Motif Name	Consensus	P-value	Log P-value	q-value (Benjamini)	# of Target Sequences with Motif(of 65)	% of Target Sequences with Motif	# of Background Sequences with Motif(of 42939)	% of Background Sequences with Motif
Jun-AP1(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	GATGASTCATCN	1e-2	-5.421e+00	1.0000	11.0	16.92%	2941.3	6.85%
ZNF143|STAF(Zf)/CUTLL-ZNF143-ChIP-Seq(GSE29600)/Homer	ATTTCCCAGVAKSCY	1e-2	-5.372e+00	1.0000	18.0	27.69%	6280.7	14.62%
bHLHE40(bHLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer	KCACGTGMCN	1e-2	-4.733e+00	1.0000	17.0	26.15%	6155.4	14.33%
Initiator/Drosophila-Promoters/Homer	NTCAGTYG	1e-2	-4.677e+00	1.0000	50.0	76.92%	26797.9	62.40%
Oct4(POU,Homeobox)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAW	1e-1	-4.512e+00	1.0000	16.0	24.62%	5779.3	13.46%
Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer	GGGGGGGG	1e-1	-4.211e+00	1.0000	51.0	78.46%	28006.0	65.21%
Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer	TGCGTGGGYG	1e-1	-3.649e+00	1.0000	33.0	50.77%	16392.8	38.17%
SeqBias: CG-repeat	CGCGCGCGCG	1e-1	-3.622e+00	1.0000	46.0	70.77%	25060.1	58.35%
NFY(CCAAT)/Promoter/Homer	RGCCAATSRG	1e-1	-3.541e+00	1.0000	27.0	41.54%	12793.8	29.79%
KLF5(Zf)/LoVo-KLF5-ChIP-Seq(GSE49402)/Homer	DGGGYGKGGC	1e-1	-3.516e+00	1.0000	48.0	73.85%	26593.2	61.92%
E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer	GGCGGGAARN	1e-1	-3.505e+00	1.0000	29.0	44.62%	14052.2	32.72%
E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer	GGCGGGAAAH	1e-1	-3.477e+00	1.0000	24.0	36.92%	11062.5	25.76%
TEAD4(TEA)/Tropoblast-Tead4-ChIP-Seq(GSE37350)/Homer	CCWGGAATGY	1e-1	-3.300e+00	1.0000	26.0	40.00%	12441.7	28.97%
Stat3+il21(Stat)/CD4-Stat3-ChIP-Seq(GSE19198)/Homer	SVYTTCCNGGAARB	1e-1	-3.265e+00	1.0000	24.0	36.92%	11277.2	26.26%
GEI-11(Myb?)/cElegans-L4-GEI11-ChIP-Seq(modEncode)/Homer	CCGACAYYTYACGGG	1e-1	-3.202e+00	1.0000	5.0	7.69%	1248.4	2.91%
Bach2(bZIP)/OCILy7-Bach2-ChIP-Seq(GSE44420)/Homer	TGCTGAGTCA	1e-1	-3.196e+00	1.0000	8.0	12.31%	2586.1	6.02%
Cbf1(bHLH)/Yeast-Cbf1-ChIP-Seq(GSE29506)/Homer	TCACGTGAYH	1e-1	-3.174e+00	1.0000	12.0	18.46%	4600.3	10.71%
Sox4(HMG)/proB-Sox4-ChIP-Seq(GSE50066)/Homer	YCTTTGTTCC	1e-1	-3.024e+00	1.0000	25.0	38.46%	12138.5	28.26%
Atf2(bZIP)/3T3L1-Atf2-ChIP-Seq(GSE56872)/Homer	NRRTGACGTCAT	1e-1	-2.983e+00	1.0000	12.0	18.46%	4739.1	11.03%
Fox:Ebox(Forkhead,bHLH)/Panc1-Foxa2-ChIP-Seq(GSE47459)/Homer	NNNVCTGWGYAAACASN	1e-1	-2.893e+00	1.0000	26.0	40.00%	12897.1	30.03%
STAT6(Stat)/CD4-Stat6-ChIP-Seq(GSE22104)/Homer	ABTTCYYRRGAA	1e-1	-2.860e+00	1.0000	18.0	27.69%	8174.5	19.03%
Fosl2(bZIP)/3T3L1-Fosl2-ChIP-Seq(GSE56872)/Homer	NATGASTCABNN	1e-1	-2.830e+00	1.0000	11.0	16.92%	4324.7	10.07%
Sox3(HMG)/NPC-Sox3-ChIP-Seq(GSE33059)/Homer	CCWTTGTY	1e-1	-2.816e+00	1.0000	41.0	63.08%	22636.6	52.71%
Srebp1a(bHLH)/HepG2-Srebp1a-ChIP-Seq(GSE31477)/Homer	RTCACSCCAY	1e-1	-2.768e+00	1.0000	9.0	13.85%	3330.7	7.76%
E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer	VDTTTCCCGCCA	1e-1	-2.626e+00	1.0000	9.0	13.85%	3426.1	7.98%
Pho2(bHLH)/Yeast-Pho2-ChIP-Seq(GSE29506)/Homer	CCCACGTGCT	1e-1	-2.586e+00	1.0000	19.0	29.23%	9043.3	21.06%
Fli1(ETS)/CD8-FLI-ChIP-Seq(GSE20898)/Homer	NRYTTCCGGH	1e-1	-2.534e+00	1.0000	37.0	56.92%	20366.5	47.42%
Nrf2(bZIP)/Lymphoblast-Nrf2-ChIP-Seq(GSE37589)/Homer	HTGCTGAGTCAT	1e-1	-2.515e+00	1.0000	3.0	4.62%	668.7	1.56%
Tcfcp2l1(CP2)/mES-Tcfcp2l1-ChIP-Seq(GSE11431)/Homer	NRAACCRGTTYRAACCRGYT	1e-1	-2.511e+00	1.0000	7.0	10.77%	2485.5	5.79%
DPL-1(E2F)/cElegans-Adult-ChIP-Seq(modEncode)/Homer	TAGCGCGC	1e-1	-2.469e+00	1.0000	25.0	38.46%	12805.8	29.82%
RBPJ:Ebox(?,bHLH)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	GGGRAARRGRMCAGMTG	1e-1	-2.443e+00	1.0000	15.0	23.08%	6871.2	16.00%
Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo et al.)/Homer	TBGCACGCAA	1e-1	-2.431e+00	1.0000	22.0	33.85%	11018.8	25.66%
c-Jun-CRE(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	ATGACGTCATCY	1e-1	-2.386e+00	1.0000	10.0	15.38%	4135.8	9.63%
ELF5(ETS)/T47D-ELF5-ChIP-Seq(GSE30407)/Homer	ACVAGGAAGT	1e-1	-2.369e+00	1.0000	24.0	36.92%	12319.6	28.69%
ERG(ETS)/VCaP-ERG-ChIP-Seq(GSE14097)/Homer	ACAGGAAGTG	1e-1	-2.362e+00	1.0000	42.0	64.62%	23952.0	55.77%
NFkB-p65-Rel(RHD)/ThioMac-LPS-Expression(GSE23622)/Homer	GGAAATTCCC	1e-1	-2.346e+00	1.0000	5.0	7.69%	1605.2	3.74%
AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	VTGACTCATC	1e0	-2.295e+00	1.0000	19.0	29.23%	9379.1	21.84%
