Motif Name	Consensus	P-value	Log P-value	q-value (Benjamini)	# of Target Sequences with Motif(of 27165)	% of Target Sequences with Motif	# of Background Sequences with Motif(of 27235)	% of Background Sequences with Motif
Sp1(Zf)/Promoter/Homer	GGCCCCGCCCCC	1e-10	-2.448e+01	0.0000	690.0	2.54%	533.8	1.96%
Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer	GGGGGGGG	1e-8	-2.013e+01	0.0000	4368.0	16.06%	4023.0	14.78%
Reverb(NR),DR2/RAW-Reverba.biotin-ChIP-Seq(GSE45914)/Homer	GTRGGTCASTGGGTCA	1e-8	-2.011e+01	0.0000	880.0	3.24%	719.6	2.64%
Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq(GSE22178)/Homer	MAATCACTGC	1e-4	-9.787e+00	0.0037	5188.0	19.08%	4945.4	18.17%
Srebp1a(bHLH)/HepG2-Srebp1a-ChIP-Seq(GSE31477)/Homer	RTCACSCCAY	1e-3	-8.815e+00	0.0078	1712.0	6.30%	1572.6	5.78%
Srebp2(bHLH)/HepG2-Srebp2-ChIP-Seq(GSE31477)/Homer	CGGTCACSCCAC	1e-3	-7.172e+00	0.0338	1308.0	4.81%	1200.9	4.41%
GATA3(Zf),DR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATGKDGAGATAAG	1e-3	-6.953e+00	0.0360	634.0	2.33%	561.0	2.06%
Unknown(Homeobox)/Limb-p300-ChIP-Seq/Homer	SSCMATWAAA	1e-2	-6.737e+00	0.0392	4853.0	17.85%	4667.8	17.15%
PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	MGGAAGTGAAAC	1e-2	-6.361e+00	0.0507	7271.0	26.74%	7065.7	25.96%
Nkx2.1(Homeobox)/LungAC-Nkx2.1-ChIP-Seq(GSE43252)/Homer	RSCACTYRAG	1e-2	-5.531e+00	0.1046	15688.0	57.69%	15485.7	56.89%
Usf2(bHLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer	GTCACGTGGT	1e-2	-5.268e+00	0.1237	1836.0	6.75%	1733.1	6.37%
Pdx1(Homeobox)/Islet-Pdx1-ChIP-Seq(SRA008281)/Homer	YCATYAATCA	1e-2	-4.877e+00	0.1677	6355.0	23.37%	6192.5	22.75%
NFY(CCAAT)/Promoter/Homer	RGCCAATSRG	1e-1	-4.432e+00	0.2416	3874.0	14.25%	3748.5	13.77%
Nkx3.1(Homeobox)/LNCaP-Nkx3.1-ChIP-Seq(GSE28264)/Homer	AAGCACTTAA	1e-1	-3.646e+00	0.4921	13850.0	50.93%	13702.0	50.34%
Ets1-distal(ETS)/CD4+-PolII-ChIP-Seq(Barski et al.)/Homer	MACAGGAAGT	1e-1	-3.621e+00	0.4921	1218.0	4.48%	1154.1	4.24%
p63(p53)/Keratinocyte-p63-ChIP-Seq(GSE17611)/Homer	NNDRCATGYCYNRRCATGYH	1e-1	-3.597e+00	0.4921	1630.0	5.99%	1557.5	5.72%
Gata1(Zf)/K562-GATA1-ChIP-Seq(GSE18829)/Homer	SAGATAAGRV	1e-1	-3.511e+00	0.4921	3308.0	12.16%	3210.5	11.79%
KLF5(Zf)/LoVo-KLF5-ChIP-Seq(GSE49402)/Homer	DGGGYGKGGC	1e-1	-3.490e+00	0.4921	5518.0	20.29%	5399.5	19.84%
Lhx2(Homeobox)/HFSC-Lhx2-ChIP-Seq(GSE48068)/Homer	TAATTAGN	1e-1	-3.404e+00	0.4921	7220.0	26.55%	7094.0	26.06%
EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer	NWGGGTGTGGCY	1e-1	-3.377e+00	0.4921	1157.0	4.25%	1098.3	4.03%
Mef2a(MADS)/HL1-Mef2a.biotin-ChIP-Seq(GSE21529)/Homer	CYAAAAATAG	1e-1	-3.357e+00	0.4921	5113.0	18.80%	5001.5	18.37%
NFkB-p50,p52(RHD)/Monocyte-p50-ChIP-Chip(Schreiber et al.)/Homer	GGGGGAATCCCC	1e-1	-3.329e+00	0.4921	384.0	1.41%	350.2	1.29%
Max(bHLH)/K562-Max-ChIP-Seq(GSE31477)/Homer	RCCACGTGGYYN	1e-1	-3.304e+00	0.4921	2974.0	10.94%	2885.9	10.60%
Bach1(bZIP)/K562-Bach1-ChIP-Seq(GSE31477)/Homer	AWWNTGCTGAGTCAT	1e-1	-3.157e+00	0.4921	227.0	0.83%	202.9	0.75%
Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer	GCCACACCCA	1e-1	-3.030e+00	0.5100	2044.0	7.52%	1974.0	7.25%
Pbx3(Homeobox)/GM12878-PBX3-ChIP-Seq(GSE32465)/Homer	SCTGTCAMTCAN	1e-1	-2.979e+00	0.5162	1024.0	3.77%	974.1	3.58%
Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer	TGCGTGGGYG	1e-1	-2.968e+00	0.5162	2131.0	7.84%	2061.6	7.57%
Sox4(HMG)/proB-Sox4-ChIP-Seq(GSE50066)/Homer	YCTTTGTTCC	1e-1	-2.888e+00	0.5252	4587.0	16.87%	4494.0	16.51%
Erra(NR)/HepG2-Erra-ChIP-Seq(GSE31477)/Homer	CAAAGGTCAG	1e-1	-2.487e+00	0.7569	10593.0	38.95%	10491.1	38.54%
AP-2alpha(AP2)/Hela-AP2alpha-ChIP-Seq(GSE31477)/Homer	ATGCCCTGAGGC	1e-1	-2.422e+00	0.7810	2805.0	10.31%	2740.8	10.07%
PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer	ADGGYAGYAGCATCT	1e-1	-2.376e+00	0.7914	1764.0	6.49%	1712.9	6.29%
