0	0.25%	3.7	0.23%
CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	AYAGTGCCMYCTRGTGGCCA	1e0	-7.209e-01	1.0000	4.0	0.25%	3.1	0.19%
Tcfcp2l1(CP2)/mES-Tcfcp2l1-ChIP-Seq(GSE11431)/Homer	NRAACCRGTTYRAACCRGYT	1e0	-7.209e-01	1.0000	4.0	0.25%	3.5	0.22%
PAX6(Paired,Homeobox)/Forebrain-Pax6-ChIP-Seq(GSE66961)/Homer	NGTGTTCAVTSAAGCGKAAA	1e0	-7.168e-01	1.0000	3.0	0.19%	2.6	0.16%
GRE(NR),IR3/A549-GR-ChIP-Seq(GSE32465)/Homer	NRGVACABNVTGTYCY	1e0	-7.168e-01	1.0000	3.0	0.19%	2.8	0.17%
PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer	GSCTGTCACTCA	1e0	-7.168e-01	1.0000	3.0	0.19%	3.0	0.18%
RFX(HTH)/K562-RFX3-ChIP-Seq(SRA012198)/Homer	CGGTTGCCATGGCAAC	1e0	-7.121e-01	1.0000	2.0	0.13%	1.8	0.11%
ZNF528(Zf)/HEK293-ZNF528.GFP-ChIP-Seq(GSE58341)/Homer	AGAAATGACTTCCCT	1e0	-7.057e-01	1.0000	1.0	0.06%	0.0	0.00%
NF1:FOXA1(CTF,Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WNTGTTTRYTTTGGCA	1e0	-7.057e-01	1.0000	1.0	0.06%	0.5	0.03%
NF-E2(bZIP)/K562-NFE2-ChIP-Seq(GSE31477)/Homer	GATGACTCAGCA	1e0	-7.057e-01	1.0000	1.0	0.06%	0.8	0.05%
NFkB-p65-Rel(RHD)/ThioMac-LPS-Expression(GSE23622)/Homer	GGAAATTCCC	1e0	-7.057e-01	1.0000	1.0	0.06%	0.8	0.05%
NRF1(NRF)/MCF7-NRF1-ChIP-Seq(Unpublished)/Homer	CTGCGCATGCGC	1e0	-7.057e-01	1.0000	1.0	0.06%	0.0	0.00%
Nrf2(bZIP)/Lymphoblast-Nrf2-ChIP-Seq(GSE37589)/Homer	HTGCTGAGTCAT	1e0	-7.057e-01	1.0000	1.0	0.06%	0.0	0.00%
Unknown2/Arabidopsis-Promoters/Homer	AAACGACGTCGTTTT	1e0	-7.057e-01	1.0000	1.0	0.06%	0.0	0.00%
ETS:RUNX(ETS,Runt)/Jurkat-RUNX1-ChIP-Seq(GSE17954)/Homer	RCAGGATGTGGT	1e0	-7.057e-01	1.0000	1.0	0.06%	0.5	0.03%
E2F(E2F)/Hela-CellCycle-Expression/Homer	TTSGCGCGAAAA	1e0	-7.057e-01	1.0000	1.0	0.06%	0.7	0.04%
SeqBias: G/A bias	RRRRRRRRRR	1e0	-6.843e-01	1.0000	1539.0	97.28%	1577.2	97.23%
Hoxc9(Homeobox)/Ainv15-Hoxc9-ChIP-Seq(GSE21812)/Homer	GGCCATAAATCA	1e0	-6.789e-01	1.0000	34.0	2.15%	34.6	2.13%
Oct4(POU,Homeobox)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAW	1e0	-6.735e-01	1.0000	32.0	2.02%	32.1	1.98%
EBF1(EBF)/Near-E2A-ChIP-Seq(GSE21512)/Homer	GTCCCCWGGGGA	1e0	-6.427e-01	1.0000	53.0	3.35%	54.4	3.35%
E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer	GGCGGGAARN	1e0	-6.277e-01	1.0000	19.0	1.20%	19.8	1.22%
HNF4a(NR),DR1/HepG2-HNF4a-ChIP-Seq(GSE25021)/Homer	CARRGKBCAAAGTYCA	1e0	-6.123e-01	1.0000	16.0	1.01%	17.0	1.05%
RBPJ:Ebox(?,bHLH)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	GGGRAARRGRMCAGMTG	1e0	-6.065e-01	1.0000	15.0	0.95%	15.1	0.93%
Otx2(Homeobox)/EpiLC-Otx2-ChIP-Seq(GSE56098)/Homer	NYTAATCCYB	1e0	-6.021e-01	1.0000	65.0	4.11%	67.7	4.17%
RBFox2(?)/Heart-RBFox2-CLIP-Seq(GSE57926)/Homer	TGCATGCA	1e0	-5.901e-01	1.0000	117.0	7.40%	121.8	7.51%
Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq(GSE22178)/Homer	MAATCACTGC	1e0	-5.780e-01	1.0000	55.0	3.48%	57.6	3.55%
PGR(NR)/EndoStromal-PGR-ChIP-Seq(GSE69539)/Homer	AAGAACATWHTGTTC	1e0	-5.779e-01	1.0000	11.0	0.70%	11.1	0.69%