Bach1(bZIP)/K562-Bach1-ChIP-Seq(GSE31477)/Homer	AWWNTGCTGAGTCAT	1e0	-2.276e+00	1.0000	3.0	4.62%	742.9	1.73%
Stat3(Stat)/mES-Stat3-ChIP-Seq(GSE11431)/Homer	CTTCCGGGAA	1e0	-2.268e+00	1.0000	18.0	27.69%	8816.3	20.53%
E-box/Arabidopsis-Promoters/Homer	GCCACGTG	1e0	-2.262e+00	1.0000	20.0	30.77%	10020.0	23.33%
Max(bHLH)/K562-Max-ChIP-Seq(GSE31477)/Homer	RCCACGTGGYYN	1e0	-2.202e+00	1.0000	22.0	33.85%	11313.8	26.34%
c-Myc(bHLH)/LNCAP-cMyc-ChIP-Seq(Unpublished)/Homer	VCCACGTG	1e0	-2.197e+00	1.0000	20.0	30.77%	10102.3	23.52%
Pho4(bHLH)/Yeast-Pho4-ChIP-Seq(GSE29506)/Homer	AAGCACGTGBGD	1e0	-2.196e+00	1.0000	11.0	16.92%	4849.9	11.29%
NF-E2(bZIP)/K562-NFE2-ChIP-Seq(GSE31477)/Homer	GATGACTCAGCA	1e0	-2.182e+00	1.0000	3.0	4.62%	774.2	1.80%
Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer	NRYTTCCGGY	1e0	-2.161e+00	1.0000	25.0	38.46%	13223.4	30.79%
Sp1(Zf)/Promoter/Homer	GGCCCCGCCCCC	1e0	-2.156e+00	1.0000	18.0	27.69%	8952.7	20.85%
JunD(bZIP)/K562-JunD-ChIP-Seq/Homer	ATGACGTCATCN	1e0	-2.141e+00	1.0000	4.0	6.15%	1236.8	2.88%
E2F1(E2F)/Hela-E2F1-ChIP-Seq(GSE22478)/Homer	CWGGCGGGAA	1e0	-2.128e+00	1.0000	14.0	21.54%	6627.5	15.43%
IRF2(IRF)/Erythroblas-IRF2-ChIP-Seq(GSE36985)/Homer	GAAASYGAAASY	1e0	-2.104e+00	1.0000	5.0	7.69%	1734.7	4.04%
REB1/SacCer-Promoters/Homer	KCCGGGTAAYRR	1e0	-2.089e+00	1.0000	7.0	10.77%	2765.7	6.44%
Foxa2(Forkhead)/Liver-Foxa2-ChIP-Seq(GSE25694)/Homer	CYTGTTTACWYW	1e0	-2.087e+00	1.0000	20.0	30.77%	10246.5	23.86%
Atf7(bZIP)/3T3L1-Atf7-ChIP-Seq(GSE56872)/Homer	NGRTGACGTCAY	1e0	-2.063e+00	1.0000	14.0	21.54%	6699.9	15.60%
Ets1-distal(ETS)/CD4+-PolII-ChIP-Seq(Barski et al.)/Homer	MACAGGAAGT	1e0	-2.029e+00	1.0000	10.0	15.38%	4447.2	10.36%
AMYB(HTH)/Testes-AMYB-ChIP-Seq(GSE44588)/Homer	TGGCAGTTGG	1e0	-1.995e+00	1.0000	38.0	58.46%	21853.7	50.89%
STAT4(Stat)/CD4-Stat4-ChIP-Seq(GSE22104)/Homer	NYTTCCWGGAAR	1e0	-1.991e+00	1.0000	26.0	40.00%	14100.0	32.83%
PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	MGGAAGTGAAAC	1e0	-1.961e+00	1.0000	37.0	56.92%	21249.0	49.48%
BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer	DATGASTCAT	1e0	-1.959e+00	1.0000	16.0	24.62%	8003.4	18.64%
CRE(bZIP)/Promoter/Homer	CSGTGACGTCAC	1e0	-1.945e+00	1.0000	9.0	13.85%	3967.5	9.24%
SeqBias: TA-repeat	TATATATATA	1e0	-1.853e+00	1.0000	47.0	72.31%	28174.9	65.60%
Foxo1(Forkhead)/RAW-Foxo1-ChIP-Seq(Fan et al.)/Homer	CTGTTTAC	1e0	-1.836e+00	1.0000	41.0	63.08%	24125.4	56.18%
TEAD2(TEA)/Py2T-Tead2-ChIP-Seq(GSE55709)/Homer	CCWGGAATGY	1e0	-1.834e+00	1.0000	15.0	23.08%	7565.8	17.62%
STAT1(Stat)/HelaS3-STAT1-ChIP-Seq(GSE12782)/Homer	NATTTCCNGGAAAT	1e0	-1.799e+00	1.0000	10.0	15.38%	4675.1	10.89%
Usf2(bHLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer	GTCACGTGGT	1e0	-1.787e+00	1.0000	11.0	16.92%	5264.5	12.26%
n-Myc(bHLH)/mES-nMyc-ChIP-Seq(GSE11431)/Homer	VRCCACGTGG	1e0	-1.783e+00	1.0000	26.0	40.00%	14432.3	33.61%
EGL-5(Homeobox)/cElegans-L3-EGL5-ChIP-Seq(modEncode)/Homer	ATTTAATGGG	1e0	-1.779e+00	1.0000	34.0	52.31%	19590.1	45.62%
PCF/Arabidopsis-Promoters/Homer	NNWWWTGGGCYTDDN	1e0	-1.759e+00	1.0000	8.0	12.31%	3581.5	8.34%
FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer	NYYTGTTTACHN	1e0	-1.755e+00	1.0000	12.0	18.46%	5885.1	13.70%
Eomes(T-box)/H9-Eomes-ChIP-Seq(GSE26097)/Homer	ATTAACACCT	1e0	-1.750e+00	1.0000	43.0	66.15%	25622.1	59.66%
MITF(bHLH)/MastCells-MITF-ChIP-Seq(GSE48085)/Homer	RTCATGTGAC	1e0	-1.750e+00	1.0000	25.0	38.46%	13853.9	32.26%
Mouse_Recombination_Hotspot(Zf)/Testis-DMC1-ChIP-Seq(GSE24438)/Homer	ACTYKNATTCGTGNTACTTC	1e0	-1.741e+00	1.0000	3.0	4.62%	953.9	2.22%
AR-halfsite(NR)/LNCaP-AR-ChIP-Seq(GSE27824)/Homer	CCAGGAACAG	1e0	-1.722e+00	1.0000	60.0	92.31%	37697.7	87.78%
NeuroD1(bHLH)/Islet-NeuroD1-ChIP-Seq(GSE30298)/Homer	GCCATCTGTT	1e0	-1.714e+00	1.0000	25.0	38.46%	13914.2	32.40%
CEBP(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	ATTGCGCAAC	1e0	-1.701e+00	1.0000	16.0	24.62%	8346.8	19.44%
ETS(ETS)/Promoter/Homer	AACCGGAAGT	1e0	-1.688e+00	1.0000	13.0	20.00%	6559.1	15.27%
E2F(E2F)/Hela-CellCycle-Expression/Homer	TTSGCGCGAAAA	1e0	-1.686e+00	1.0000	4.0	6.15%	1478.5	3.44%
HLH-1(bHLH)/cElegans-Embryo-HLH1-ChIP-Seq(modEncode)/Homer	RACAGCTGTTBH	1e0	-1.677e+00	1.0000	21.0	32.31%	11462.0	26.69%
PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer	GSCTGTCACTCA	1e0	-1.615e+00	1.0000	3.0	4.62%	1015.5	2.36%
Sox10(HMG)/SciaticNerve-Sox3-ChIP-Seq(GSE35132)/Homer	CCWTTGTYYB	1e0	-1.598e+00	1.0000	36.0	55.38%	21234.3	49.44%
c-Myc(bHLH)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	VVCCACGTGG	1e0	-1.573e+00	1.0000	19.0	29.23%	10384.7	24.18%
