Motif Name	Consensus	P-value	Log P-value	q-value (Benjamini)	# of Target Sequences with Motif(of 10714)	% of Target Sequences with Motif	# of Background Sequences with Motif(of 39354)	% of Background Sequences with Motif
TR4(NR/DR1)/Hela-TR4-ChIP-Seq/Homer	GAGGTCAAAGGTCA	1e-3	-6.976e+00	0.2139	75.0	0.70%	188.9	0.48%
Mef2c(MADS)/GM12878-Mef2c-ChIP-Seq(GSE32465)/Homer	DCYAAAAATAGM	1e-2	-6.114e+00	0.2534	1210.0	11.31%	4125.6	10.46%
Mef2a(MADS)/HL1-Mef2a.biotin-ChIP-Seq/Homer/	CYAAAAATAG	1e-2	-5.975e+00	0.2534	1012.0	9.46%	3426.9	8.69%
Srebp2(HLH)/HepG2-Srebp2-ChIP-Seq/Homer	CGGTCACSCCAC	1e-2	-5.203e+00	0.3150	187.0	1.75%	569.7	1.44%
RUNX-AML(Runt)/CD4+-PolII-ChIP-Seq/Homer	GCTGTGGTTW	1e-1	-3.981e+00	0.8545	717.0	6.70%	2449.9	6.21%
Tcfcp2l1(CP2)/mES-Tcfcp2l1-ChIP-Seq/Homer	NRAACCRGTTYRAACCRGYT	1e-1	-3.891e+00	0.8545	81.0	0.76%	235.7	0.60%
FXR(NR/IR1)/Liver-FXR-ChIP-Seq/Homer	AGGTCANTGACCTB	1e-1	-3.880e+00	0.8545	280.0	2.62%	913.0	2.31%
Oct4(POU/Homeobox)/mES-Oct4-ChIP-Seq/Homer	ATTTGCATAW	1e-1	-3.698e+00	0.8545	845.0	7.90%	2918.0	7.40%
E2F1(E2F)/Hela-E2F1-ChIP-Seq/Hoemr	CWGGCGGGAA	1e-1	-3.675e+00	0.8545	79.0	0.74%	231.9	0.59%
HOXD13(Homeobox)/Chicken-Hoxd13-ChIP-Seq(GSE38910)/Homer	NCYAATAAAA	1e-1	-3.631e+00	0.8545	2171.0	20.30%	7711.1	19.55%
Fox:Ebox(Forkhead:HLH)/Panc1-Foxa2-ChIP-Seq(GSE47459)/Homer	NNNVCTGWGYAAACASN	1e-1	-3.543e+00	0.8545	1108.0	10.36%	3868.7	9.81%
GATA:SCL/Ter119-SCL-ChIP-Seq/Homer	CRGCTGBNGNSNNSAGATAA	1e-1	-3.497e+00	0.8545	114.0	1.07%	350.8	0.89%
PPARE(NR/DR1)/3T3L1-Pparg-ChIP-Seq/Homer	TGACCTTTGCCCCA	1e-1	-3.249e+00	0.8545	779.0	7.28%	2700.2	6.85%
RUNX(Runt)/HPC7-Runx1-ChIP-Seq/Homer	SAAACCACAG	1e-1	-3.003e+00	0.8545	642.0	6.00%	2220.1	5.63%
Tcf4(HMG)/Hct116-Tcf4-ChIP-Seq/Homer	ASATCAAAGGVA	1e-1	-2.767e+00	0.9597	547.0	5.12%	1890.0	4.79%
HIF-1a(HLH)/MCF7-HIF1a-ChIP-Seq/Homer	TACGTGCV	1e-1	-2.733e+00	0.9597	161.0	1.51%	525.5	1.33%
n-Myc(HLH)/mES-nMyc-ChIP-Seq/Homer	VRCCACGTGG	1e-1	-2.626e+00	0.9746	411.0	3.84%	1410.7	3.58%
c-Myc/mES-cMyc-ChIP-Seq/Homer	VVCCACGTGG	1e-1	-2.587e+00	0.9746	311.0	2.91%	1056.2	2.68%
p53(p53)/mES-cMyc-ChIP-Seq/Homer	ACATGCCCGGGCAT	1e-1	-2.491e+00	0.9979	18.0	0.17%	46.3	0.12%