PAX3:FKHR-fusion(Paired,Homeobox)/Rh4-PAX3:FKHR-ChIP-Seq(GSE19063)/Homer	ACCRTGACTAATTNN	1e0	-5.586e-01	1.0000	9.0	0.57%	9.3	0.57%
Zfp809(Zf)/ES-Zfp809-ChIP-Seq(GSE70799)/Homer	GGGGCTYGKCTGGGA	1e0	-5.470e-01	1.0000	8.0	0.51%	8.5	0.52%
VDR(NR),DR3/GM10855-VDR+vitD-ChIP-Seq(GSE22484)/Homer	ARAGGTCANWGAGTTCANNN	1e0	-5.470e-01	1.0000	8.0	0.51%	8.4	0.52%
ZBTB12(Zf)/HEK293-ZBTB12.GFP-ChIP-Seq(GSE58341)/Homer	NGNTCTAGAACCNGV	1e0	-5.241e-01	1.0000	20.0	1.26%	21.3	1.31%
SFP1/SacCer-Promoters/Homer	DDAAAAATTTTY	1e0	-5.175e-01	1.0000	6.0	0.38%	6.7	0.41%
SeqBias: CG-repeat	CGCGCGCGCG	1e0	-5.131e-01	1.0000	35.0	2.21%	37.8	2.33%
Chop(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	ATTGCATCAT	1e0	-5.037e-01	1.0000	17.0	1.07%	18.8	1.16%
Gata2(Zf)/K562-GATA2-ChIP-Seq(GSE18829)/Homer	BBCTTATCTS	1e0	-4.860e-01	1.0000	29.0	1.83%	31.7	1.95%
Erra(NR)/HepG2-Erra-ChIP-Seq(GSE31477)/Homer	CAAAGGTCAG	1e0	-4.720e-01	1.0000	101.0	6.38%	107.2	6.61%
ZNF711(Zf)/SHSY5Y-ZNF711-ChIP-Seq(GSE20673)/Homer	AGGCCTAG	1e0	-4.517e-01	1.0000	112.0	7.08%	119.9	7.39%
Atf4(bZIP)/MEF-Atf4-ChIP-Seq(GSE35681)/Homer	MTGATGCAAT	1e0	-4.459e-01	1.0000	22.0	1.39%	25.0	1.54%
Egr2(Zf)/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer	NGCGTGGGCGGR	1e0	-4.391e-01	1.0000	3.0	0.19%	3.2	0.20%
FXR(NR),IR1/Liver-FXR-ChIP-Seq(Chong_et_al.)/Homer	AGGTCANTGACCTB	1e0	-4.244e-01	1.0000	19.0	1.20%	21.5	1.32%
ZNF322(Zf)/HEK293-ZNF322.GFP-ChIP-Seq(GSE58341)/Homer	GAGCCTGGTACTGWGCCTGR	1e0	-4.207e-01	1.0000	9.0	0.57%	11.0	0.68%
ZNF415(Zf)/HEK293-ZNF415.GFP-ChIP-Seq(GSE58341)/Homer	GRTGMTRGAGCC	1e0	-4.164e-01	1.0000	18.0	1.14%	20.0	1.24%
Fra1(bZIP)/BT549-Fra1-ChIP-Seq(GSE46166)/Homer	NNATGASTCATH	1e0	-4.080e-01	1.0000	17.0	1.07%	19.1	1.18%
Unknown-ESC-element(?)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	CACAGCAGGGGG	1e0	-4.080e-01	1.0000	17.0	1.07%	19.2	1.18%
Klf9(Zf)/GBM-Klf9-ChIP-Seq(GSE62211)/Homer	GCCACRCCCACY	1e0	-4.047e-01	1.0000	8.0	0.51%	9.3	0.57%
MYB(HTH)/ERMYB-Myb-ChIPSeq(GSE22095)/Homer	GGCVGTTR	1e0	-3.918e-01	1.0000	83.0	5.25%	90.9	5.60%
ETS:E-box(ETS,bHLH)/HPC7-Scl-ChIP-Seq(GSE22178)/Homer	AGGAARCAGCTG	1e0	-3.883e-01	1.0000	2.0	0.13%	2.6	0.16%
p63(p53)/Keratinocyte-p63-ChIP-Seq(GSE17611)/Homer	NNDRCATGYCYNRRCATGYH	1e0	-3.865e-01	1.0000	7.0	0.44%	8.9	0.55%
Tcf21(bHLH)/ArterySmoothMuscle-Tcf21-ChIP-Seq(GSE61369)/Homer	NAACAGCTGG	1e0	-3.847e-01	1.0000	36.0	2.28%	40.4	2.49%
PAX5(Paired,Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GCAGCCAAGCRTGACH	1e0	-3.792e-01	1.0000	14.0	0.88%	16.1	0.99%
TEAD4(TEA)/Tropoblast-Tead4-ChIP-Seq(GSE37350)/Homer	CCWGGAATGY	1e0	-3.605e-01	1.0000	43.0	2.72%	48.0	2.96%
HIF-1b(HLH)/T47D-HIF1b-ChIP-Seq(GSE59937)/Homer	RTACGTGC	1e0	-3.605e-01	1.0000	43.0	2.72%	48.8	3.01%
HIF2a(bHLH)/785_O-HIF2a-ChIP-Seq(GSE34871)/Homer	GCACGTACCC	1e0	-3.564e-01	1.0000	12.0	0.76%	14.8	0.91%