ETS1(ETS)/Jurkat-ETS1-ChIP-Seq(GSE17954)/Homer	ACAGGAAGTG	1e0	-1.557e+00	1.0000	30.0	46.15%	17395.8	40.51%
Unknown3/Arabidopsis-Promoters/Homer	AYTAAACCGG	1e0	-1.549e+00	1.0000	7.0	10.77%	3217.5	7.49%
USF1(bHLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer	SGTCACGTGR	1e0	-1.538e+00	1.0000	16.0	24.62%	8585.5	19.99%
Oct2(POU,Homeobox)/Bcell-Oct2-ChIP-Seq(GSE21512)/Homer	ATATGCAAAT	1e0	-1.522e+00	1.0000	8.0	12.31%	3817.9	8.89%
CLOCK(bHLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer	GHCACGTG	1e0	-1.518e+00	1.0000	18.0	27.69%	9852.3	22.94%
MYB(HTH)/ERMYB-Myb-ChIPSeq(GSE22095)/Homer	GGCVGTTR	1e0	-1.505e+00	1.0000	41.0	63.08%	24735.6	57.60%
PU.1(ETS)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	AGAGGAAGTG	1e0	-1.476e+00	1.0000	15.0	23.08%	8066.0	18.78%
Pbx3(Homeobox)/GM12878-PBX3-ChIP-Seq(GSE32465)/Homer	SCTGTCAMTCAN	1e0	-1.472e+00	1.0000	7.0	10.77%	3293.8	7.67%
Atf1(bZIP)/K562-ATF1-ChIP-Seq(GSE31477)/Homer	GATGACGTCA	1e0	-1.453e+00	1.0000	17.0	26.15%	9336.9	21.74%
GLI3(Zf)/Limb-GLI3-ChIP-Chip(GSE11077)/Homer	CGTGGGTGGTCC	1e0	-1.438e+00	1.0000	6.0	9.23%	2755.6	6.42%
Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer	GCCACACCCA	1e0	-1.401e+00	1.0000	18.0	27.69%	10047.9	23.40%
EHF(ETS)/LoVo-EHF-ChIP-Seq(GSE49402)/Homer	AVCAGGAAGT	1e0	-1.386e+00	1.0000	34.0	52.31%	20343.1	47.37%
Fra1(bZIP)/BT549-Fra1-ChIP-Seq(GSE46166)/Homer	NNATGASTCATH	1e0	-1.367e+00	1.0000	13.0	20.00%	7005.3	16.31%
STAT6(Stat)/Macrophage-Stat6-ChIP-Seq(GSE38377)/Homer	TTCCKNAGAA	1e0	-1.367e+00	1.0000	15.0	23.08%	8238.4	19.18%
TEAD(TEA)/Fibroblast-PU.1-ChIP-Seq(Unpublished)/Homer	YCWGGAATGY	1e0	-1.365e+00	1.0000	17.0	26.15%	9485.9	22.09%
Isl1(Homeobox)/Neuron-Isl1-ChIP-Seq(GSE31456)/Homer	CTAATKGV	1e0	-1.360e+00	1.0000	39.0	60.00%	23698.8	55.18%
CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski et al.)/Homer	AYAGTGCCMYCTRGTGGCCA	1e0	-1.359e+00	1.0000	6.0	9.23%	2832.8	6.60%
MafK(bZIP)/C2C12-MafK-ChIP-Seq(GSE36030)/Homer	GCTGASTCAGCA	1e0	-1.342e+00	1.0000	7.0	10.77%	3431.2	7.99%
X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	GGTTGCCATGGCAA	1e0	-1.320e+00	1.0000	4.0	6.15%	1733.6	4.04%
RARg(NR)/ES-RARg-ChIP-Seq(GSE30538)/Homer	AGGTCAAGGTCA	1e0	-1.313e+00	1.0000	2.0	3.08%	669.8	1.56%
NF1(CTF)/LNCAP-NF1-ChIP-Seq(Unpublished)/Homer	CYTGGCABNSTGCCAR	1e0	-1.303e+00	1.0000	15.0	23.08%	8344.4	19.43%
Otx2(Homeobox)/EpiLC-Otx2-ChIP-Seq(GSE56098)/Homer	NYTAATCCYB	1e0	-1.280e+00	1.0000	20.0	30.77%	11528.7	26.84%
HNF4a(NR),DR1/HepG2-HNF4a-ChIP-Seq(GSE25021)/Homer	CARRGKBCAAAGTYCA	1e0	-1.277e+00	1.0000	15.0	23.08%	8388.4	19.53%
BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer	CNNBRGCGCCCCCTGSTGGC	1e0	-1.276e+00	1.0000	11.0	16.92%	5917.5	13.78%
E2A(bHLH),near_PU.1/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	NVCACCTGBN	1e0	-1.268e+00	1.0000	42.0	64.62%	25895.3	60.30%
EWS:FLI1-fusion(ETS)/SK_N_MC-EWS:FLI1-ChIP-Seq(SRA014231)/Homer	VACAGGAAAT	1e0	-1.266e+00	1.0000	17.0	26.15%	9659.0	22.49%
CTCF-SatelliteElement(Zf?)/CD4+-CTCF-ChIP-Seq(Barski et al.)/Homer	TGCAGTTCCMVNWRTGGCCA	1e0	-1.248e+00	1.0000	1.0	1.54%	223.4	0.52%
OCT4-SOX2-TCF-NANOG(POU,Homeobox,HMG)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAACAATG	1e0	-1.245e+00	1.0000	5.0	7.69%	2368.0	5.51%
Tcf4(HMG)/Hct116-Tcf4-ChIP-Seq(SRA012054)/Homer	ASATCAAAGGVA	1e0	-1.193e+00	1.0000	12.0	18.46%	6662.3	15.51%
NFkB-p50,p52(RHD)/Monocyte-p50-ChIP-Chip(Schreiber et al.)/Homer	GGGGGAATCCCC	1e0	-1.184e+00	1.0000	8.0	12.31%	4221.8	9.83%
GAGA-repeat/SacCer-Promoters/Homer	CTYTCTYTCTCTCTC	1e0	-1.183e+00	1.0000	62.0	95.38%	39868.8	92.83%
LXRE(NR),DR4/RAW-LXRb.biotin-ChIP-Seq(GSE21512)/Homer	RGGTTACTANAGGTCA	1e0	-1.174e+00	1.0000	2.0	3.08%	741.4	1.73%
p63(p53)/Keratinocyte-p63-ChIP-Seq(GSE17611)/Homer	NNDRCATGYCYNRRCATGYH	1e0	-1.154e+00	1.0000	9.0	13.85%	4872.5	11.35%
ETV1(ETS)/GIST48-ETV1-ChIP-Seq(GSE22441)/Homer	AACCGGAAGT	1e0	-1.131e+00	1.0000	38.0	58.46%	23546.7	54.83%
EWS:ERG-fusion(ETS)/CADO_ES1-EWS:ERG-ChIP-Seq(SRA014231)/Homer	ATTTCCTGTN	1e0	-1.118e+00	1.0000	19.0	29.23%	11215.4	26.11%
LIN-39(Homeobox)/cElegans.L3-LIN39-ChIP-Seq(modEncode)/Homer	ATGATTRATG	1e0	-1.108e+00	1.0000	24.0	36.92%	14450.8	33.65%
FOXA1(Forkhead)/MCF7-FOXA1-ChIP-Seq(GSE26831)/Homer	WAAGTAAACA	1e0	-1.105e+00	1.0000	23.0	35.38%	13811.5	32.16%
BMYB(HTH)/Hela-BMYB-ChIP-Seq(GSE27030)/Homer	NHAACBGYYV	1e0	-1.097e+00	1.0000	35.0	53.85%	21650.6	50.41%
Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer	HACTTCCGGY	1e0	-1.092e+00	1.0000	21.0	32.31%	12553.7	29.23%
PIF5ox(bHLH)/Arabidopsis-PIF5ox-ChIP-Seq(GSE35062)/Homer	BCACGTGVDN	1e0	-1.088e+00	1.0000	28.0	43.08%	17089.8	39.79%
Tcf3(HMG)/mES-Tcf3-ChIP-Seq(GSE11724)/Homer	ASWTCAAAGG	1e0	-1.085e+00	1.0000	7.0	10.77%	3745.8	8.72%
FOXA1(Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WAAGTAAACA	1e0	-1.078e+00	1.0000	26.0	40.00%	15814.8	36.82%
Nkx2.5(Homeobox)/HL1-Nkx2.5.biotin-ChIP-Seq(GSE21529)/Homer	RRSCACTYAA	1e0	-1.075e+00	1.0000	43.0	66.15%	27002.7	62.88%
TR4(NR),DR1/Hela-TR4-ChIP-Seq(GSE24685)/Homer	GAGGTCAAAGGTCA	1e0	-1.042e+00	1.0000	5.0	7.69%	2583.8	6.02%
EBF1(EBF)/Near-E2A-ChIP-Seq(GSE21512)/Homer	GTCCCCWGGGGA	1e0	-1.012e+00	1.0000	36.0	55.38%	22520.8	52.44%
NFkB-p65(RHD)/GM12787-p65-ChIP-Seq(GSE19485)/Homer	WGGGGATTTCCC	1e0	-1.011e+00	1.0000	25.0	38.46%	15327.5	35.69%
EBF(EBF)/proBcell-EBF-ChIP-Seq(GSE21978)/Homer	DGTCCCYRGGGA	1e0	-9.876e-01	1.0000	10.0	15.38%	5760.8	13.41%
Meis1(Homeobox)/MastCells-Meis1-ChIP-Seq(GSE48085)/Homer	VGCTGWCAVB	1e0	-9.872e-01	1.0000	35.0	53.85%	21926.8	51.06%
Smad3(MAD)/NPC-Smad3-ChIP-Seq(GSE36673)/Homer	TWGTCTGV	1e0	-9.840e-01	1.0000	53.0	81.54%	33931.5	79.01%
HIF-1b(HLH)/T47D-HIF1b-ChIP-Seq(GSE59937)/Homer	RTACGTGC	1e0	-9.795e-01	1.0000	30.0	46.15%	18665.1	43.46%
RFX(HTH)/K562-RFX3-ChIP-Seq(SRA012198)/Homer	CGGTTGCCATGGCAAC	1e0	-9.762e-01	1.0000	3.0	4.62%	1450.0	3.38%
SPDEF(ETS)/VCaP-SPDEF-ChIP-Seq(SRA014231)/Homer	ASWTCCTGBT	1e0	-9.710e-01	1.0000	31.0	47.69%	19342.5	45.04%
EFL-1(E2F)/cElegans-L1-EFL1-ChIP-Seq(modEncode)/Homer	TGCAARYGCGCTCYA	1e0	-9.643e-01	1.0000	1.0	1.54%	316.4	0.74%
Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq(GSE22178)/Homer	MAATCACTGC	1e0	-9.609e-01	1.0000	20.0	30.77%	12210.0	28.43%
Sox6(HMG)/Myotubes-Sox6-ChIP-Seq(GSE32627)/Homer	CCATTGTTNY	1e0	-9.551e-01	1.0000	33.0	50.77%	20696.4	48.19%
Atf3(bZIP)/GBM-ATF3-ChIP-Seq(GSE33912)/Homer	DATGASTCATHN	1e0	-9.530e-01	1.0000	14.0	21.54%	8369.0	19.49%
Mef2c(MADS)/GM12878-Mef2c-ChIP-Seq(GSE32465)/Homer	DCYAAAAATAGM	1e0	-9.147e-01	1.0000	12.0	18.46%	7168.6	16.69%
Pax7(Paired,Homeobox),long/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCHGATTAC	1e0	-9.031e-01	1.0000	1.0	1.54%	342.6	0.80%
Ascl1(bHLH)/NeuralTubes-Ascl1-ChIP-Seq(GSE55840)/Homer	NNVVCAGCTGBN	1e0	-9.011e-01	1.0000	44.0	67.69%	28106.9	65.45%
CEBP:AP1(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	DRTGTTGCAA	1e0	-8.996e-01	1.0000	16.0	24.62%	9771.1	22.75%
ELF1(ETS)/Jurkat-ELF1-ChIP-Seq(SRA014231)/Homer	AVCCGGAAGT	1e0	-8.919e-01	1.0000	18.0	27.69%	11082.2	25.80%
Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer	BAACAGCTGT	1e0	-8.831e-01	1.0000	24.0	36.92%	15003.6	34.94%
HNF6(Homeobox)/Liver-Hnf6-ChIP-Seq(ERP000394)/Homer	NTATYGATCH	1e0	-8.778e-01	1.0000	12.0	18.46%	7244.4	16.87%
Znf263(Zf)/K562-Znf263-ChIP-Seq(GSE31477)/Homer	CVGTSCTCCC	1e0	-8.770e-01	1.0000	45.0	69.23%	28834.3	67.14%
SeqBias: A/T bias	WWWWWWWWWW	1e0	-8.682e-01	1.0000	64.0	98.46%	41667.9	97.02%
Lhx3(Homeobox)/Neuron-Lhx3-ChIP-Seq(GSE31456)/Homer	ADBTAATTAR	1e0	-8.639e-01	1.0000	32.0	49.23%	20291.9	47.25%
CArG(MADS)/PUER-Srf-ChIP-Seq(Sullivan et al.)/Homer	CCATATATGGNM	1e0	-8.500e-01	1.0000	9.0	13.85%	5375.3	12.52%
Unknown4/Arabidopsis-Promoters/Homer	CKTCKTCTTY	1e0	-8.340e-01	1.0000	29.0	44.62%	18409.9	42.87%
Lhx2(Homeobox)/HFSC-Lhx2-ChIP-Seq(GSE48068)/Homer	TAATTAGN	1e0	-8.309e-01	1.0000	22.0	33.85%	13840.8	32.23%
PRDM1(Zf)/Hela-PRDM1-ChIP-Seq(GSE31477)/Homer	ACTTTCACTTTC	1e0	-8.251e-01	1.0000	14.0	21.54%	8652.6	20.15%
GATA(Zf),IR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NAGATWNBNATCTNN	1e0	-8.246e-01	1.0000	2.0	3.08%	980.1	2.28%
MafA(bZIP)/Islet-MafA-ChIP-Seq(GSE30298)/Homer	TGCTGACTCA	1e0	-8.227e-01	1.0000	21.0	32.31%	13210.5	30.76%
MyoD(bHLH)/Myotube-MyoD-ChIP-Seq(GSE21614)/Homer	RRCAGCTGYTSY	1e0	-8.201e-01	1.0000	27.0	41.54%	17139.8	39.91%
GATA:SCL(Zf,bHLH)/Ter119-SCL-ChIP-Seq(GSE18720)/Homer	CRGCTGBNGNSNNSAGATAA	1e0	-8.119e-01	1.0000	3.0	4.62%	1615.7	3.76%
E-box(bHLH)/Promoter/Homer	SSGGTCACGTGA	1e0	-8.101e-01	1.0000	3.0	4.62%	1617.8	3.77%
Tal1	CATCTG	1e0	-8.094e-01	1.0000	35.0	53.85%	22422.1	52.21%
NPAS2(bHLH)/Liver-NPAS2-ChIP-Seq(GSE39860)/Homer	KCCACGTGAC	1e0	-7.990e-01	1.0000	28.0	43.08%	17856.7	41.58%
Tbx5(T-box)/HL1-Tbx5.biotin-ChIP-Seq(GSE21529)/Homer	AGGTGTCA	1e0	-7.849e-01	1.0000	55.0	84.62%	35716.5	83.16%
GATA3(Zf),DR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATGKDGAGATAAG	1e0	-7.845e-01	1.0000	2.0	3.08%	1015.5	2.36%