HOXA2(Homeobox)/mES-Hoxa2-ChIP-Seq(Donaldson et al.)/Homer	GYCATCMATCAT	1e-1	-2.369e+00	0.7914	592.0	2.18%	561.8	2.06%
HIF2a(bHLH)/785_O-HIF2a-ChIP-Seq(GSE34871)/Homer	GCACGTACCC	1e-1	-2.362e+00	0.7914	1242.0	4.57%	1199.0	4.40%
Nrf2(bZIP)/Lymphoblast-Nrf2-ChIP-Seq(GSE37589)/Homer	HTGCTGAGTCAT	1e-1	-2.346e+00	0.7914	200.0	0.74%	182.7	0.67%
GATA3(Zf),DR8/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATSTNDNNDSAGATAASN	1e-1	-2.306e+00	0.7914	436.0	1.60%	410.5	1.51%
GATA(Zf),IR3/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NNNNNBAGATAWYATCTVHN	1e0	-2.268e+00	0.7914	1230.0	4.52%	1188.4	4.37%
HOXA9(Homeobox)/HSC-Hoxa9-ChIP-Seq(GSE33509)/Homer	GGCCATAAATCA	1e0	-2.161e+00	0.8219	4414.0	16.23%	4345.9	15.97%
Oct4(POU,Homeobox)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAW	1e0	-2.101e+00	0.8499	3482.0	12.80%	3421.9	12.57%
c-Jun-CRE(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	ATGACGTCATCY	1e0	-1.993e+00	0.9225	1956.0	7.19%	1911.4	7.02%
Gata2(Zf)/K562-GATA2-ChIP-Seq(GSE18829)/Homer	BBCTTATCTS	1e0	-1.959e+00	0.9308	3772.0	13.87%	3714.3	13.65%
RBPJ:Ebox(?,bHLH)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	GGGRAARRGRMCAGMTG	1e0	-1.929e+00	0.9357	1378.0	5.07%	1341.6	4.93%
RFX(HTH)/K562-RFX3-ChIP-Seq(SRA012198)/Homer	CGGTTGCCATGGCAAC	1e0	-1.913e+00	0.9357	213.0	0.78%	198.4	0.73%
PAX5(Paired,Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GCAGCCAAGCRTGACH	1e0	-1.909e+00	0.9357	1778.0	6.54%	1737.9	6.38%
Mef2c(MADS)/GM12878-Mef2c-ChIP-Seq(GSE32465)/Homer	DCYAAAAATAGM	1e0	-1.832e+00	0.9601	5766.0	21.20%	5704.7	20.96%
ETS:RUNX(ETS,Runt)/Jurkat-RUNX1-ChIP-Seq(GSE17954)/Homer	RCAGGATGTGGT	1e0	-1.794e+00	0.9753	361.0	1.33%	343.2	1.26%
NF-E2(bZIP)/K562-NFE2-ChIP-Seq(GSE31477)/Homer	GATGACTCAGCA	1e0	-1.742e+00	1.0000	232.0	0.85%	218.9	0.80%
VDR(NR),DR3/GM10855-VDR+vitD-ChIP-Seq(GSE22484)/Homer	ARAGGTCANWGAGTTCANNN	1e0	-1.733e+00	1.0000	926.0	3.41%	899.9	3.31%
GFX(?)/Promoter/Homer	ATTCTCGCGAGA	1e0	-1.664e+00	1.0000	32.0	0.12%	27.6	0.10%
STAT5(Stat)/mCD4+-Stat5-ChIP-Seq(GSE12346)/Homer	RTTTCTNAGAAA	1e0	-1.643e+00	1.0000	1801.0	6.62%	1768.0	6.50%
TEAD2(TEA)/Py2T-Tead2-ChIP-Seq(GSE55709)/Homer	CCWGGAATGY	1e0	-1.613e+00	1.0000	2987.0	10.98%	2946.9	10.83%
Pax7(Paired,Homeobox),long/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCHGATTAC	1e0	-1.512e+00	1.0000	207.0	0.76%	196.7	0.72%
Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer	GTTGCCATGGCAACM	1e0	-1.492e+00	1.0000	258.0	0.95%	246.1	0.90%
RORgt(NR)/EL4-RORgt.Flag-ChIP-Seq(GSE56019)/Homer	AAYTAGGTCA	1e0	-1.474e+00	1.0000	630.0	2.32%	612.2	2.25%
NPAS2(bHLH)/Liver-NPAS2-ChIP-Seq(GSE39860)/Homer	KCCACGTGAC	1e0	-1.468e+00	1.0000	5864.0	21.56%	5819.1	21.38%
Esrrb(NR)/mES-Esrrb-ChIP-Seq(GSE11431)/Homer	KTGACCTTGA	1e0	-1.432e+00	1.0000	3185.0	11.71%	3150.8	11.58%
BMAL1(bHLH)/Liver-Bmal1-ChIP-Seq(GSE39860)/Homer	GNCACGTG	1e0	-1.429e+00	1.0000	8841.0	32.51%	8794.4	32.31%
Brachyury(T-box)/Mesoendoderm-Brachyury-ChIP-exo(GSE54963)/Homer	ANTTMRCASBNNNGTGYKAAN	1e0	-1.403e+00	1.0000	1537.0	5.65%	1512.5	5.56%
CEBP(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	ATTGCGCAAC	1e0	-1.401e+00	1.0000	5183.0	19.06%	5143.6	18.90%
MITF(bHLH)/MastCells-MITF-ChIP-Seq(GSE48085)/Homer	RTCATGTGAC	1e0	-1.386e+00	1.0000	4319.0	15.88%	4282.8	15.73%
PAX5(Paired,Homeobox),condensed/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GTCACGCTCSCTGM	1e0	-1.350e+00	1.0000	423.0	1.56%	410.7	1.51%
Meis1(Homeobox)/MastCells-Meis1-ChIP-Seq(GSE48085)/Homer	VGCTGWCAVB	1e0	-1.340e+00	1.0000	8014.0	29.47%	7973.7	29.29%
FOXA1:AR(Forkhead,NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	AGTAAACAAAAAAGAACAND	1e0	-1.307e+00	1.0000	648.0	2.38%	633.8	2.33%
Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer	SCCTAGCAACAG	1e0	-1.299e+00	1.0000	1403.0	5.16%	1382.8	5.08%