HEB(bHLH)/mES-Heb-ChIP-Seq(GSE53233)/Homer	VCAGCTGBNN	1e0	-3.553e-01	1.0000	84.0	5.31%	92.8	5.72%
PR(NR)/T47D-PR-ChIP-Seq(GSE31130)/Homer	VAGRACAKNCTGTBC	1e0	-3.547e-01	1.0000	100.0	6.32%	109.8	6.77%
Unknown5/Drosophila-Promoters/Homer	GCTGATAASV	1e0	-3.536e-01	1.0000	20.0	1.26%	23.0	1.42%
KLF14(Zf)/HEK293-KLF14.GFP-ChIP-Seq(GSE58341)/Homer	RGKGGGCGKGGC	1e0	-3.533e-01	1.0000	68.0	4.30%	75.5	4.66%
ZNF264(Zf)/HEK293-ZNF264.GFP-ChIP-Seq(GSE58341)/Homer	RGGGCACTAACY	1e0	-3.455e-01	1.0000	19.0	1.20%	22.8	1.41%
Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo_et_al.)/Homer	TBGCACGCAA	1e0	-3.455e-01	1.0000	19.0	1.20%	22.5	1.38%
ZBTB18(Zf)/HEK293-ZBTB18.GFP-ChIP-Seq(GSE58341)/Homer	AACATCTGGA	1e0	-3.455e-01	1.0000	19.0	1.20%	22.0	1.36%
SeqBias: CA-repeat	CACACACACA	1e0	-3.293e-01	1.0000	331.0	20.92%	352.1	21.71%
STAT6(Stat)/CD4-Stat6-ChIP-Seq(GSE22104)/Homer	ABTTCYYRRGAA	1e0	-3.172e-01	1.0000	24.0	1.52%	28.4	1.75%
HOXA9(Homeobox)/HSC-Hoxa9-ChIP-Seq(GSE33509)/Homer	GGCCATAAATCA	1e0	-3.162e-01	1.0000	44.0	2.78%	50.0	3.08%
AMYB(HTH)/Testes-AMYB-ChIP-Seq(GSE44588)/Homer	TGGCAGTTGG	1e0	-3.115e-01	1.0000	67.0	4.24%	75.6	4.66%
Unknown(Homeobox)/Limb-p300-ChIP-Seq/Homer	SSCMATWAAA	1e0	-3.080e-01	1.0000	42.0	2.65%	48.3	2.98%
Smad3(MAD)/NPC-Smad3-ChIP-Seq(GSE36673)/Homer	TWGTCTGV	1e0	-3.069e-01	1.0000	141.0	8.91%	154.2	9.50%
Stat3(Stat)/mES-Stat3-ChIP-Seq(GSE11431)/Homer	CTTCCGGGAA	1e0	-3.030e-01	1.0000	22.0	1.39%	26.0	1.61%
E-box(bHLH)/Promoter/Homer	SSGGTCACGTGA	1e0	-2.960e-01	1.0000	1.0	0.06%	1.9	0.11%
GATA3(Zf),DR8/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATSTNDNNDSAGATAASN	1e0	-2.960e-01	1.0000	1.0	0.06%	1.5	0.09%
Bach1(bZIP)/K562-Bach1-ChIP-Seq(GSE31477)/Homer	AWWNTGCTGAGTCAT	1e0	-2.960e-01	1.0000	1.0	0.06%	1.2	0.07%
Pax7(Paired,Homeobox),long/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCHGATTAC	1e0	-2.960e-01	1.0000	1.0	0.06%	1.8	0.11%
TR4(NR),DR1/Hela-TR4-ChIP-Seq(GSE24685)/Homer	GAGGTCAAAGGTCA	1e0	-2.960e-01	1.0000	1.0	0.06%	1.8	0.11%
AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	VTGACTCATC	1e0	-2.955e-01	1.0000	21.0	1.33%	25.3	1.56%
ZNF189(Zf)/HEK293-ZNF189.GFP-ChIP-Seq(GSE58341)/Homer	TGGAACAGMA	1e0	-2.904e-01	1.0000	38.0	2.40%	44.2	2.72%
Six1(Homeobox)/Myoblast-Six1-ChIP-Chip(GSE20150)/Homer	GKVTCADRTTWC	1e0	-2.774e-01	1.0000	7.0	0.44%	9.2	0.57%
CEBP:CEBP(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	NTNATGCAAYMNNHTGMAAY	1e0	-2.774e-01	1.0000	7.0	0.44%	10.0	0.62%
Reverb(NR),DR2/RAW-Reverba.biotin-ChIP-Seq(GSE45914)/Homer	GTRGGTCASTGGGTCA	1e0	-2.774e-01	1.0000	7.0	0.44%	9.7	0.60%
Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer	TGCGTGGGYG	1e0	-2.709e-01	1.0000	18.0	1.14%	22.6	1.40%
BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer	CNNBRGCGCCCCCTGSTGGC	1e0	-2.701e-01	1.0000	3.0	0.19%	4.1	0.25%