NeuroD1(bHLH)/Islet-NeuroD1-ChIP-Seq(GSE30298)/Homer	GCCATCTGTT	1e-1	-2.482e+00	0.9979	623.0	5.83%	2175.1	5.52%
Usf2(HLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer	GTCACGTGGT	1e-1	-2.457e+00	0.9979	285.0	2.67%	968.7	2.46%
Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq/Homer	MAATCACTGC	1e-1	-2.398e+00	0.9979	880.0	8.23%	3106.4	7.88%
Tlx?/NPC-H3K4me1-ChIP-Seq/Homer	CTGGCAGSCTGCCA	1e0	-2.231e+00	1.0000	268.0	2.51%	915.7	2.32%
PAX3:FKHR-fusion(Paired/Homeobox)/Rh4-PAX3:FKHR-ChIP-Seq/Homer	ACCRTGACTAATTNN	1e0	-2.225e+00	1.0000	282.0	2.64%	965.3	2.45%
Reverb(NR/DR2)/BLRP(RAW)-Reverba-ChIP-Seq/Homer	GTRGGTCASTGGGTCA	1e0	-2.205e+00	1.0000	118.0	1.10%	387.9	0.98%
Hoxb4/ES-Hoxb4-ChIP-Seq(GSE34014)/Homer	TGATTRATGGCY	1e0	-2.187e+00	1.0000	229.0	2.14%	778.9	1.97%
NFkB-p65-Rel(RHD)/LPS-exp(GSE23622)/Homer	GGAAATTCCC	1e0	-2.175e+00	1.0000	51.0	0.48%	157.5	0.40%
FOXA1(Forkhead)/MCF7-FOXA1-ChIP-Seq/Homer	WAAGTAAACA	1e0	-2.077e+00	1.0000	1803.0	16.86%	6485.4	16.44%
Foxa2(Forkhead)/Liver-Foxa2-ChIP-Seq/Homer	CYTGTTTACWYW	1e0	-2.064e+00	1.0000	1115.0	10.43%	3979.3	10.09%
Tcf12(HLH)/GM12878-Tcf12-ChIP-Seq/Homer	VCAGCTGYTG	1e0	-1.988e+00	1.0000	566.0	5.29%	1994.3	5.06%
Oct2(POU/Homeobox)/Bcell-Oct2-ChIP-Seq/Homer	ATATGCAAAT	1e0	-1.981e+00	1.0000	567.0	5.30%	1998.1	5.07%
OCT4-SOX2-TCF-NANOG((POU/Homeobox/HMG)/mES-ChIP-Seq/Homer	ATTTGCATAACAATG	1e0	-1.972e+00	1.0000	346.0	3.24%	1203.2	3.05%
E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer	GGCGGGAARN	1e0	-1.936e+00	1.0000	202.0	1.89%	690.7	1.75%
HOXA9/HSC-Hoxa9-ChIP-Seq(GSE33509)/Homer	GGCCATAAATCA	1e0	-1.898e+00	1.0000	1040.0	9.73%	3718.3	9.43%
FOXA1(Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WAAGTAAACA	1e0	-1.887e+00	1.0000	2097.0	19.61%	7577.3	19.21%
RUNX1(Runt)/Jurkat-RUNX1-ChIP-Seq/Homer	AAACCACARM	1e0	-1.878e+00	1.0000	1022.0	9.56%	3654.2	9.27%
Hoxc9/Ainv15-Hoxc9-ChIP-Seq/Homer	GGCCATAAATCA	1e0	-1.825e+00	1.0000	843.0	7.88%	3007.1	7.62%
MyoD(HLH)/Myotube-MyoD-ChIP-Seq/Homer	RRCAGCTGYTSY	1e0	-1.810e+00	1.0000	418.0	3.91%	1469.8	3.73%
p53(p53)/Saos-p53-ChIP-Seq/Homer	RRCATGYCYRGRCATGYYYN	1e0	-1.807e+00	1.0000	74.0	0.69%	242.6	0.62%