GSC(Homeobox)/FrogEmbryos-GSC-ChIP-Seq(DRA000576)/Homer	RGGATTAR	1e0	-1.295e+00	1.0000	11242.0	41.34%	11203.0	41.16%
Nkx2.5(Homeobox)/HL1-Nkx2.5.biotin-ChIP-Seq(GSE21529)/Homer	RRSCACTYAA	1e0	-1.293e+00	1.0000	12975.0	47.71%	12937.5	47.53%
T1ISRE(IRF)/ThioMac-Ifnb-Expression/Homer	ACTTTCGTTTCT	1e0	-1.286e+00	1.0000	67.0	0.25%	63.0	0.23%
MyoD(bHLH)/Myotube-MyoD-ChIP-Seq(GSE21614)/Homer	RRCAGCTGYTSY	1e0	-1.271e+00	1.0000	2572.0	9.46%	2546.5	9.35%
Pax8(Paired,Homeobox)/Thyroid-Pax8-ChIP-Seq(GSE26938)/Homer	GTCATGCHTGRCTGS	1e0	-1.224e+00	1.0000	1630.0	5.99%	1610.4	5.92%
Eomes(T-box)/H9-Eomes-ChIP-Seq(GSE26097)/Homer	ATTAACACCT	1e0	-1.172e+00	1.0000	12259.0	45.08%	12229.4	44.93%
Atf3(bZIP)/GBM-ATF3-ChIP-Seq(GSE33912)/Homer	DATGASTCATHN	1e0	-1.169e+00	1.0000	3335.0	12.26%	3311.7	12.17%
Sox10(HMG)/SciaticNerve-Sox3-ChIP-Seq(GSE35132)/Homer	CCWTTGTYYB	1e0	-1.162e+00	1.0000	8719.0	32.06%	8689.3	31.92%
Sox3(HMG)/NPC-Sox3-ChIP-Seq(GSE33059)/Homer	CCWTTGTY	1e0	-1.147e+00	1.0000	9591.0	35.27%	9562.1	35.13%
n-Myc(bHLH)/mES-nMyc-ChIP-Seq(GSE11431)/Homer	VRCCACGTGG	1e0	-1.135e+00	1.0000	2798.0	10.29%	2777.6	10.20%
HNF6(Homeobox)/Liver-Hnf6-ChIP-Seq(ERP000394)/Homer	NTATYGATCH	1e0	-1.135e+00	1.0000	3619.0	13.31%	3596.5	13.21%
GATA3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATAASR	1e0	-1.132e+00	1.0000	9503.0	34.94%	9475.4	34.81%
GABPA(ETS)/Jurkat-GABPa-ChIP-Seq(GSE17954)/Homer	RACCGGAAGT	1e0	-1.104e+00	1.0000	3411.0	12.54%	3390.7	12.46%
ZNF143|STAF(Zf)/CUTLL-ZNF143-ChIP-Seq(GSE29600)/Homer	ATTTCCCAGVAKSCY	1e0	-1.093e+00	1.0000	1509.0	5.55%	1494.9	5.49%
ELF1(ETS)/Jurkat-ELF1-ChIP-Seq(SRA014231)/Homer	AVCCGGAAGT	1e0	-1.069e+00	1.0000	1471.0	5.41%	1457.9	5.36%
PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer	GSCTGTCACTCA	1e0	-1.050e+00	1.0000	335.0	1.23%	328.3	1.21%
Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo et al.)/Homer	TBGCACGCAA	1e0	-1.028e+00	1.0000	2318.0	8.52%	2303.6	8.46%
Oct4:Sox17(POU,Homeobox,HMG)/F9-Sox17-ChIP-Seq(GSE44553)/Homer	CCATTGTATGCAAAT	1e0	-1.009e+00	1.0000	965.0	3.55%	955.2	3.51%
Pit1(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGMATATDC	1e0	-9.942e-01	1.0000	7629.0	28.05%	7611.5	27.96%
GATA:SCL(Zf,bHLH)/Ter119-SCL-ChIP-Seq(GSE18720)/Homer	CRGCTGBNGNSNNSAGATAA	1e0	-9.746e-01	1.0000	539.0	1.98%	532.4	1.96%
Nkx6.1(Homeobox)/Islet-Nkx6.1-ChIP-Seq(GSE40975)/Homer	GKTAATGR	1e0	-9.517e-01	1.0000	15445.0	56.79%	15436.0	56.71%
ZNF711(Zf)/SHSY5Y-ZNF711-ChIP-Seq(GSE20673)/Homer	AGGCCTAG	1e0	-9.399e-01	1.0000	7423.0	27.30%	7409.8	27.22%
Gata4(Zf)/Heart-Gata4-ChIP-Seq(GSE35151)/Homer	NBWGATAAGR	1e0	-9.274e-01	1.0000	5995.0	22.04%	5983.0	21.98%
Tcf3(HMG)/mES-Tcf3-ChIP-Seq(GSE11724)/Homer	ASWTCAAAGG	1e0	-9.147e-01	1.0000	1301.0	4.78%	1293.3	4.75%
TCFL2(HMG)/K562-TCF7L2-ChIP-Seq(GSE29196)/Homer	ACWTCAAAGG	1e0	-8.772e-01	1.0000	361.0	1.33%	357.7	1.31%
ERE(NR),IR3/MCF7-ERa-ChIP-Seq(Unpublished)/Homer	VAGGTCACNSTGACC	1e0	-8.718e-01	1.0000	1082.0	3.98%	1076.7	3.96%
HIF-1b(HLH)/T47D-HIF1b-ChIP-Seq(GSE59937)/Homer	RTACGTGC	1e0	-8.585e-01	1.0000	4314.0	15.86%	4306.9	15.82%
AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	VTGACTCATC	1e0	-8.447e-01	1.0000	3709.0	13.64%	3702.8	13.60%
E2A(bHLH)/proBcell-E2A-ChIP-Seq(GSE21978)/Homer	DNRCAGCTGY	1e0	-7.237e-01	1.0000	7891.0	29.02%	7895.2	29.00%
Sox2(HMG)/mES-Sox2-ChIP-Seq(GSE11431)/Homer	BCCATTGTTC	1e0	-7.071e-01	1.0000	4893.0	17.99%	4896.5	17.99%
Pax7(Paired,Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCAATTA	1e0	-7.036e-01	1.0000	759.0	2.79%	759.2	2.79%
BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer	DATGASTCAT	1e0	-7.030e-01	1.0000	3303.0	12.15%	3305.2	12.14%
HOXD13(Homeobox)/Chicken-Hoxd13-ChIP-Seq(GSE38910)/Homer	NCYAATAAAA	1e0	-6.769e-01	1.0000	8555.0	31.46%	8564.7	31.46%