MITF(bHLH)/MastCells-MITF-ChIP-Seq(GSE48085)/Homer	RTCATGTGAC	1e0	-2.662e-01	1.0000	33.0	2.09%	39.7	2.45%
KLF10(Zf)/HEK293-KLF10.GFP-ChIP-Seq(GSE58341)/Homer	GGGGGTGTGTCC	1e0	-2.613e-01	1.0000	11.0	0.70%	15.0	0.92%
KANADI1(Myb)/Seedling-KAN1-ChIP-Seq(GSE48081)/Homer	ARGAATAWWN	1e0	-2.589e-01	1.0000	112.0	7.08%	125.7	7.75%
NFkB-p65(RHD)/GM12787-p65-ChIP-Seq(GSE19485)/Homer	WGGGGATTTCCC	1e0	-2.557e-01	1.0000	31.0	1.96%	37.1	2.29%
Atf1(bZIP)/K562-ATF1-ChIP-Seq(GSE31477)/Homer	GATGACGTCA	1e0	-2.557e-01	1.0000	31.0	1.96%	37.3	2.30%
Gata1(Zf)/K562-GATA1-ChIP-Seq(GSE18829)/Homer	SAGATAAGRV	1e0	-2.474e-01	1.0000	22.0	1.39%	27.4	1.69%
Bcl6(Zf)/Liver-Bcl6-ChIP-Seq(GSE31578)/Homer	NNNCTTTCCAGGAAA	1e0	-2.466e-01	1.0000	68.0	4.30%	78.2	4.82%
SOC1(MADS)/Seedling-SOC1-ChIP-Seq(GSE45846)/Homer	TWCCAWWTWTGG	1e0	-2.400e-01	1.0000	21.0	1.33%	26.3	1.62%
MyoD(bHLH)/Myotube-MyoD-ChIP-Seq(GSE21614)/Homer	RRCAGCTGYTSY	1e0	-2.329e-01	1.0000	27.0	1.71%	33.5	2.07%
STAT6(Stat)/Macrophage-Stat6-ChIP-Seq(GSE38377)/Homer	TTCCKNAGAA	1e0	-2.323e-01	1.0000	20.0	1.26%	25.0	1.54%
Nur77(NR)/K562-NR4A1-ChIP-Seq(GSE31363)/Homer	TGACCTTTNCNT	1e0	-2.303e-01	1.0000	5.0	0.32%	7.9	0.48%
Ap4(bHLH)/AML-Tfap4-ChIP-Seq(GSE45738)/Homer	NAHCAGCTGD	1e0	-2.271e-01	1.0000	42.0	2.65%	50.5	3.11%
Stat3+il21(Stat)/CD4-Stat3-ChIP-Seq(GSE19198)/Homer	SVYTTCCNGGAARB	1e0	-2.268e-01	1.0000	26.0	1.64%	32.0	1.97%
RARg(NR)/ES-RARg-ChIP-Seq(GSE30538)/Homer	AGGTCAAGGTCA	1e0	-2.172e-01	1.0000	2.0	0.13%	3.3	0.20%
Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer	GGGGGGGG	1e0	-2.161e-01	1.0000	48.0	3.03%	57.3	3.53%
NeuroD1(bHLH)/Islet-NeuroD1-ChIP-Seq(GSE30298)/Homer	GCCATCTGTT	1e0	-2.104e-01	1.0000	38.0	2.40%	46.8	2.89%
SeqBias: A/T bias	WWWWWWWWWW	1e0	-2.016e-01	1.0000	1149.0	72.63%	1200.8	74.03%
Pit1+1bp(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGCATAATTCA	1e0	-1.977e-01	1.0000	28.0	1.77%	35.3	2.18%
SPDEF(ETS)/VCaP-SPDEF-ChIP-Seq(SRA014231)/Homer	ASWTCCTGBT	1e0	-1.921e-01	1.0000	27.0	1.71%	34.2	2.11%
Esrrb(NR)/mES-Esrrb-ChIP-Seq(GSE11431)/Homer	KTGACCTTGA	1e0	-1.863e-01	1.0000	20.0	1.26%	26.4	1.63%
GATA(Zf),IR3/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NNNNNBAGATAWYATCTVHN	1e0	-1.838e-01	1.0000	10.0	0.63%	14.7	0.91%
Initiator/Drosophila-Promoters/Homer	NTCAGTYG	1e0	-1.787e-01	1.0000	129.0	8.15%	147.7	9.11%
NFkB-p50,p52(RHD)/Monocyte-p50-ChIP-Chip(Schreiber_et_al.)/Homer	GGGGGAATCCCC	1e0	-1.768e-01	1.0000	6.0	0.38%	9.3	0.57%
Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer	NRYTTCCGGY	1e0	-1.696e-01	1.0000	9.0	0.57%	13.3	0.82%
MafF(bZIP)/HepG2-MafF-ChIP-Seq(GSE31477)/Homer	HWWGTCAGCAWWTTT	1e0	-1.690e-01	1.0000	13.0	0.82%	18.5	1.14%
GAGA-repeat/Arabidopsis-Promoters/Homer	CTCTCTCTCY	1e0	-1.674e-01	1.0000	59.0	3.73%	71.9	4.43%
E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer	VDTTTCCCGCCA	1e0	-1.655e-01	1.0000	3.0	0.19%	5.1	0.32%