Sox2(HMG)/mES-Sox2-ChIP-Seq/Homer	BCCATTGTTC	1e0	-1.800e+00	1.0000	1021.0	9.55%	3656.9	9.27%
EGR(Zf)/K562-EGR1-ChIP-Seq/Homer	TCCGCCCACGCA	1e0	-1.748e+00	1.0000	59.0	0.55%	191.9	0.49%
MyoG(HLH)/C2C12-MyoG-ChIP-Seq(GSE36024)/Homer	AACAGCTG	1e0	-1.748e+00	1.0000	659.0	6.16%	2344.1	5.94%
Erra(NR)/HepG2-Erra-ChIP-Seq/Homer	CAAAGGTCAG	1e0	-1.742e+00	1.0000	1886.0	17.64%	6819.1	17.29%
GATA-DR8(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATSTNDNNDSAGATAASN	1e0	-1.729e+00	1.0000	81.0	0.76%	268.4	0.68%
CEBP(bZIP)/CEBPb-ChIP-Seq(GSE21512)/Homer	ATTGCGCAAC	1e0	-1.688e+00	1.0000	1084.0	10.14%	3894.7	9.88%
Hnf1(Homeobox)/Liver-Foxa2-Chip-Seq/Homer	GGTTAAWCATTAA	1e0	-1.682e+00	1.0000	275.0	2.57%	960.1	2.43%
IRF4(IRF)/GM12878-IRF4-ChIP-Seq/Homer	ACTGAAACCA	1e0	-1.642e+00	1.0000	521.0	4.87%	1850.5	4.69%
AR-halfsite(NR)/LNCaP-AR-ChIP-Seq(GSE27824)/Homer	CCAGGAACAG	1e0	-1.640e+00	1.0000	3349.0	31.32%	12197.2	30.93%
RUNX2(Runt)/PCa-RUNX2-ChIP-Seq(GSE33889)/Homer	NWAACCACADNN	1e0	-1.609e+00	1.0000	826.0	7.72%	2960.2	7.51%
FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer	NYYTGTTTACHN	1e0	-1.598e+00	1.0000	603.0	5.64%	2150.3	5.45%
Lhx3-like?(Homeobox)/Forebrain-p300-ChIP-Seq/Homer	CTAATTAGCH	1e0	-1.590e+00	1.0000	1645.0	15.38%	5952.9	15.09%
Foxo1(Forkhead)/RAW-Foxo1-ChIP-Seq/Homer	CTGTTTAC	1e0	-1.587e+00	1.0000	2138.0	19.99%	7758.7	19.67%
Oct4:Sox17/F9-Sox17-ChIP-Seq(GSE44553)/Homer	CCATTGTATGCAAAT	1e0	-1.549e+00	1.0000	207.0	1.94%	721.5	1.83%
Nkx2.5(Homeobox)/HL1-Nkx2.5.biotin-ChIP-Seq/Homer	RRSCACTYAA	1e0	-1.539e+00	1.0000	2613.0	24.43%	9506.3	24.10%
HNF6(Homeobox)/Liver-Hnf6-ChIP-Seq(ERP000394)	NTATYGATCH	1e0	-1.538e+00	1.0000	849.0	7.94%	3049.7	7.73%
ATF3(bZIP)/K562-ATF3-ChIP-Seq/Homer	SGGTCACGTGAC	1e0	-1.512e+00	1.0000	70.0	0.65%	234.2	0.59%
ERE(NR/IR3)/MCF7-ERa-ChIP-Seq/Homer	VAGGTCACNSTGACC	1e0	-1.510e+00	1.0000	167.0	1.56%	579.9	1.47%
ETS:RUNX/Jurkat-RUNX1-ChIP-Seq/Homer	RCAGGATGTGGT	1e0	-1.429e+00	1.0000	57.0	0.53%	190.5	0.48%
Klf4(Zf)/mES-Klf4-ChIP-Seq/Homer	GCCACACCCA	1e0	-1.427e+00	1.0000	267.0	2.50%	942.7	2.39%
NRF1/Promoter/Homer	STGCGCATGCGC	1e0	-1.417e+00	1.0000	30.0	0.28%	96.2	0.24%
EBF(EBF)/proBcell-EBF-ChIP-Seq/Homer	DGTCCCYRGGGA	1e0	-1.413e+00	1.0000	113.0	1.06%	389.6	0.99%