bHLHE40(bHLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer	KCACGTGMCN	1e0	-6.626e-01	1.0000	1149.0	4.23%	1152.0	4.23%
Bach2(bZIP)/OCILy7-Bach2-ChIP-Seq(GSE44420)/Homer	TGCTGAGTCA	1e0	-6.469e-01	1.0000	775.0	2.85%	777.7	2.86%
HRE(HSF)/HepG2-HSF1-ChIP-Seq(GSE31477)/Homer	BSTTCTRGAABVTTCYAGAA	1e0	-6.328e-01	1.0000	558.0	2.05%	560.1	2.06%
AR-halfsite(NR)/LNCaP-AR-ChIP-Seq(GSE27824)/Homer	CCAGGAACAG	1e0	-6.076e-01	1.0000	15628.0	57.47%	15651.7	57.50%
ETS(ETS)/Promoter/Homer	AACCGGAAGT	1e0	-5.808e-01	1.0000	929.0	3.42%	934.5	3.43%
Tbx20(T-box)/Heart-Tbx20-ChIP-Seq(GSE29636)/Homer	GGTGYTGACAGS	1e0	-5.757e-01	1.0000	865.0	3.18%	870.2	3.20%
Fosl2(bZIP)/3T3L1-Fosl2-ChIP-Seq(GSE56872)/Homer	NATGASTCABNN	1e0	-5.681e-01	1.0000	1379.0	5.07%	1386.5	5.09%
Jun-AP1(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	GATGASTCATCN	1e0	-5.626e-01	1.0000	989.0	3.64%	995.1	3.66%
GRE(NR),IR3/A549-GR-ChIP-Seq(GSE32465)/Homer	NRGVACABNVTGTYCY	1e0	-5.597e-01	1.0000	476.0	1.75%	480.8	1.77%
CTCF-SatelliteElement(Zf?)/CD4+-CTCF-ChIP-Seq(Barski et al.)/Homer	TGCAGTTCCMVNWRTGGCCA	1e0	-5.574e-01	1.0000	49.0	0.18%	50.3	0.18%
Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer	BAACAGCTGT	1e0	-5.572e-01	1.0000	2624.0	9.65%	2635.1	9.68%
NF1(CTF)/LNCAP-NF1-ChIP-Seq(Unpublished)/Homer	CYTGGCABNSTGCCAR	1e0	-5.464e-01	1.0000	1640.0	6.03%	1649.6	6.06%
NFkB-p65(RHD)/GM12787-p65-ChIP-Seq(GSE19485)/Homer	WGGGGATTTCCC	1e0	-5.462e-01	1.0000	2324.0	8.55%	2335.2	8.58%
GFY-Staf(?,Zf)/Promoter/Homer	RACTACAATTCCCAGAAKGC	1e0	-5.418e-01	1.0000	116.0	0.43%	118.4	0.43%
EBNA1(EBV virus)/Raji-EBNA1-ChIP-Seq(GSE30709)/Homer	GGYAGCAYDTGCTDCCCNNN	1e0	-5.378e-01	1.0000	37.0	0.14%	38.1	0.14%
REST-NRSF(Zf)/Jurkat-NRSF-ChIP-Seq/Homer	GGMGCTGTCCATGGTGCTGA	1e0	-4.874e-01	1.0000	20.0	0.07%	21.9	0.08%
NFAT:AP1(RHD,bZIP)/Jurkat-NFATC1-ChIP-Seq(Jolma et al.)/Homer	SARTGGAAAAWRTGAGTCAB	1e0	-4.775e-01	1.0000	979.0	3.60%	989.2	3.63%
ZBTB33(Zf)/GM12878-ZBTB33-ChIP-Seq(GSE32465)/Homer	GGVTCTCGCGAGAAC	1e0	-4.749e-01	1.0000	53.0	0.19%	55.4	0.20%
EBF1(EBF)/Near-E2A-ChIP-Seq(GSE21512)/Homer	GTCCCCWGGGGA	1e0	-4.738e-01	1.0000	3794.0	13.95%	3815.9	14.02%
NRF(NRF)/Promoter/Homer	STGCGCATGCGC	1e0	-4.661e-01	1.0000	246.0	0.90%	251.5	0.92%
Foxh1(Forkhead)/hESC-FOXH1-ChIP-Seq(GSE29422)/Homer	NNTGTGGATTSS	1e0	-4.460e-01	1.0000	3899.0	14.34%	3923.1	14.41%
HIF-1a(bHLH)/MCF7-HIF1a-ChIP-Seq(GSE28352)/Homer	TACGTGCV	1e0	-4.323e-01	1.0000	925.0	3.40%	937.3	3.44%
FXR(NR),IR1/Liver-FXR-ChIP-Seq(Chong et al.)/Homer	AGGTCANTGACCTB	1e0	-4.066e-01	1.0000	1632.0	6.00%	1650.0	6.06%
Tcf4(HMG)/Hct116-Tcf4-ChIP-Seq(SRA012054)/Homer	ASATCAAAGGVA	1e0	-4.001e-01	1.0000	2501.0	9.20%	2524.5	9.27%
Atf2(bZIP)/3T3L1-Atf2-ChIP-Seq(GSE56872)/Homer	NRRTGACGTCAT	1e0	-3.913e-01	1.0000	1781.0	6.55%	1801.2	6.62%
NF1:FOXA1(CTF,Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WNTGTTTRYTTTGGCA	1e0	-3.761e-01	1.0000	274.0	1.01%	282.0	1.04%
RARg(NR)/ES-RARg-ChIP-Seq(GSE30538)/Homer	AGGTCAAGGTCA	1e0	-3.685e-01	1.0000	150.0	0.55%	156.5	0.57%
PRDM14(Zf)/H1-PRDM14-ChIP-Seq(GSE22767)/Homer	RGGTCTCTAACY	1e0	-3.473e-01	1.0000	1421.0	5.23%	1442.7	5.30%
Fra1(bZIP)/BT549-Fra1-ChIP-Seq(GSE46166)/Homer	NNATGASTCATH	1e0	-3.406e-01	1.0000	2754.0	10.13%	2784.7	10.23%
IRF1(IRF)/PBMC-IRF1-ChIP-Seq(GSE43036)/Homer	GAAAGTGAAAGT	1e0	-3.274e-01	1.0000	817.0	3.00%	834.9	3.07%
EHF(ETS)/LoVo-EHF-ChIP-Seq(GSE49402)/Homer	AVCAGGAAGT	1e0	-3.164e-01	1.0000	6041.0	22.21%	6088.6	22.37%
Nr5a2(NR)/Pancreas-LRH1-ChIP-Seq(GSE34295)/Homer	BTCAAGGTCA	1e0	-3.146e-01	1.0000	3150.0	11.58%	3185.1	11.70%
p53(p53)/Saos-p53-ChIP-Seq(GSE15780)/Homer	RRCATGYCYRGRCATGYYYN	1e0	-3.002e-01	1.0000	401.0	1.47%	414.5	1.52%
p53(p53)/Saos-p53-ChIP-Seq/Homer	RRCATGYCYRGRCATGYYYN	1e0	-3.002e-01	1.0000	401.0	1.47%	414.5	1.52%
Otx2(Homeobox)/EpiLC-Otx2-ChIP-Seq(GSE56098)/Homer	NYTAATCCYB	1e0	-2.995e-01	1.0000	5596.0	20.58%	5644.6	20.74%