STAT1(Stat)/HelaS3-STAT1-ChIP-Seq(GSE12782)/Homer	NATTTCCNGGAAAT	1e0	-1.583e-01	1.0000	12.0	0.76%	17.1	1.06%
Tbx20(T-box)/Heart-Tbx20-ChIP-Seq(GSE29636)/Homer	GGTGYTGACAGS	1e0	-1.543e-01	1.0000	5.0	0.32%	8.7	0.54%
Lhx1(Homeobox)/EmbryoCarcinoma-Lhx1-ChIP-Seq(GSE70957)/Homer	NNYTAATTAR	1e0	-1.504e-01	1.0000	79.0	4.99%	94.8	5.84%
CES-1(Homeobox)/cElegans-L1-CES1-ChIP-Seq(modEncode)/Homer	AAATTSAATTTN	1e0	-1.495e-01	1.0000	38.0	2.40%	48.8	3.01%
Oct6(POU,Homeobox)/NPC-Oct6-ChIP-Seq(GSE35496)/Homer	WATGCAAATGAG	1e0	-1.465e-01	1.0000	25.0	1.58%	33.5	2.06%
Nr5a2(NR)/mES-Nr5a2-ChIP-Seq(GSE19019)/Homer	BTCAAGGTCA	1e0	-1.415e-01	1.0000	19.0	1.20%	26.5	1.64%
OCT:OCT(POU,Homeobox,IR1)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATWATTCATGA	1e0	-1.388e-01	1.0000	1.0	0.06%	2.6	0.16%
ZSCAN22(Zf)/HEK293-ZSCAN22.GFP-ChIP-Seq(GSE58341)/Homer	SMCAGTCWGAKGGAGGAGGC	1e0	-1.388e-01	1.0000	1.0	0.06%	2.0	0.12%
BMYB(HTH)/Hela-BMYB-ChIP-Seq(GSE27030)/Homer	NHAACBGYYV	1e0	-1.371e-01	1.0000	56.0	3.54%	69.0	4.26%
E2A(bHLH)/proBcell-E2A-ChIP-Seq(GSE21978)/Homer	DNRCAGCTGY	1e0	-1.371e-01	1.0000	56.0	3.54%	69.8	4.30%
ZFX(Zf)/mES-Zfx-ChIP-Seq(GSE11431)/Homer	AGGCCTRG	1e0	-1.370e-01	1.0000	64.0	4.05%	78.7	4.85%
Pit1(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGMATATDC	1e0	-1.369e-01	1.0000	91.0	5.75%	108.5	6.69%
Zic(Zf)/Cerebellum-ZIC1.2-ChIP-Seq(GSE60731)/Homer	CCTGCTGAGH	1e0	-1.254e-01	1.0000	32.0	2.02%	42.9	2.64%
ABF1/SacCer-Promoters/Homer	CGTRNAAARTGA	1e0	-1.223e-01	1.0000	2.0	0.13%	4.7	0.29%
IRF:BATF(IRF:bZIP)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	CTTTCANTATGACTV	1e0	-1.223e-01	1.0000	2.0	0.13%	4.9	0.30%
LIN-39(Homeobox)/cElegans.L3-LIN39-ChIP-Seq(modEncode)/Homer	ATGATTRATG	1e0	-1.188e-01	1.0000	99.0	6.26%	118.7	7.32%
Tal1	CATCTG	1e0	-1.125e-01	1.0000	69.0	4.36%	85.6	5.28%
EGL-5(Homeobox)/cElegans-L3-EGL5-ChIP-Seq(modEncode)/Homer	ATTTAATGGG	1e0	-1.107e-01	1.0000	103.0	6.51%	123.5	7.61%
Hnf1(Homeobox)/Liver-Foxa2-Chip-Seq(GSE25694)/Homer	GGTTAAWCATTAA	1e0	-1.097e-01	1.0000	8.0	0.51%	13.8	0.85%
EBF(EBF)/proBcell-EBF-ChIP-Seq(GSE21978)/Homer	DGTCCCYRGGGA	1e0	-1.097e-01	1.0000	8.0	0.51%	13.4	0.83%
E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer	GGCGGGAAAH	1e0	-1.086e-01	1.0000	11.0	0.70%	17.5	1.08%
Tlx?(NR)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	CTGGCAGSCTGCCA	1e0	-1.041e-01	1.0000	14.0	0.88%	21.3	1.31%
GRHL2(CP2)/HBE-GRHL2-ChIP-Seq(GSE46194)/Homer	AAACYKGTTWDACMRGTTTB	1e0	-1.041e-01	1.0000	14.0	0.88%	21.4	1.32%
GATA3(Zf),DR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATGKDGAGATAAG	1e0	-1.022e-01	1.0000	5.0	0.32%	9.4	0.58%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	AGGTCAAGGTCA	1e0	-1.022e-01	1.0000	5.0	0.32%	9.2	0.57%
CRE(bZIP)/Promoter/Homer	CSGTGACGTCAC	1e0	-1.007e-01	1.0000	3.0	0.19%	6.6	0.41%