Atoh1(bHLH)/Cerebellum-Atoh1-ChIP-Seq/Homer	VNRVCAGCTGGY	1e0	-1.391e+00	1.0000	790.0	7.39%	2845.6	7.22%
Pax7-longest(Paired/Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	NTAATTDGCYAATTANNWWD	1e0	-1.365e+00	1.0000	75.0	0.70%	255.3	0.65%
PRDM14(Zf)/H1-PRDM14-ChIP-Seq/Homer	RGGTCTCTAACY	1e0	-1.344e+00	1.0000	256.0	2.39%	906.3	2.30%
Max(HLH)/K562-Max-ChIP-Seq/Homer	RCCACGTGGYYN	1e0	-1.256e+00	1.0000	456.0	4.26%	1637.3	4.15%
USF1(HLH)/GM12878-Usf1-ChIP-Seq/Homer	SGTCACGTGR	1e0	-1.228e+00	1.0000	268.0	2.51%	955.2	2.42%
GATA-IR3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NNNNNBAGATAWYATCTVHN	1e0	-1.208e+00	1.0000	241.0	2.25%	858.3	2.18%
Pax7(Paired/Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCAATTA	1e0	-1.187e+00	1.0000	185.0	1.73%	656.1	1.66%
HIF2a(HLH)/O785-HIF2a-ChIP-Seq(GSE34871)/Homer	GCACGTACCC	1e0	-1.186e+00	1.0000	209.0	1.95%	743.3	1.88%
Cdx2(Homeobox)/mES-Cdx2-ChIP-Seq/Homer	GYMATAAAAH	1e0	-1.185e+00	1.0000	1402.0	13.11%	5104.5	12.94%
Sox3(HMG)/NPC-Sox3-ChIP-Seq(GSE33059)/Homer	CCWTTGTY	1e0	-1.184e+00	1.0000	2148.0	20.09%	7843.2	19.89%
RXR(NR/DR1)/3T3L1-RXR-ChIP-Seq/Homer	TAGGGCAAAGGTCA	1e0	-1.132e+00	1.0000	803.0	7.51%	2914.4	7.39%
Srebp1a(HLH)/HepG2-Srebp1a-ChIP-Seq/Homer	RTCACSCCAY	1e0	-1.125e+00	1.0000	233.0	2.18%	833.5	2.11%
Unknown/Homeobox/Limb-p300-ChIP-Seq/Homer	SSCMATWAAA	1e0	-1.124e+00	1.0000	1097.0	10.26%	3992.3	10.12%
ISRE(IRF)/ThioMac-LPS-exp(GSE23622)/HOMER	AGTTTCASTTTC	1e0	-1.123e+00	1.0000	83.0	0.78%	290.9	0.74%
PU.1(ETS)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	AGAGGAAGTG	1e0	-1.117e+00	1.0000	405.0	3.79%	1460.9	3.70%
ETS(ETS)/Promoter/Homer	AACCGGAAGT	1e0	-1.090e+00	1.0000	164.0	1.53%	584.4	1.48%
Olig2(bHLH)/Neuron-Olig2-ChIP-Seq(GSE30882)/Homer	RCCATMTGTT	1e0	-1.069e+00	1.0000	1894.0	17.71%	6925.2	17.56%
E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer	GGCGGGAAAH	1e0	-1.051e+00	1.0000	136.0	1.27%	484.9	1.23%
NFAT(RHD)/Jurkat-NFATC1-ChIP-Seq/Homer	ATTTTCCATT	1e0	-1.035e+00	1.0000	1147.0	10.73%	4185.5	10.61%
E2A(HLH)/proBcell-E2A-ChIP-Seq/Homer	DNRCAGCTGY	1e0	-1.022e+00	1.0000	1234.0	11.54%	4506.4	11.43%