Rbpj1(?)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	HTTTCCCASG	1e0	-7.809e-01	1.0000	44.0	67.69%	28439.3	66.22%
GFY(?)/Promoter/Homer	ACTACAATTCCC	1e0	-7.702e-01	1.0000	2.0	3.08%	1028.8	2.40%
CRX(Homeobox)/Retina-Crx-ChIP-Seq(GSE20012)/Homer	GCTAATCC	1e0	-7.695e-01	1.0000	42.0	64.62%	27153.1	63.23%
Pdx1(Homeobox)/Islet-Pdx1-ChIP-Seq(SRA008281)/Homer	YCATYAATCA	1e0	-7.679e-01	1.0000	19.0	29.23%	12055.9	28.07%
Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer	GTTGCCATGGCAACM	1e0	-7.562e-01	1.0000	3.0	4.62%	1679.1	3.91%
Nkx3.1(Homeobox)/LNCaP-Nkx3.1-ChIP-Seq(GSE28264)/Homer	AAGCACTTAA	1e0	-7.476e-01	1.0000	43.0	66.15%	27878.6	64.91%
CHR(?)/Hela-CellCycle-Expression/Homer	SRGTTTCAAA	1e0	-7.431e-01	1.0000	15.0	23.08%	9507.9	22.14%
Tbox:Smad(T-box,MAD)/ESCd5-Smad2_3-ChIP-Seq(GSE29422)/Homer	AGGTGHCAGACA	1e0	-7.411e-01	1.0000	5.0	7.69%	2991.2	6.96%
MafF(bZIP)/HepG2-MafF-ChIP-Seq(GSE31477)/Homer	HWWGTCAGCAWWTTT	1e0	-7.407e-01	1.0000	6.0	9.23%	3641.8	8.48%
SFP1/SacCer-Promoters/Homer	DDAAAAATTTTY	1e0	-7.300e-01	1.0000	4.0	6.15%	2359.1	5.49%
Srebp2(bHLH)/HepG2-Srebp2-ChIP-Seq(GSE31477)/Homer	CGGTCACSCCAC	1e0	-7.272e-01	1.0000	4.0	6.15%	2363.6	5.50%
VDR(NR),DR3/GM10855-VDR+vitD-ChIP-Seq(GSE22484)/Homer	ARAGGTCANWGAGTTCANNN	1e0	-7.149e-01	1.0000	7.0	10.77%	4341.5	10.11%
Sox2(HMG)/mES-Sox2-ChIP-Seq(GSE11431)/Homer	BCCATTGTTC	1e0	-7.048e-01	1.0000	19.0	29.23%	12236.5	28.49%
Ptf1a(bHLH)/Panc1-Ptf1a-ChIP-Seq(GSE47459)/Homer	ACAGCTGTTN	1e0	-7.047e-01	1.0000	54.0	83.08%	35247.9	82.07%
p53(p53)/Saos-p53-ChIP-Seq(GSE15780)/Homer	RRCATGYCYRGRCATGYYYN	1e0	-7.040e-01	1.0000	2.0	3.08%	1092.1	2.54%
p53(p53)/Saos-p53-ChIP-Seq/Homer	RRCATGYCYRGRCATGYYYN	1e0	-7.040e-01	1.0000	2.0	3.08%	1092.1	2.54%
Cdx2(Homeobox)/mES-Cdx2-ChIP-Seq(GSE14586)/Homer	GYMATAAAAH	1e0	-7.013e-01	1.0000	16.0	24.62%	10276.9	23.93%
Atf4(bZIP)/MEF-Atf4-ChIP-Seq(GSE35681)/Homer	MTGATGCAAT	1e0	-7.002e-01	1.0000	6.0	9.23%	3714.2	8.65%
Esrrb(NR)/mES-Esrrb-ChIP-Seq(GSE11431)/Homer	KTGACCTTGA	1e0	-6.964e-01	1.0000	18.0	27.69%	11604.2	27.02%
Tlx?(NR)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	CTGGCAGSCTGCCA	1e0	-6.919e-01	1.0000	12.0	18.46%	7673.7	17.87%
PAX5(Paired,Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GCAGCCAAGCRTGACH	1e0	-6.817e-01	1.0000	11.0	16.92%	7042.0	16.40%
FXR(NR),IR1/Liver-FXR-ChIP-Seq(Chong et al.)/Homer	AGGTCANTGACCTB	1e0	-6.766e-01	1.0000	13.0	20.00%	8371.9	19.49%
HRE(HSF)/HepG2-HSF1-ChIP-Seq(GSE31477)/Homer	BSTTCTRGAABVTTCYAGAA	1e0	-6.759e-01	1.0000	5.0	7.69%	3100.0	7.22%
Phox2a(Homeobox)/Neuron-Phox2a-ChIP-Seq(GSE31456)/Homer	YTAATYNRATTA	1e0	-6.688e-01	1.0000	9.0	13.85%	5754.3	13.40%
Unknown1(NR/Ini-like)/Drosophila-Promoters/Homer	MYGGTCACACTG	1e0	-6.597e-01	1.0000	8.0	12.31%	5114.3	11.91%
GABPA(ETS)/Jurkat-GABPa-ChIP-Seq(GSE17954)/Homer	RACCGGAAGT	1e0	-6.580e-01	1.0000	25.0	38.46%	16330.2	38.02%
Smad2(MAD)/ES-SMAD2-ChIP-Seq(GSE29422)/Homer	CTGTCTGG	1e0	-6.554e-01	1.0000	40.0	61.54%	26199.1	61.00%
AARE(HLH)/mES-cMyc-ChIP-Seq/Homer	GATTGCATCA	1e0	-6.513e-01	1.0000	2.0	3.08%	1149.0	2.68%
Rfx1(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	KGTTGCCATGGCAA	1e0	-6.489e-01	1.0000	6.0	9.23%	3812.4	8.88%
Atoh1(bHLH)/Cerebellum-Atoh1-ChIP-Seq(GSE22111)/Homer	VNRVCAGCTGGY	1e0	-6.448e-01	1.0000	31.0	47.69%	20323.3	47.32%
TCFL2(HMG)/K562-TCF7L2-ChIP-Seq(GSE29196)/Homer	ACWTCAAAGG	1e0	-6.432e-01	1.0000	2.0	3.08%	1158.0	2.70%
Mef2a(MADS)/HL1-Mef2a.biotin-ChIP-Seq(GSE21529)/Homer	CYAAAAATAG	1e0	-6.297e-01	1.0000	10.0	15.38%	6511.5	15.16%
Nkx6.1(Homeobox)/Islet-Nkx6.1-ChIP-Seq(GSE40975)/Homer	GKTAATGR	1e0	-6.147e-01	1.0000	40.0	61.54%	26339.5	61.33%
CEBP:CEBP(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	NTNATGCAAYMNNHTGMAAY	1e0	-6.069e-01	1.0000	3.0	4.62%	1878.3	4.37%
Unknown(Homeobox)/Limb-p300-ChIP-Seq/Homer	SSCMATWAAA	1e0	-6.055e-01	1.0000	16.0	24.62%	10561.9	24.59%
Brachyury(T-box)/Mesoendoderm-Brachyury-ChIP-exo(GSE54963)/Homer	ANTTMRCASBNNNGTGYKAAN	1e0	-6.025e-01	1.0000	6.0	9.23%	3907.8	9.10%
GAGA-repeat/Arabidopsis-Promoters/Homer	CTCTCTCTCY	1e0	-5.865e-01	1.0000	29.0	44.62%	19217.7	44.75%
CES-1(Homeobox)/cElegans-L1-CES1-ChIP-Seq(modEncode)/Homer	AAATTSAATTTN	1e0	-5.726e-01	1.0000	12.0	18.46%	8001.3	18.63%
caudal(Homeobox)/Drosophila-Embryos-ChIP-Chip(modEncode)/Homer	GGYCATAAAW	1e0	-5.610e-01	1.0000	21.0	32.31%	14028.0	32.66%
TATA-box/SacCer-Promoters/Homer	BBHWTATATA	1e0	-5.545e-01	1.0000	11.0	16.92%	7386.0	17.20%