GATA:SCL(Zf,bHLH)/Ter119-SCL-ChIP-Seq(GSE18720)/Homer	CRGCTGBNGNSNNSAGATAA	1e0	-1.007e-01	1.0000	3.0	0.19%	6.5	0.40%
GRE(NR),IR3/RAW264.7-GRE-ChIP-Seq(Unpublished)/Homer	VAGRACAKWCTGTYC	1e0	-9.607e-02	1.0000	7.0	0.44%	12.2	0.75%
SeqBias: polyC-repeat	CCCCCCCCCC	1e0	-9.018e-02	1.0000	1240.0	78.38%	1302.8	80.32%
NF1-halfsite(CTF)/LNCaP-NF1-ChIP-Seq(Unpublished)/Homer	YTGCCAAG	1e0	-8.990e-02	1.0000	65.0	4.11%	82.9	5.11%
OCT4-SOX2-TCF-NANOG(POU,Homeobox,HMG)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAACAATG	1e0	-8.789e-02	1.0000	9.0	0.57%	15.9	0.98%
Lhx3(Homeobox)/Neuron-Lhx3-ChIP-Seq(GSE31456)/Homer	ADBTAATTAR	1e0	-8.537e-02	1.0000	111.0	7.02%	134.2	8.27%
NF1(CTF)/LNCAP-NF1-ChIP-Seq(Unpublished)/Homer	CYTGGCABNSTGCCAR	1e0	-8.506e-02	1.0000	15.0	0.95%	23.7	1.46%
STAT5(Stat)/mCD4+-Stat5-ChIP-Seq(GSE12346)/Homer	RTTTCTNAGAAA	1e0	-8.506e-02	1.0000	15.0	0.95%	23.5	1.45%
SeqBias: GCW-triplet	GCWGCWGCWGCW	1e0	-8.459e-02	1.0000	1484.0	93.81%	1539.4	94.90%
PAX5(Paired,Homeobox),condensed/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GTCACGCTCSCTGM	1e0	-8.211e-02	1.0000	4.0	0.25%	8.6	0.53%
Nkx6.1(Homeobox)/Islet-Nkx6.1-ChIP-Seq(GSE40975)/Homer	GKTAATGR	1e0	-8.016e-02	1.0000	226.0	14.29%	260.8	16.08%
Lhx2(Homeobox)/HFSC-Lhx2-ChIP-Seq(GSE48068)/Homer	TAATTAGN	1e0	-7.647e-02	1.0000	79.0	4.99%	99.4	6.13%
Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer	BAACAGCTGT	1e0	-7.160e-02	1.0000	20.0	1.26%	30.1	1.86%
TEAD2(TEA)/Py2T-Tead2-ChIP-Seq(GSE55709)/Homer	CCWGGAATGY	1e0	-7.022e-02	1.0000	28.0	1.77%	40.7	2.51%
Ptf1a(bHLH)/Panc1-Ptf1a-ChIP-Seq(GSE47459)/Homer	ACAGCTGTTN	1e0	-6.956e-02	1.0000	123.0	7.77%	149.2	9.20%
Unknown3/Drosophila-Promoters/Homer	ACVAKCTGGCAGCGC	1e0	-6.781e-02	1.0000	1.0	0.06%	3.7	0.23%
Tbx5(T-box)/HL1-Tbx5.biotin-ChIP-Seq(GSE21529)/Homer	AGGTGTCA	1e0	-5.849e-02	1.0000	177.0	11.19%	210.0	12.95%
Trl(Zf)/S2-GAGAfactor-ChIP-Seq(GSE40646)/Homer	RGAGAGAG	1e0	-5.817e-02	1.0000	119.0	7.52%	146.0	9.00%
Pbx3(Homeobox)/GM12878-PBX3-ChIP-Seq(GSE32465)/Homer	SCTGTCAMTCAN	1e0	-5.464e-02	1.0000	6.0	0.38%	12.8	0.79%
HRE(HSF)/Striatum-HSF1-ChIP-Seq(GSE38000)/Homer	TTCTAGAABNTTCTA	1e0	-5.349e-02	1.0000	8.0	0.51%	15.7	0.97%
CArG(MADS)/PUER-Srf-ChIP-Seq(Sullivan_et_al.)/Homer	CCATATATGGNM	1e0	-5.260e-02	1.0000	13.0	0.82%	22.9	1.41%
E-box/Drosophila-Promoters/Homer	AACAGCTGTTHN	1e0	-5.163e-02	1.0000	4.0	0.25%	9.8	0.61%
NFAT:AP1(RHD,bZIP)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	SARTGGAAAAWRTGAGTCAB	1e0	-5.163e-02	1.0000	4.0	0.25%	9.2	0.57%
NFAT(RHD)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	ATTTTCCATT	1e0	-4.227e-02	1.0000	40.0	2.53%	57.6	3.55%
Ascl1(bHLH)/NeuralTubes-Ascl1-ChIP-Seq(GSE55840)/Homer	NNVVCAGCTGBN	1e0	-4.092e-02	1.0000	44.0	2.78%	62.6	3.86%
Znf263(Zf)/K562-Znf263-ChIP-Seq(GSE31477)/Homer	CVGTSCTCCC	1e0	-3.997e-02	1.0000	59.0	3.73%	80.0	4.93%