AP-2gamma(AP2)/MCF7-TFAP2C-ChIP-Seq(GSE21234)/Homer	SCCTSAGGSCAW	1e0	-2.983e-01	1.0000	3527.0	12.97%	3566.0	13.10%
Sox6(HMG)/Myotubes-Sox6-ChIP-Seq(GSE32627)/Homer	CCATTGTTNY	1e0	-2.907e-01	1.0000	9125.0	33.55%	9185.2	33.74%
MafA(bZIP)/Islet-MafA-ChIP-Seq(GSE30298)/Homer	TGCTGACTCA	1e0	-2.690e-01	1.0000	3041.0	11.18%	3082.0	11.32%
Smad4(MAD)/ESC-SMAD4-ChIP-Seq(GSE29422)/Homer	VBSYGTCTGG	1e0	-2.654e-01	1.0000	6244.0	22.96%	6300.7	23.15%
HRE(HSF)/Striatum-HSF1-ChIP-Seq(GSE38000)/Homer	TTCTAGAABNTTCTA	1e0	-2.634e-01	1.0000	1040.0	3.82%	1064.2	3.91%
ETS:E-box(ETS,bHLH)/HPC7-Scl-ChIP-Seq(GSE22178)/Homer	AGGAARCAGCTG	1e0	-2.593e-01	1.0000	350.0	1.29%	364.3	1.34%
CRX(Homeobox)/Retina-Crx-ChIP-Seq(GSE20012)/Homer	GCTAATCC	1e0	-2.525e-01	1.0000	15809.0	58.13%	15885.4	58.36%
c-Myc(bHLH)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	VVCCACGTGG	1e0	-2.476e-01	1.0000	2117.0	7.78%	2153.4	7.91%
c-Myc(bHLH)/LNCAP-cMyc-ChIP-Seq(Unpublished)/Homer	VCCACGTG	1e0	-2.460e-01	1.0000	1351.0	4.97%	1380.9	5.07%
EBF(EBF)/proBcell-EBF-ChIP-Seq(GSE21978)/Homer	DGTCCCYRGGGA	1e0	-2.391e-01	1.0000	744.0	2.74%	766.5	2.82%
PR(NR)/T47D-PR-ChIP-Seq(GSE31130)/Homer	VAGRACAKNCTGTBC	1e0	-2.387e-01	1.0000	10314.0	37.93%	10387.6	38.16%
Tbx5(T-box)/HL1-Tbx5.biotin-ChIP-Seq(GSE21529)/Homer	AGGTGTCA	1e0	-2.384e-01	1.0000	16641.0	61.19%	16720.8	61.43%
E2A(bHLH),near_PU.1/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	NVCACCTGBN	1e0	-2.295e-01	1.0000	8339.0	30.66%	8409.6	30.89%
Egr2(Zf)/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer	NGCGTGGGCGGR	1e0	-2.267e-01	1.0000	411.0	1.51%	428.9	1.58%
TEAD4(TEA)/Tropoblast-Tead4-ChIP-Seq(GSE37350)/Homer	CCWGGAATGY	1e0	-2.223e-01	1.0000	4378.0	16.10%	4433.7	16.29%
PAX3:FKHR-fusion(Paired,Homeobox)/Rh4-PAX3:FKHR-ChIP-Seq(GSE19063)/Homer	ACCRTGACTAATTNN	1e0	-2.202e-01	1.0000	1217.0	4.48%	1247.7	4.58%
IRF4(IRF)/GM12878-IRF4-ChIP-Seq(GSE32465)/Homer	ACTGAAACCA	1e0	-2.199e-01	1.0000	2414.0	8.88%	2456.9	9.03%
Tbox:Smad(T-box,MAD)/ESCd5-Smad2_3-ChIP-Seq(GSE29422)/Homer	AGGTGHCAGACA	1e0	-2.094e-01	1.0000	850.0	3.13%	877.0	3.22%
CEBP:AP1(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	DRTGTTGCAA	1e0	-2.045e-01	1.0000	4512.0	16.59%	4571.4	16.79%
ZFX(Zf)/mES-Zfx-ChIP-Seq(GSE11431)/Homer	AGGCCTRG	1e0	-2.011e-01	1.0000	5116.0	18.81%	5179.5	19.03%
Smad3(MAD)/NPC-Smad3-ChIP-Seq(GSE36673)/Homer	TWGTCTGV	1e0	-1.990e-01	1.0000	12367.0	45.48%	12453.8	45.75%
TEAD(TEA)/Fibroblast-PU.1-ChIP-Seq(Unpublished)/Homer	YCWGGAATGY	1e0	-1.926e-01	1.0000	3987.0	14.66%	4045.9	14.86%
Hoxc9(Homeobox)/Ainv15-Hoxc9-ChIP-Seq(GSE21812)/Homer	GGCCATAAATCA	1e0	-1.881e-01	1.0000	3435.0	12.63%	3490.2	12.82%
Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer	NRYTTCCGGY	1e0	-1.880e-01	1.0000	1497.0	5.50%	1534.3	5.64%
ISRE(IRF)/ThioMac-LPS-Expression(GSE23622)/Homer	AGTTTCASTTTC	1e0	-1.869e-01	1.0000	313.0	1.15%	330.3	1.21%
Unknown-ESC-element(?)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	CACAGCAGGGGG	1e0	-1.820e-01	1.0000	2250.0	8.27%	2296.1	8.44%
GRE(NR),IR3/RAW264.7-GRE-ChIP-Seq(Unpublished)/Homer	VAGRACAKWCTGTYC	1e0	-1.785e-01	1.0000	917.0	3.37%	947.7	3.48%
Tbet(T-box)/CD8-Tbet-ChIP-Seq(GSE33802)/Homer	AGGTGTGAAM	1e0	-1.776e-01	1.0000	6738.0	24.78%	6814.3	25.03%
STAT1(Stat)/HelaS3-STAT1-ChIP-Seq(GSE12782)/Homer	NATTTCCNGGAAAT	1e0	-1.770e-01	1.0000	1627.0	5.98%	1667.0	6.12%
CEBP:CEBP(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	NTNATGCAAYMNNHTGMAAY	1e0	-1.715e-01	1.0000	1125.0	4.14%	1159.4	4.26%
Smad2(MAD)/ES-SMAD2-ChIP-Seq(GSE29422)/Homer	CTGTCTGG	1e0	-1.709e-01	1.0000	6164.0	22.67%	6239.5	22.92%
Rfx1(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	KGTTGCCATGGCAA	1e0	-1.695e-01	1.0000	750.0	2.76%	778.5	2.86%
ETV1(ETS)/GIST48-ETV1-ChIP-Seq(GSE22441)/Homer	AACCGGAAGT	1e0	-1.685e-01	1.0000	5475.0	20.13%	5547.4	20.38%