STAT5(Stat)/mCD4+-Stat5-ChIP-Seq(GSE12346)/Homer	RTTTCTNAGAAA	1e0	-5.489e-01	1.0000	8.0	12.31%	5381.4	12.53%
Nkx2.1(Homeobox)/LungAC-Nkx2.1-ChIP-Seq(GSE43252)/Homer	RSCACTYRAG	1e0	-5.439e-01	1.0000	48.0	73.85%	31807.5	74.06%
Nr5a2(NR)/mES-Nr5a2-ChIP-Seq(GSE19019)/Homer	BTCAAGGTCA	1e0	-5.374e-01	1.0000	15.0	23.08%	10118.9	23.56%
SeqBias: CA-repeat	CACACACACA	1e0	-5.343e-01	1.0000	64.0	98.46%	42013.1	97.83%
Tbx20(T-box)/Heart-Tbx20-ChIP-Seq(GSE29636)/Homer	GGTGYTGACAGS	1e0	-5.329e-01	1.0000	5.0	7.69%	3378.2	7.87%
SEP3(MADS)/Arabidoposis-Flower-Sep3-ChIP-Seq/Homer	CCAAAAAGGG	1e0	-5.215e-01	1.0000	34.0	52.31%	22758.6	52.99%
NRF(NRF)/Promoter/Homer	STGCGCATGCGC	1e0	-5.193e-01	1.0000	5.0	7.69%	3408.1	7.94%
Foxh1(Forkhead)/hESC-FOXH1-ChIP-Seq(GSE29422)/Homer	NNTGTGGATTSS	1e0	-5.128e-01	1.0000	13.0	20.00%	8860.3	20.63%
Bcl6(Zf)/Liver-Bcl6-ChIP-Seq(GSE31578)/Homer	NNNCTTTCCAGGAAA	1e0	-5.102e-01	1.0000	30.0	46.15%	20174.1	46.97%
Nr5a2(NR)/Pancreas-LRH1-ChIP-Seq(GSE34295)/Homer	BTCAAGGTCA	1e0	-5.003e-01	1.0000	19.0	29.23%	12924.6	30.09%
Pax7(Paired,Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCAATTA	1e0	-4.957e-01	1.0000	2.0	3.08%	1348.2	3.14%
NF1-halfsite(CTF)/LNCaP-NF1-ChIP-Seq(Unpublished)/Homer	YTGCCAAG	1e0	-4.941e-01	1.0000	40.0	61.54%	26795.8	62.39%
E-box/Drosophila-Promoters/Homer	AACAGCTGTTHN	1e0	-4.823e-01	1.0000	5.0	7.69%	3493.3	8.13%
NFAT:AP1(RHD,bZIP)/Jurkat-NFATC1-ChIP-Seq(Jolma et al.)/Homer	SARTGGAAAAWRTGAGTCAB	1e0	-4.765e-01	1.0000	4.0	6.15%	2806.5	6.53%
HOXD13(Homeobox)/Chicken-Hoxd13-ChIP-Seq(GSE38910)/Homer	NCYAATAAAA	1e0	-4.493e-01	1.0000	22.0	33.85%	15134.9	35.24%
Six1(Homeobox)/Myoblast-Six1-ChIP-Chip(GSE20150)/Homer	GKVTCADRTTWC	1e0	-4.432e-01	1.0000	5.0	7.69%	3590.7	8.36%
GSC(Homeobox)/FrogEmbryos-GSC-ChIP-Seq(DRA000576)/Homer	RGGATTAR	1e0	-4.068e-01	1.0000	22.0	33.85%	15325.7	35.69%
SeqBias: CG bias	SSSSSSSSSS	1e0	-4.008e-01	1.0000	65.0	100.00%	42682.6	99.39%
IRF1(IRF)/PBMC-IRF1-ChIP-Seq(GSE43036)/Homer	GAAAGTGAAAGT	1e0	-3.933e-01	1.0000	3.0	4.62%	2271.2	5.29%
GFY-Staf(?,Zf)/Promoter/Homer	RACTACAATTCCCAGAAKGC	1e0	-3.917e-01	1.0000	1.0	1.54%	738.6	1.72%
PHA-4(Forkhead)/cElegans-Embryos-PHA4-ChIP-Seq(modEncode)/Homer	KTGTTTGC	1e0	-3.866e-01	1.0000	46.0	70.77%	31132.0	72.49%
ERE(NR),IR3/MCF7-ERa-ChIP-Seq(Unpublished)/Homer	VAGGTCACNSTGACC	1e0	-3.823e-01	1.0000	6.0	9.23%	4473.9	10.42%
NRF1(NRF)/MCF7-NRF1-ChIP-Seq(Unpublished)/Homer	CTGCGCATGCGC	1e0	-3.775e-01	1.0000	4.0	6.15%	3046.8	7.09%
GRHL2(CP2)/HBE-GRHL2-ChIP-Seq(GSE46194)/Homer	AAACYKGTTWDACMRGTTTB	1e0	-3.641e-01	1.0000	7.0	10.77%	5245.8	12.21%
E2A(bHLH)/proBcell-E2A-ChIP-Seq(GSE21978)/Homer	DNRCAGCTGY	1e0	-3.602e-01	1.0000	40.0	61.54%	27401.3	63.80%
BMAL1(bHLH)/Liver-Bmal1-ChIP-Seq(GSE39860)/Homer	GNCACGTG	1e0	-3.451e-01	1.0000	36.0	55.38%	24885.6	57.95%
Unknown6/Drosophila-Promoters/Homer	AATTTTAAAA	1e0	-3.377e-01	1.0000	19.0	29.23%	13649.7	31.78%
AP-2gamma(AP2)/MCF7-TFAP2C-ChIP-Seq(GSE21234)/Homer	SCCTSAGGSCAW	1e0	-3.152e-01	1.0000	33.0	50.77%	23094.2	53.77%
Tbet(T-box)/CD8-Tbet-ChIP-Seq(GSE33802)/Homer	AGGTGTGAAM	1e0	-2.904e-01	1.0000	20.0	30.77%	14590.0	33.97%
GATA(Zf),IR3/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NNNNNBAGATAWYATCTVHN	1e0	-2.888e-01	1.0000	2.0	3.08%	1753.4	4.08%
Hoxc9(Homeobox)/Ainv15-Hoxc9-ChIP-Seq(GSE21812)/Homer	GGCCATAAATCA	1e0	-2.843e-01	1.0000	9.0	13.85%	6998.1	16.29%
Nur77(NR)/K562-NR4A1-ChIP-Seq(GSE31363)/Homer	TGACCTTTNCNT	1e0	-2.761e-01	1.0000	3.0	4.62%	2589.0	6.03%
ISRE(IRF)/ThioMac-LPS-Expression(GSE23622)/Homer	AGTTTCASTTTC	1e0	-2.738e-01	1.0000	1.0	1.54%	934.9	2.18%
Unknown3/Drosophila-Promoters/Homer	ACVAKCTGGCAGCGC	1e0	-2.654e-01	1.0000	2.0	3.08%	1817.1	4.23%
SpiB(ETS)/OCILY3-SPIB-ChIP-Seq(GSE56857)/Homer	AAAGRGGAAGTG	1e0	-2.608e-01	1.0000	5.0	7.69%	4180.8	9.73%
ETS:RUNX(ETS,Runt)/Jurkat-RUNX1-ChIP-Seq(GSE17954)/Homer	RCAGGATGTGGT	1e0	-2.518e-01	1.0000	3.0	4.62%	2671.3	6.22%
NFAT(RHD)/Jurkat-NFATC1-ChIP-Seq(Jolma et al.)/Homer	ATTTTCCATT	1e0	-2.507e-01	1.0000	20.0	30.77%	14840.4	34.56%
HOXA9(Homeobox)/HSC-Hoxa9-ChIP-Seq(GSE33509)/Homer	GGCCATAAATCA	1e0	-2.477e-01	1.0000	12.0	18.46%	9323.3	21.71%
Egr2(Zf)/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer	NGCGTGGGCGGR	1e0	-2.441e-01	1.0000	6.0	9.23%	5004.3	11.65%
PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer	ADGGYAGYAGCATCT	1e0	-2.413e-01	1.0000	10.0	15.38%	7938.1	18.48%