ZNF669(Zf)/HEK293-ZNF669.GFP-ChIP-Seq(GSE58341)/Homer	GARTGGTCATCGCCC	1e0	-3.853e-02	1.0000	2.0	0.13%	6.7	0.41%
TATA-box/SacCer-Promoters/Homer	BBHWTATATA	1e0	-3.010e-02	1.0000	56.0	3.54%	78.2	4.82%
TEAD(TEA)/Fibroblast-PU.1-ChIP-Seq(Unpublished)/Homer	YCWGGAATGY	1e0	-2.792e-02	1.0000	32.0	2.02%	49.1	3.03%
Smad4(MAD)/ESC-SMAD4-ChIP-Seq(GSE29422)/Homer	VBSYGTCTGG	1e0	-2.775e-02	1.0000	49.0	3.10%	70.7	4.36%
DPL-1(E2F)/cElegans-Adult-ChIP-Seq(modEncode)/Homer	TAGCGCGC	1e0	-2.768e-02	1.0000	5.0	0.32%	12.3	0.76%
MyoG(bHLH)/C2C12-MyoG-ChIP-Seq(GSE36024)/Homer	AACAGCTG	1e0	-2.740e-02	1.0000	28.0	1.77%	44.4	2.74%
SeqBias: polyA-repeat	AAAAAAAAAA	1e0	-2.484e-02	1.0000	1453.0	91.85%	1518.8	93.63%
Atoh1(bHLH)/Cerebellum-Atoh1-ChIP-Seq(GSE22111)/Homer	VNRVCAGCTGGY	1e0	-2.352e-02	1.0000	41.0	2.59%	61.4	3.78%
Unknown1(NR/Ini-like)/Drosophila-Promoters/Homer	MYGGTCACACTG	1e0	-2.143e-02	1.0000	3.0	0.19%	9.9	0.61%
Brachyury(T-box)/Mesoendoderm-Brachyury-ChIP-exo(GSE54963)/Homer	ANTTMRCASBNNNGTGYKAAN	1e0	-2.143e-02	1.0000	3.0	0.19%	9.8	0.60%
Pax7(Paired,Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCAATTA	1e0	-1.973e-02	1.0000	4.0	0.25%	11.1	0.68%
Nr5a2(NR)/Pancreas-LRH1-ChIP-Seq(GSE34295)/Homer	BTCAAGGTCA	1e0	-1.839e-02	1.0000	23.0	1.45%	39.7	2.45%
E2A(bHLH),near_PU.1/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	NVCACCTGBN	1e0	-1.781e-02	1.0000	44.0	2.78%	66.3	4.09%
Tcf12(bHLH)/GM12878-Tcf12-ChIP-Seq(GSE32465)/Homer	VCAGCTGYTG	1e0	-1.781e-02	1.0000	29.0	1.83%	47.4	2.92%
Hoxb4(Homeobox)/ES-Hoxb4-ChIP-Seq(GSE34014)/Homer	TGATTRATGGCY	1e0	-1.750e-02	1.0000	5.0	0.32%	13.4	0.82%
Pdx1(Homeobox)/Islet-Pdx1-ChIP-Seq(SRA008281)/Homer	YCATYAATCA	1e0	-1.346e-02	1.0000	60.0	3.79%	87.6	5.40%
Nanog(Homeobox)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	RGCCATTAAC	1e0	-1.328e-02	1.0000	289.0	18.27%	346.8	21.38%
Smad2(MAD)/ES-SMAD2-ChIP-Seq(GSE29422)/Homer	CTGTCTGG	1e0	-1.081e-02	1.0000	51.0	3.22%	77.8	4.79%
Foxh1(Forkhead)/hESC-FOXH1-ChIP-Seq(GSE29422)/Homer	NNTGTGGATTSS	1e0	-1.057e-02	1.0000	26.0	1.64%	46.0	2.83%
TATA-Box(TBP)/Promoter/Homer	CCTTTTAWAGSC	1e0	-9.204e-03	1.0000	65.0	4.11%	95.2	5.87%
CEBP(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	ATTGCGCAAC	1e0	-7.280e-03	1.0000	34.0	2.15%	57.2	3.53%
Pknox1(Homeobox)/ES-Prep1-ChIP-Seq(GSE63282)/Homer	SCTGTCAVTCAV	1e0	-7.274e-03	1.0000	3.0	0.19%	11.9	0.74%
HRE(HSF)/HepG2-HSF1-ChIP-Seq(GSE31477)/Homer	BSTTCTRGAABVTTCYAGAA	1e0	-6.513e-03	1.0000	2.0	0.13%	9.0	0.56%
Meis1(Homeobox)/MastCells-Meis1-ChIP-Seq(GSE48085)/Homer	VGCTGWCAVB	1e0	-5.888e-03	1.0000	52.0	3.29%	81.1	5.00%
Isl1(Homeobox)/Neuron-Isl1-ChIP-Seq(GSE31456)/Homer	CTAATKGV	1e0	-4.132e-03	1.0000	98.0	6.19%	139.3	8.59%
Nkx2.2(Homeobox)/NPC-Nkx2.2-ChIP-Seq(GSE61673)/Homer	BTBRAGTGSN	1e0	-3.507e-03	1.0000	84.0	5.31%	123.2	7.60%