EWS:FLI1-fusion(ETS)/SK_N_MC-EWS:FLI1-ChIP-Seq/Homer	VACAGGAAAT	1e0	-1.005e+00	1.0000	433.0	4.05%	1570.5	3.98%
ELF5(ETS)/T47D-ELF5-ChIP-Seq(GSE30407)/Homer	ACVAGGAAGT	1e0	-9.952e-01	1.0000	667.0	6.24%	2428.9	6.16%
Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer	BAACAGCTGT	1e0	-9.920e-01	1.0000	427.0	3.99%	1549.0	3.93%
Pdx1(Homeobox)/Islet-Pdx1-ChIP-Seq/Homer	YCATYAATCA	1e0	-9.643e-01	1.0000	1474.0	13.78%	5395.1	13.68%
p53(p53)/p53-ChIP-Chip/Homer	NRGACATGTCYRGACATGTC	1e0	-9.563e-01	1.0000	5.0	0.05%	15.4	0.04%
EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer	NWGGGTGTGGCY	1e0	-9.455e-01	1.0000	151.0	1.41%	543.3	1.38%
HOXA2(Homeobox)/mES-Hoxa2-ChIP-Seq/Homer	GYCATCMATCAT	1e0	-9.385e-01	1.0000	107.0	1.00%	383.2	0.97%
NFkB-p65(RHD)/GM12787-p65-ChIP-Seq/Homer	WGGGGATTTCCC	1e0	-9.028e-01	1.0000	405.0	3.79%	1475.9	3.74%
Ap4(HLH)/AML-Tfap4-ChIP-Seq(GSE45738)/Homer	NAHCAGCTGD	1e0	-9.000e-01	1.0000	792.0	7.41%	2896.1	7.34%
GFX(?)/Promoter/Homer	ATTCTCGCGAGA	1e0	-8.929e-01	1.0000	4.0	0.04%	12.7	0.03%
E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer	VDTTTCCCGCCA	1e0	-8.873e-01	1.0000	30.0	0.28%	105.6	0.27%
Sp1(Zf)/Promoter/Homer	GGCCCCGCCCCC	1e0	-8.761e-01	1.0000	77.0	0.72%	276.3	0.70%
PAX5(Paired/Homeobox)/GM12878-PAX5-ChIP-Seq/Homer	GCAGCCAAGCRTGACH	1e0	-8.752e-01	1.0000	258.0	2.41%	938.9	2.38%
NFkB-p50,p52(RHD)/p50-ChIP-Chip/Homer	GGGGGAATCCCC	1e0	-8.607e-01	1.0000	56.0	0.52%	200.6	0.51%
Nkx2.1(Homeobox)/H3122-NKX2.1-ChIP-Seq(GSE39998)/Homer	CCACTCAA	1e0	-8.446e-01	1.0000	2215.0	20.71%	8140.1	20.64%
STAT6(Stat)/CD4-Stat6-ChIP-Seq/Homer	ABTTCYYRRGAA	1e0	-8.237e-01	1.0000	662.0	6.19%	2426.1	6.15%
Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer	NRYTTCCGGY	1e0	-8.128e-01	1.0000	264.0	2.47%	964.5	2.45%
p63(p53)/Keratinocyte-p63-ChIP-Seq/Homer	NNDRCATGYCYNRRCATGYH	1e0	-8.110e-01	1.0000	243.0	2.27%	888.0	2.25%
HNF4a(NR/DR1)/HepG2-HNF4a-ChIP-Seq/Homer	CARRGKBCAAAGTYCA	1e0	-7.960e-01	1.0000	363.0	3.39%	1329.1	3.37%
MafA(bZIP)/Islet-MafA-ChIP-Seq(GSE30298)/Homer	TGCTGACTCA	1e0	-7.810e-01	1.0000	535.0	5.00%	1963.6	4.98%
Gata4(Zf)/Heart-Gata4-ChIP-Seq(GSE35151)/Homer	NBWGATAAGR	1e0	-7.609e-01	1.0000	1315.0	12.30%	4838.2	12.27%