ZBTB33(Zf)/GM12878-ZBTB33-ChIP-Seq(GSE32465)/Homer	GGVTCTCGCGAGAAC	1e0	-2.402e-01	1.0000	1.0	1.54%	1008.7	2.35%
Ap4(bHLH)/AML-Tfap4-ChIP-Seq(GSE45738)/Homer	NAHCAGCTGD	1e0	-2.102e-01	1.0000	29.0	44.62%	21173.9	49.30%
THRa(NR)/C17.2-THRa-ChIP-Seq(GSE38347)/Homer	GGTCANYTGAGGWCA	1e0	-2.040e-01	1.0000	10.0	15.38%	8166.9	19.02%
Unknown4/Drosophila-Promoters/Homer	AAAAATACCRMA	1e0	-1.990e-01	1.0000	2.0	3.08%	2035.5	4.74%
RLR1?/SacCer-Promoters/Homer	WTTTTCYYTTTT	1e0	-1.985e-01	1.0000	25.0	38.46%	18606.2	43.32%
IRF4(IRF)/GM12878-IRF4-ChIP-Seq(GSE32465)/Homer	ACTGAAACCA	1e0	-1.977e-01	1.0000	8.0	12.31%	6743.7	15.70%
Chop(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	ATTGCATCAT	1e0	-1.960e-01	1.0000	3.0	4.62%	2892.1	6.73%
Hnf1(Homeobox)/Liver-Foxa2-Chip-Seq(GSE25694)/Homer	GGTTAAWCATTAA	1e0	-1.938e-01	1.0000	2.0	3.08%	2055.2	4.79%
Pitx1(Homeobox)/Chicken-Pitx1-ChIP-Seq(GSE38910)/Homer	TAATCCCN	1e0	-1.819e-01	1.0000	55.0	84.62%	37689.0	87.76%
HRE(HSF)/Striatum-HSF1-ChIP-Seq(GSE38000)/Homer	TTCTAGAABNTTCTA	1e0	-1.645e-01	1.0000	4.0	6.15%	3870.6	9.01%
PR(NR)/T47D-PR-ChIP-Seq(GSE31130)/Homer	VAGRACAKNCTGTBC	1e0	-1.642e-01	1.0000	36.0	55.38%	26135.4	60.86%
Gata1(Zf)/K562-GATA1-ChIP-Seq(GSE18829)/Homer	SAGATAAGRV	1e0	-1.580e-01	1.0000	9.0	13.85%	7763.3	18.08%
HOXA2(Homeobox)/mES-Hoxa2-ChIP-Seq(Donaldson et al.)/Homer	GYCATCMATCAT	1e0	-1.569e-01	1.0000	1.0	1.54%	1256.8	2.93%
TOD6?/SacCer-Promoters/Homer	GCGATGAGMT	1e0	-1.544e-01	1.0000	3.0	4.62%	3100.4	7.22%
ABF1/SacCer-Promoters/Homer	CGTRNAAARTGA	1e0	-1.480e-01	1.0000	4.0	6.15%	3971.4	9.25%
Gata2(Zf)/K562-GATA2-ChIP-Seq(GSE18829)/Homer	BBCTTATCTS	1e0	-1.452e-01	1.0000	10.0	15.38%	8610.1	20.05%
Unknown1/Arabidopsis-Promoters/Homer	RGGGTAWWWTHGTAA	1e0	-1.388e-01	1.0000	1.0	1.54%	1329.6	3.10%
SUT1?/SacCer-Promoters/Homer	CCCCGCGC	1e0	-1.384e-01	1.0000	63.0	96.92%	42122.1	98.08%
FOXA1:AR(Forkhead,NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	AGTAAACAAAAAAGAACAND	1e0	-1.372e-01	1.0000	1.0	1.54%	1336.2	3.11%
TATA-Box(TBP)/Promoter/Homer	CCTTTTAWAGSC	1e0	-1.225e-01	1.0000	29.0	44.62%	22022.5	51.28%
RUNX(Runt)/HPC7-Runx1-ChIP-Seq(GSE22178)/Homer	SAAACCACAG	1e0	-1.220e-01	1.0000	14.0	21.54%	11746.4	27.35%
Hoxb4(Homeobox)/ES-Hoxb4-ChIP-Seq(GSE34014)/Homer	TGATTRATGGCY	1e0	-1.218e-01	1.0000	2.0	3.08%	2405.6	5.60%
EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer	NWGGGTGTGGCY	1e0	-1.173e-01	1.0000	5.0	7.69%	5013.1	11.67%
bZIP:IRF(bZIP,IRF)/Th17-BatF-ChIP-Seq(GSE39756)/Homer	NAGTTTCABTHTGACTNW	1e0	-1.093e-01	1.0000	7.0	10.77%	6676.1	15.55%
SCL(bHLH)/HPC7-Scl-ChIP-Seq(GSE13511)/Homer	AVCAGCTG	1e0	-9.850e-02	1.0000	60.0	92.31%	40870.6	95.17%
GATA3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATAASR	1e0	-9.624e-02	1.0000	22.0	33.85%	17673.9	41.15%
Tcf12(bHLH)/GM12878-Tcf12-ChIP-Seq(GSE32465)/Homer	VCAGCTGYTG	1e0	-9.502e-02	1.0000	26.0	40.00%	20396.5	47.49%
FHY3(FAR1)/Arabidopsis-FHY3-ChIP-Seq(GSE30711)/Homer	HHCACGCGCBTN	1e0	-9.498e-02	1.0000	7.0	10.77%	6830.2	15.90%
MyoG(bHLH)/C2C12-MyoG-ChIP-Seq(GSE36024)/Homer	AACAGCTG	1e0	-8.975e-02	1.0000	26.0	40.00%	20476.1	47.68%
Oct4:Sox17(POU,Homeobox,HMG)/F9-Sox17-ChIP-Seq(GSE44553)/Homer	CCATTGTATGCAAAT	1e0	-8.079e-02	1.0000	1.0	1.54%	1656.1	3.86%
Gata4(Zf)/Heart-Gata4-ChIP-Seq(GSE35151)/Homer	NBWGATAAGR	1e0	-6.936e-02	1.0000	15.0	23.08%	13202.7	30.74%
Pax8(Paired,Homeobox)/Thyroid-Pax8-ChIP-Seq(GSE26938)/Homer	GTCATGCHTGRCTGS	1e0	-6.761e-02	1.0000	6.0	9.23%	6382.7	14.86%
ZNF711(Zf)/SHSY5Y-ZNF711-ChIP-Seq(GSE20673)/Homer	AGGCCTAG	1e0	-6.709e-02	1.0000	43.0	66.15%	31688.5	73.79%
ZFX(Zf)/mES-Zfx-ChIP-Seq(GSE11431)/Homer	AGGCCTRG	1e0	-6.604e-02	1.0000	30.0	46.15%	23535.6	54.80%
AP-2alpha(AP2)/Hela-AP2alpha-ChIP-Seq(GSE31477)/Homer	ATGCCCTGAGGC	1e0	-6.534e-02	1.0000	24.0	36.92%	19560.7	45.55%
HIF-1a(bHLH)/MCF7-HIF1a-ChIP-Seq(GSE28352)/Homer	TACGTGCV	1e0	-6.404e-02	1.0000	5.0	7.69%	5603.1	13.05%
Smad4(MAD)/ESC-SMAD4-ChIP-Seq(GSE29422)/Homer	VBSYGTCTGG	1e0	-5.996e-02	1.0000	35.0	53.85%	26874.2	62.58%
PQM-1(?)/cElegans-L3-ChIP-Seq(modEncode)/Homer	ACTGATAAGA	1e0	-5.352e-02	1.0000	4.0	6.15%	4901.7	11.41%
Nanog(Homeobox)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	RGCCATTAAC	1e0	-5.175e-02	1.0000	53.0	81.54%	37676.1	87.73%
RORgt(NR)/EL4-RORgt.Flag-ChIP-Seq(GSE56019)/Homer	AAYTAGGTCA	1e0	-4.888e-02	1.0000	1.0	1.54%	1964.4	4.57%
PRDM14(Zf)/H1-PRDM14-ChIP-Seq(GSE22767)/Homer	RGGTCTCTAACY	1e0	-4.659e-02	1.0000	5.0	7.69%	5900.1	13.74%
Olig2(bHLH)/Neuron-Olig2-ChIP-Seq(GSE30882)/Homer	RCCATMTGTT	1e0	-4.624e-02	1.0000	39.0	60.00%	29672.9	69.09%