THRa(NR)/C17.2-THRa-ChIP-Seq(GSE38347)/Homer	GGTCANYTGAGGWCA	1e0	-1.677e-01	1.0000	3205.0	11.79%	3262.5	11.99%
MafK(bZIP)/C2C12-MafK-ChIP-Seq(GSE36030)/Homer	GCTGASTCAGCA	1e0	-1.487e-01	1.0000	901.0	3.31%	934.2	3.43%
Rbpj1(?)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	HTTTCCCASG	1e0	-1.447e-01	1.0000	7022.0	25.82%	7108.7	26.12%
YY1(Zf)/Promoter/Homer	CAAGATGGCGGC	1e0	-1.440e-01	1.0000	230.0	0.85%	247.6	0.91%
ELF5(ETS)/T47D-ELF5-ChIP-Seq(GSE30407)/Homer	ACVAGGAAGT	1e0	-1.414e-01	1.0000	3390.0	12.47%	3454.8	12.69%
GRHL2(CP2)/HBE-GRHL2-ChIP-Seq(GSE46194)/Homer	AAACYKGTTWDACMRGTTTB	1e0	-1.403e-01	1.0000	1903.0	7.00%	1952.2	7.17%
ARE(NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	RGRACASNSTGTYCYB	1e0	-1.323e-01	1.0000	952.0	3.50%	988.5	3.63%
E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer	GGCGGGAARN	1e0	-1.321e-01	1.0000	1239.0	4.56%	1280.3	4.70%
TATA-Box(TBP)/Promoter/Homer	CCTTTTAWAGSC	1e0	-1.313e-01	1.0000	7676.0	28.23%	7770.0	28.54%
Stat3(Stat)/mES-Stat3-ChIP-Seq(GSE11431)/Homer	CTTCCGGGAA	1e0	-1.309e-01	1.0000	2007.0	7.38%	2059.6	7.57%
Cdx2(Homeobox)/mES-Cdx2-ChIP-Seq(GSE14586)/Homer	GYMATAAAAH	1e0	-1.302e-01	1.0000	5641.0	20.74%	5724.4	21.03%
OCT4-SOX2-TCF-NANOG(POU,Homeobox,HMG)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAACAATG	1e0	-1.281e-01	1.0000	1390.0	5.11%	1434.9	5.27%
Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer	HACTTCCGGY	1e0	-1.248e-01	1.0000	1485.0	5.46%	1531.2	5.63%
Phox2a(Homeobox)/Neuron-Phox2a-ChIP-Seq(GSE31456)/Homer	YTAATYNRATTA	1e0	-1.151e-01	1.0000	3352.0	12.33%	3422.3	12.57%
CLOCK(bHLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer	GHCACGTG	1e0	-1.122e-01	1.0000	2182.0	8.02%	2240.2	8.23%
Olig2(bHLH)/Neuron-Olig2-ChIP-Seq(GSE30882)/Homer	RCCATMTGTT	1e0	-1.122e-01	1.0000	9319.0	34.27%	9425.6	34.63%
X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	GGTTGCCATGGCAA	1e0	-1.028e-01	1.0000	391.0	1.44%	417.6	1.53%
USF1(bHLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer	SGTCACGTGR	1e0	-1.004e-01	1.0000	1704.0	6.27%	1758.2	6.46%
NRF1(NRF)/MCF7-NRF1-ChIP-Seq(Unpublished)/Homer	CTGCGCATGCGC	1e0	-9.416e-02	1.0000	76.0	0.28%	88.5	0.33%
Pax7(Paired,Homeobox),longest/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	NTAATTDGCYAATTANNWWD	1e0	-9.296e-02	1.0000	306.0	1.13%	330.8	1.22%
E2F(E2F)/Hela-CellCycle-Expression/Homer	TTSGCGCGAAAA	1e0	-9.128e-02	1.0000	62.0	0.23%	73.4	0.27%
Fox:Ebox(Forkhead,bHLH)/Panc1-Foxa2-ChIP-Seq(GSE47459)/Homer	NNNVCTGWGYAAACASN	1e0	-9.120e-02	1.0000	5209.0	19.15%	5302.3	19.48%
CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski et al.)/Homer	AYAGTGCCMYCTRGTGGCCA	1e0	-9.060e-02	1.0000	275.0	1.01%	298.1	1.10%
Hoxb4(Homeobox)/ES-Hoxb4-ChIP-Seq(GSE34014)/Homer	TGATTRATGGCY	1e0	-9.012e-02	1.0000	1022.0	3.76%	1066.4	3.92%
Chop(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	ATTGCATCAT	1e0	-8.573e-02	1.0000	1443.0	5.31%	1496.7	5.50%
Tcf12(bHLH)/GM12878-Tcf12-ChIP-Seq(GSE32465)/Homer	VCAGCTGYTG	1e0	-8.491e-02	1.0000	3455.0	12.70%	3535.8	12.99%
ERG(ETS)/VCaP-ERG-ChIP-Seq(GSE14097)/Homer	ACAGGAAGTG	1e0	-8.437e-02	1.0000	6949.0	25.55%	7056.4	25.92%
EWS:ERG-fusion(ETS)/CADO_ES1-EWS:ERG-ChIP-Seq(SRA014231)/Homer	ATTTCCTGTN	1e0	-8.246e-02	1.0000	3870.0	14.23%	3955.7	14.53%
Ascl1(bHLH)/NeuralTubes-Ascl1-ChIP-Seq(GSE55840)/Homer	NNVVCAGCTGBN	1e0	-8.159e-02	1.0000	6565.0	24.14%	6671.1	24.51%
EWS:FLI1-fusion(ETS)/SK_N_MC-EWS:FLI1-ChIP-Seq(SRA014231)/Homer	VACAGGAAAT	1e0	-7.912e-02	1.0000	2294.0	8.44%	2362.4	8.68%
bZIP:IRF(bZIP,IRF)/Th17-BatF-ChIP-Seq(GSE39756)/Homer	NAGTTTCABTHTGACTNW	1e0	-7.479e-02	1.0000	2961.0	10.89%	3039.5	11.17%
Atf7(bZIP)/3T3L1-Atf7-ChIP-Seq(GSE56872)/Homer	NGRTGACGTCAY	1e0	-6.766e-02	1.0000	3158.0	11.61%	3241.7	11.91%