Tbet(T-box)/CD8-Tbet-ChIP-Seq(GSE33802)/Homer	AGGTGTGAAM	1e0	-1.336e-03	1.0000	42.0	2.65%	74.1	4.57%
Brn2(POU,Homeobox)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATATTC	1e0	-1.091e-03	1.0000	1.0	0.06%	9.9	0.61%
SCL(bHLH)/HPC7-Scl-ChIP-Seq(GSE13511)/Homer	AVCAGCTG	1e0	-8.730e-04	1.0000	205.0	12.96%	273.4	16.86%
RXR(NR),DR1/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer	TAGGGCAAAGGTCA	1e0	-8.610e-04	1.0000	30.0	1.90%	59.5	3.67%
PPARE(NR),DR1/3T3L1-Pparg-ChIP-Seq(GSE13511)/Homer	TGACCTTTGCCCCA	1e0	-8.610e-04	1.0000	30.0	1.90%	59.5	3.67%
HLH-1(bHLH)/cElegans-Embryo-HLH1-ChIP-Seq(modEncode)/Homer	RACAGCTGTTBH	1e0	-6.720e-04	1.0000	18.0	1.14%	42.2	2.60%
SEP3(MADS)/Arabidoposis-Flower-Sep3-ChIP-Seq/Homer	CCAAAAAGGG	1e0	-2.720e-04	1.0000	43.0	2.72%	81.8	5.05%
Tgif1(Homeobox)/mES-Tgif1-ChIP-Seq(GSE55404)/Homer	YTGWCADY	1e0	-2.050e-04	1.0000	125.0	7.90%	187.6	11.56%
Nkx2.5(Homeobox)/HL1-Nkx2.5.biotin-ChIP-Seq(GSE21529)/Homer	RRSCACTYAA	1e0	-1.730e-04	1.0000	96.0	6.07%	152.5	9.40%
Eomes(T-box)/H9-Eomes-ChIP-Seq(GSE26097)/Homer	ATTAACACCT	1e0	-1.690e-04	1.0000	112.0	7.08%	172.9	10.66%
Nkx2.1(Homeobox)/LungAC-Nkx2.1-ChIP-Seq(GSE43252)/Homer	RSCACTYRAG	1e0	-1.000e-05	1.0000	126.0	7.96%	203.0	12.51%
NFY(CCAAT)/Promoter/Homer	RGCCAATSRG	1e0	-4.000e-06	1.0000	11.0	0.70%	42.9	2.64%
Tgif2(Homeobox)/mES-Tgif2-ChIP-Seq(GSE55404)/Homer	TGTCANYT	1e0	-1.000e-06	1.0000	134.0	8.47%	222.4	13.71%
CTCF-SatelliteElement(Zf?)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	TGCAGTTCCMVNWRTGGCCA	1e0	-0.000e+00	1.0000	0.0	0.00%	2.5	0.15%
T1ISRE(IRF)/ThioMac-Ifnb-Expression/Homer	ACTTTCGTTTCT	1e0	-0.000e+00	1.0000	0.0	0.00%	1.5	0.09%
ZFP3(Zf)/HEK293-ZFP3.GFP-ChIP-Seq(GSE58341)/Homer	GGGTTTTGAAGGATGARTAGGAGTT	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
p53(p53)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	ACATGCCCGGGCAT	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
ZNF16(Zf)/HEK293-ZNF16.GFP-ChIP-Seq(GSE58341)/Homer	MACCTTCYATGGCTCCCTAKTGCCY	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	RGGTCADNNAGAGGTCAV	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%	0.8	0.05%
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%
GFX(?)/Promoter/Homer	ATTCTCGCGAGA	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%
ZNF41(Zf)/HEK293-ZNF41.GFP-ChIP-Seq(GSE58341)/Homer	CCTCATGGTGYCYTWYTCCCTTGTG	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
DREF/Drosophila-Promoters/Homer	AVYTATCGATAD	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%
 Ik-1	NHTTGGGAATRCC	1e0	0.000e+00	1.0000	1582.0	100.00%	1622.1	100.00%
ZBTB33(Zf)/GM12878-ZBTB33-ChIP-Seq(GSE32465)/Homer	GGVTCTCGCGAGAAC	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
Oct4:Sox17(POU,Homeobox,HMG)/F9-Sox17-ChIP-Seq(GSE44553)/Homer	CCATTGTATGCAAAT	1e0	0.000e+00	1.0000	0.0	0.00%	7.6	0.47%