Pit1(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGMATATDC	1e0	-4.618e-02	1.0000	13.0	20.00%	12228.0	28.47%
PAX5(Paired,Homeobox),condensed/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GTCACGCTCSCTGM	1e0	-4.529e-02	1.0000	1.0	1.54%	2011.3	4.68%
Unknown2/Drosophila-Promoters/Homer	CATCMCTA	1e0	-3.874e-02	1.0000	26.0	40.00%	21562.5	50.21%
PPARE(NR),DR1/3T3L1-Pparg-ChIP-Seq(GSE13511)/Homer	TGACCTTTGCCCCA	1e0	-2.923e-02	1.0000	21.0	32.31%	18495.6	43.07%
Pit1+1bp(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGCATAATTCA	1e0	-2.742e-02	1.0000	3.0	4.62%	4523.0	10.53%
Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer	SCCTAGCAACAG	1e0	-2.584e-02	1.0000	8.0	12.31%	8972.7	20.89%
PAX3:FKHR-fusion(Paired,Homeobox)/Rh4-PAX3:FKHR-ChIP-Seq(GSE19063)/Homer	ACCRTGACTAATTNN	1e0	-2.505e-02	1.0000	1.0	1.54%	2376.9	5.53%
SeqBias: GA-repeat	GAGAGAGAGA	1e0	-2.474e-02	1.0000	64.0	98.46%	42787.6	99.63%
HIF2a(bHLH)/785_O-HIF2a-ChIP-Seq(GSE34871)/Homer	GCACGTACCC	1e0	-1.855e-02	1.0000	6.0	9.23%	7601.3	17.70%
ARE(NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	RGRACASNSTGTYCYB	1e0	-1.778e-02	1.0000	2.0	3.08%	3804.3	8.86%
ELT-3(Gata)/cElegans-L1-ELT3-ChIP-Seq(modEncode)/Homer	AWTGATAAGA	1e0	-1.571e-02	1.0000	4.0	6.15%	5931.8	13.81%
SeqBias: polyA-repeat	AAAAAAAAAA	1e0	-1.514e-02	1.0000	65.0	100.00%	42936.6	99.98%
RUNX1(Runt)/Jurkat-RUNX1-ChIP-Seq(GSE29180)/Homer	AAACCACARM	1e0	-1.452e-02	1.0000	22.0	33.85%	19954.4	46.46%
Unknown5/Drosophila-Promoters/Homer	GCTGATAASV	1e0	-1.273e-02	1.0000	7.0	10.77%	8798.5	20.49%
RXR(NR),DR1/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer	TAGGGCAAAGGTCA	1e0	-9.526e-03	1.0000	25.0	38.46%	22416.6	52.20%
Unknown-ESC-element(?)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	CACAGCAGGGGG	1e0	-8.632e-03	1.0000	12.0	18.46%	13212.3	30.76%
SeqBias: C/A-bias	MMMMMMMMMM	1e0	-7.568e-03	1.0000	65.0	100.00%	42941.1	99.99%
SeqBias: GCW-triplet	GCWGCWGCWGCW	1e0	-7.568e-03	1.0000	65.0	100.00%	42941.1	99.99%
SeqBias: polyC-repeat	CCCCCCCCCC	1e0	-6.054e-03	1.0000	65.0	100.00%	42942.3	99.99%
SeqBias: G/A bias	RRRRRRRRRR	1e0	-6.054e-03	1.0000	65.0	100.00%	42942.3	99.99%
 Ik-1	NHTTGGGAATRCC	1e0	-6.054e-03	1.0000	65.0	100.00%	42942.3	99.99%
RUNX2(Runt)/PCa-RUNX2-ChIP-Seq(GSE33889)/Homer	NWAACCACADNN	1e0	-5.282e-03	1.0000	19.0	29.23%	18860.9	43.92%
Erra(NR)/HepG2-Erra-ChIP-Seq(GSE31477)/Homer	CAAAGGTCAG	1e0	-2.984e-03	1.0000	40.0	61.54%	32661.6	76.05%
Reverb(NR),DR2/RAW-Reverba.biotin-ChIP-Seq(GSE45914)/Homer	GTRGGTCASTGGGTCA	1e0	-2.838e-03	1.0000	1.0	1.54%	3706.2	8.63%
RUNX-AML(Runt)/CD4+-PolII-ChIP-Seq(Barski et al.)/Homer	GCTGTGGTTW	1e0	-1.750e-04	1.0000	15.0	23.08%	18701.3	43.55%
EBNA1(EBV virus)/Raji-EBNA1-ChIP-Seq(GSE30709)/Homer	GGYAGCAYDTGCTDCCCNNN	1e0	0.000e+00	1.0000	0.0	0.00%	273.4	0.64%
ETS:E-box(ETS,bHLH)/HPC7-Scl-ChIP-Seq(GSE22178)/Homer	AGGAARCAGCTG	1e0	0.000e+00	1.0000	0.0	0.00%	1464.6	3.41%
GATA3(Zf),DR8/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATSTNDNNDSAGATAASN	1e0	0.000e+00	1.0000	0.0	0.00%	913.0	2.13%
GFX(?)/Promoter/Homer	ATTCTCGCGAGA	1e0	0.000e+00	1.0000	0.0	0.00%	326.1	0.76%
GRE(NR),IR3/A549-GR-ChIP-Seq(GSE32465)/Homer	NRGVACABNVTGTYCY	1e0	0.000e+00	1.0000	0.0	0.00%	2086.7	4.86%
GRE(NR),IR3/RAW264.7-GRE-ChIP-Seq(Unpublished)/Homer	VAGRACAKWCTGTYC	1e0	0.000e+00	1.0000	0.0	0.00%	3238.3	7.54%
NF1:FOXA1(CTF,Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WNTGTTTRYTTTGGCA	1e0	0.000e+00	1.0000	0.0	0.00%	791.0	1.84%
p53(p53)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	ACATGCCCGGGCAT	1e0	0.000e+00	1.0000	0.0	0.00%	252.8	0.59%
Pax7(Paired,Homeobox),longest/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	NTAATTDGCYAATTANNWWD	1e0	0.000e+00	1.0000	0.0	0.00%	473.2	1.10%
REST-NRSF(Zf)/Jurkat-NRSF-ChIP-Seq/Homer	GGMGCTGTCCATGGTGCTGA	1e0	0.000e+00	1.0000	0.0	0.00%	173.1	0.40%
T1ISRE(IRF)/ThioMac-Ifnb-Expression/Homer	ACTTTCGTTTCT	1e0	0.000e+00	1.0000	0.0	0.00%	180.5	0.42%
YY1(Zf)/Promoter/Homer	CAAGATGGCGGC	1e0	0.000e+00	1.0000	0.0	0.00%	1117.2	2.60%
DREF/Drosophila-Promoters/Homer	AVYTATCGATAD	1e0	0.000e+00	1.0000	0.0	0.00%	168.9	0.39%
TATA-box/Drosophila-Promoters/Homer	CTATAAAAGCSV	1e0	0.000e+00	1.0000	0.0	0.00%	1056.7	2.46%
Unknown2/Arabidopsis-Promoters/Homer	AAACGACGTCGTTTT	1e0	0.000e+00	1.0000	0.0	0.00%	107.8	0.25%
LIN-15B(Zf)/cElegans-L3-LIN15B-ChIP-Seq(modEncode)/Homer	CARTGGAGCGCRYTTGCATT	1e0	0.000e+00	1.0000	0.0	0.00%	75.9	0.18%