Ap4(bHLH)/AML-Tfap4-ChIP-Seq(GSE45738)/Homer	NAHCAGCTGD	1e0	-6.005e-02	1.0000	4656.0	17.12%	4758.0	17.48%
GATA(Zf),IR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NAGATWNBNATCTNN	1e0	-5.475e-02	1.0000	427.0	1.57%	461.9	1.70%
Atoh1(bHLH)/Cerebellum-Atoh1-ChIP-Seq(GSE22111)/Homer	VNRVCAGCTGGY	1e0	-5.124e-02	1.0000	4473.0	16.45%	4578.7	16.82%
FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer	NYYTGTTTACHN	1e0	-4.983e-02	1.0000	2651.0	9.75%	2735.8	10.05%
Oct2(POU,Homeobox)/Bcell-Oct2-ChIP-Seq(GSE21512)/Homer	ATATGCAAAT	1e0	-4.764e-02	1.0000	2321.0	8.53%	2401.9	8.82%
Six1(Homeobox)/Myoblast-Six1-ChIP-Chip(GSE20150)/Homer	GKVTCADRTTWC	1e0	-4.705e-02	1.0000	1254.0	4.61%	1314.9	4.83%
PU.1(ETS)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	AGAGGAAGTG	1e0	-4.695e-02	1.0000	2179.0	8.01%	2257.4	8.29%
STAT6(Stat)/Macrophage-Stat6-ChIP-Seq(GSE38377)/Homer	TTCCKNAGAA	1e0	-4.650e-02	1.0000	2887.0	10.62%	2977.0	10.94%
Fli1(ETS)/CD8-FLI-ChIP-Seq(GSE20898)/Homer	NRYTTCCGGH	1e0	-4.626e-02	1.0000	4188.0	15.40%	4293.4	15.77%
Hnf1(Homeobox)/Liver-Foxa2-Chip-Seq(GSE25694)/Homer	GGTTAAWCATTAA	1e0	-4.309e-02	1.0000	1034.0	3.80%	1090.4	4.01%
Pit1+1bp(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGCATAATTCA	1e0	-3.904e-02	1.0000	2809.0	10.33%	2901.9	10.66%
Znf263(Zf)/K562-Znf263-ChIP-Seq(GSE31477)/Homer	CVGTSCTCCC	1e0	-3.821e-02	1.0000	7455.0	27.41%	7593.9	27.90%
Isl1(Homeobox)/Neuron-Isl1-ChIP-Seq(GSE31456)/Homer	CTAATKGV	1e0	-3.773e-02	1.0000	10817.0	39.78%	10971.4	40.31%
GFY(?)/Promoter/Homer	ACTACAATTCCC	1e0	-3.545e-02	1.0000	224.0	0.82%	252.6	0.93%
TR4(NR),DR1/Hela-TR4-ChIP-Seq(GSE24685)/Homer	GAGGTCAAAGGTCA	1e0	-3.447e-02	1.0000	370.0	1.36%	406.9	1.49%
E-box(bHLH)/Promoter/Homer	SSGGTCACGTGA	1e0	-2.911e-02	1.0000	188.0	0.69%	215.8	0.79%
RXR(NR),DR1/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer	TAGGGCAAAGGTCA	1e0	-2.486e-02	1.0000	4739.0	17.43%	4868.0	17.88%
ETS1(ETS)/Jurkat-ETS1-ChIP-Seq(GSE17954)/Homer	ACAGGAAGTG	1e0	-2.471e-02	1.0000	4210.0	15.48%	4332.0	15.91%
STAT6(Stat)/CD4-Stat6-ChIP-Seq(GSE22104)/Homer	ABTTCYYRRGAA	1e0	-2.352e-02	1.0000	2977.0	10.95%	3083.4	11.33%
Atf4(bZIP)/MEF-Atf4-ChIP-Seq(GSE35681)/Homer	MTGATGCAAT	1e0	-2.338e-02	1.0000	1789.0	6.58%	1873.5	6.88%
CHR(?)/Hela-CellCycle-Expression/Homer	SRGTTTCAAA	1e0	-2.221e-02	1.0000	4234.0	15.57%	4359.6	16.02%
Nur77(NR)/K562-NR4A1-ChIP-Seq(GSE31363)/Homer	TGACCTTTNCNT	1e0	-2.189e-02	1.0000	918.0	3.38%	980.5	3.60%
Pitx1(Homeobox)/Chicken-Pitx1-ChIP-Seq(GSE38910)/Homer	TAATCCCN	1e0	-2.119e-02	1.0000	21742.0	79.95%	21895.1	80.44%
PRDM1(Zf)/Hela-PRDM1-ChIP-Seq(GSE31477)/Homer	ACTTTCACTTTC	1e0	-1.448e-02	1.0000	3317.0	12.20%	3439.2	12.63%
Stat3+il21(Stat)/CD4-Stat3-ChIP-Seq(GSE19198)/Homer	SVYTTCCNGGAARB	1e0	-1.417e-02	1.0000	3049.0	11.21%	3167.4	11.64%
Mouse_Recombination_Hotspot(Zf)/Testis-DMC1-ChIP-Seq(GSE24438)/Homer	ACTYKNATTCGTGNTACTTC	1e0	-1.359e-02	1.0000	355.0	1.31%	398.3	1.46%
Foxo1(Forkhead)/RAW-Foxo1-ChIP-Seq(Fan et al.)/Homer	CTGTTTAC	1e0	-1.260e-02	1.0000	9886.0	36.35%	10073.7	37.01%
Lhx3(Homeobox)/Neuron-Lhx3-ChIP-Seq(GSE31456)/Homer	ADBTAATTAR	1e0	-1.219e-02	1.0000	10590.0	38.94%	10781.6	39.61%
MyoG(bHLH)/C2C12-MyoG-ChIP-Seq(GSE36024)/Homer	AACAGCTG	1e0	-1.199e-02	1.0000	3890.0	14.30%	4025.3	14.79%
NeuroD1(bHLH)/Islet-NeuroD1-ChIP-Seq(GSE30298)/Homer	GCCATCTGTT	1e0	-1.184e-02	1.0000	3483.0	12.81%	3613.0	13.27%
CArG(MADS)/PUER-Srf-ChIP-Seq(Sullivan et al.)/Homer	CCATATATGGNM	1e0	-1.113e-02	1.0000	1656.0	6.09%	1749.0	6.43%
MafF(bZIP)/HepG2-MafF-ChIP-Seq(GSE31477)/Homer	HWWGTCAGCAWWTTT	1e0	-1.060e-02	1.0000	2027.0	7.45%	2130.6	7.83%
STAT4(Stat)/CD4-Stat4-ChIP-Seq(GSE22104)/Homer	NYTTCCWGGAAR	1e0	-1.031e-02	1.0000	4962.0	18.25%	5115.2	18.79%
BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer	CNNBRGCGCCCCCTGSTGGC	1e0	-8.407e-03	1.0000	410.0	1.51%	460.4	1.69%
Nanog(Homeobox)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	RGCCATTAAC	1e0	-8.189e-03	1.0000	19514.0	71.76%	19709.3	72.41%
Tcfcp2l1(CP2)/mES-Tcfcp2l1-ChIP-Seq(GSE11431)/Homer	NRAACCRGTTYRAACCRGYT	1e0	-7.631e-03	1.0000	414.0	1.52%	465.7	1.71%
E2F1(E2F)/Hela-E2F1-ChIP-Seq(GSE22478)/Homer	CWGGCGGGAA	1e0	-7.570e-03	1.0000	430.0	1.58%	482.1	1.77%
Tlx?(NR)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	CTGGCAGSCTGCCA	1e0	-7.184e-03	1.0000	1635.0	6.01%	1735.0	6.37%
HNF4a(NR),DR1/HepG2-HNF4a-ChIP-Seq(GSE25021)/Homer	CARRGKBCAAAGTYCA	1e0	-6.978e-03	1.0000	1954.0	7.19%	2062.8	7.58%
AMYB(HTH)/Testes-AMYB-ChIP-Seq(GSE44588)/Homer	TGGCAGTTGG	1e0	-5.600e-03	1.0000	6671.0	24.53%	6858.2	25.19%
PPARE(NR),DR1/3T3L1-Pparg-ChIP-Seq(GSE13511)/Homer	TGACCTTTGCCCCA	1e0	-4.785e-03	1.0000	4289.0	15.77%	4450.5	16.35%
IRF2(IRF)/Erythroblas-IRF2-ChIP-Seq(GSE36985)/Homer	GAAASYGAAASY	1e0	-4.573e-03	1.0000	498.0	1.83%	558.7	2.05%
JunD(bZIP)/K562-JunD-ChIP-Seq/Homer	ATGACGTCATCN	1e0	-4.464e-03	1.0000	246.0	0.90%	289.9	1.06%
Ptf1a(bHLH)/Panc1-Ptf1a-ChIP-Seq(GSE47459)/Homer	ACAGCTGTTN	1e0	-4.221e-03	1.0000	12550.0	46.15%	12778.7	46.95%
NFAT(RHD)/Jurkat-NFATC1-ChIP-Seq(Jolma et al.)/Homer	ATTTTCCATT	1e0	-3.954e-03	1.0000	5255.0	19.32%	5434.6	19.97%
E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer	VDTTTCCCGCCA	1e0	-3.802e-03	1.0000	171.0	0.63%	208.5	0.77%
NFkB-p65-Rel(RHD)/ThioMac-LPS-Expression(GSE23622)/Homer	GGAAATTCCC	1e0	-2.988e-03	1.0000	220.0	0.81%	263.9	0.97%
Nr5a2(NR)/mES-Nr5a2-ChIP-Seq(GSE19019)/Homer	BTCAAGGTCA	1e0	-2.267e-03	1.0000	2103.0	7.73%	2232.5	8.20%
BMYB(HTH)/Hela-BMYB-ChIP-Seq(GSE27030)/Homer	NHAACBGYYV	1e0	-1.870e-03	1.0000	6757.0	24.85%	6971.8	25.61%
NF1-halfsite(CTF)/LNCaP-NF1-ChIP-Seq(Unpublished)/Homer	YTGCCAAG	1e0	-1.704e-03	1.0000	7320.0	26.92%	7542.8	27.71%
FOXA1(Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WAAGTAAACA	1e0	-1.301e-03	1.0000	8271.0	30.41%	8508.1	31.26%
GLI3(Zf)/Limb-GLI3-ChIP-Chip(GSE11077)/Homer	CGTGGGTGGTCC	1e0	-1.135e-03	1.0000	445.0	1.64%	512.9	1.88%
FOXA1(Forkhead)/MCF7-FOXA1-ChIP-Seq(GSE26831)/Homer	WAAGTAAACA	1e0	-1.075e-03	1.0000	7093.0	26.08%	7323.9	26.91%
SpiB(ETS)/OCILY3-SPIB-ChIP-Seq(GSE56857)/Homer	AAAGRGGAAGTG	1e0	-1.027e-03	1.0000	1127.0	4.14%	1232.5	4.53%
RUNX2(Runt)/PCa-RUNX2-ChIP-Seq(GSE33889)/Homer	NWAACCACADNN	1e0	-9.640e-04	1.0000	4438.0	16.32%	4633.7	17.02%
LXRE(NR),DR4/RAW-LXRb.biotin-ChIP-Seq(GSE21512)/Homer	RGGTTACTANAGGTCA	1e0	-8.230e-04	1.0000	1308.0	4.81%	1423.1	5.23%
CRE(bZIP)/Promoter/Homer	CSGTGACGTCAC	1e0	-8.020e-04	1.0000	586.0	2.15%	666.0	2.45%
Bcl6(Zf)/Liver-Bcl6-ChIP-Seq(GSE31578)/Homer	NNNCTTTCCAGGAAA	1e0	-6.610e-04	1.0000	6712.0	24.68%	6948.5	25.53%
SPDEF(ETS)/VCaP-SPDEF-ChIP-Seq(SRA014231)/Homer	ASWTCCTGBT	1e0	-2.460e-04	1.0000	4243.0	15.60%	4458.1	16.38%
RUNX(Runt)/HPC7-Runx1-ChIP-Seq(GSE22178)/Homer	SAAACCACAG	1e0	-2.210e-04	1.0000	3454.0	12.70%	3653.1	13.42%
Foxa2(Forkhead)/Liver-Foxa2-ChIP-Seq(GSE25694)/Homer	CYTGTTTACWYW	1e0	-2.140e-04	1.0000	4729.0	17.39%	4956.3	18.21%
p53(p53)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	ACATGCCCGGGCAT	1e0	-1.790e-04	1.0000	66.0	0.24%	99.5	0.37%
SCL(bHLH)/HPC7-Scl-ChIP-Seq(GSE13511)/Homer	AVCAGCTG	1e0	-1.220e-04	1.0000	16586.0	60.99%	16896.0	62.07%
RUNX-AML(Runt)/CD4+-PolII-ChIP-Seq(Barski et al.)/Homer	GCTGTGGTTW	1e0	-1.120e-04	1.0000	3735.0	13.73%	3951.2	14.52%
MYB(HTH)/ERMYB-Myb-ChIPSeq(GSE22095)/Homer	GGCVGTTR	1e0	-1.110e-04	1.0000	7507.0	27.60%	7788.2	28.61%
RUNX1(Runt)/Jurkat-RUNX1-ChIP-Seq(GSE29180)/Homer	AAACCACARM	1e0	-7.500e-05	1.0000	5230.0	19.23%	5484.9	20.15%
Atf1(bZIP)/K562-ATF1-ChIP-Seq(GSE31477)/Homer	GATGACGTCA	1e0	-2.200e-05	1.0000	4297.0	15.80%	4550.7	16.72%
E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer	GGCGGGAAAH	1e0	-2.200e-05	1.0000	779.0	2.86%	898.0	3.30%