EBF1(EBF)/Near-E2A-ChIP-Seq/Homer	GTCCCCWGGGGA	1e0	-7.479e-01	1.0000	583.0	5.45%	2143.8	5.44%
Pax7-long(Paired/Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCHGATTAC	1e0	-7.315e-01	1.0000	56.0	0.52%	204.2	0.52%
YY1(Zf)/Promoter/Homer	CAAGATGGCGGC	1e0	-7.239e-01	1.0000	32.0	0.30%	116.4	0.30%
Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer	GGGGGGGG	1e0	-6.969e-01	1.0000	613.0	5.73%	2260.0	5.73%
Sox6(HMG)/Myotubes-Sox6-ChIP-Seq(GSE32627)/Homer	CCATTGTTNY	1e0	-6.169e-01	1.0000	2059.0	19.25%	7607.3	19.29%
Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo et al.)/Homer	TBGCACGCAA	1e0	-6.153e-01	1.0000	358.0	3.35%	1326.8	3.36%
MafF(bZIP)/HepG2-MafF-ChIP-Seq(GSE31477)/Homer	HWWGTCAGCAWWTTT	1e0	-5.988e-01	1.0000	413.0	3.86%	1531.7	3.88%
PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer	ADGGYAGYAGCATCT	1e0	-5.950e-01	1.0000	301.0	2.81%	1117.9	2.83%
NF1:FOXA1/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WNTGTTTRYTTTGGCA	1e0	-5.916e-01	1.0000	56.0	0.52%	209.8	0.53%
ZBTB33/GM12878-ZBTB33-ChIP-Seq/Homer	GGVTCTCGCGAGAAC	1e0	-5.838e-01	1.0000	7.0	0.07%	26.2	0.07%
SCL/HPC7-Scl-ChIP-Seq/Homer	AVCAGCTG	1e0	-5.770e-01	1.0000	3719.0	34.78%	13742.5	34.84%
Six1(Homeobox)/Myoblast-Six1-ChIP-Chip(GSE20150)/Homer	GKVTCADRTTWC	1e0	-5.635e-01	1.0000	263.0	2.46%	979.5	2.48%
RFX(HTH)/K562-RFX3-ChIP-Seq/Homer	CGGTTGCCATGGCAAC	1e0	-5.375e-01	1.0000	33.0	0.31%	125.5	0.32%
IRF2(IRF)/Erythroblas-IRF2-ChIP-Seq(GSE36985)/Homer	GAAASYGAAASY	1e0	-5.239e-01	1.0000	108.0	1.01%	406.1	1.03%
STAT6/Macrophage-Stat6-ChIP-Seq/Homer	TTCCKNAGAA	1e0	-5.111e-01	1.0000	633.0	5.92%	2356.4	5.97%
Atf1(bZIP)/K562-ATF1-ChIP-Seq(GSE31477)/Homer	GATGACGTCA	1e0	-5.090e-01	1.0000	759.0	7.10%	2823.4	7.16%
bHLHE40(HLH)/HepG2-BHLHE40-ChIP-Seq/Homer	SGKCACGTGM	1e0	-5.085e-01	1.0000	85.0	0.79%	322.0	0.82%
NF-E2(bZIP)/K562-NFE2-ChIP-Seq/Homer	GATGACTCAGCA	1e0	-5.072e-01	1.0000	33.0	0.31%	126.3	0.32%
AP-2alpha(AP2)/Hela-AP2alpha-ChIP-Seq/Homer	ATGCCCTGAGGC	1e0	-4.813e-01	1.0000	406.0	3.80%	1518.9	3.85%
c-Myc(HLH)/LNCAP-cMyc-ChIP-Seq/Homer	VCCACGTG	1e0	-4.650e-01	1.0000	179.0	1.67%	675.6	1.71%
JunD(bZIP)/K562-JunD-ChIP-Seq/Homer	ATGACGTCATCN	1e0	-4.618e-01	1.0000	54.0	0.50%	207.1	0.53%
VDR(NR/DR3)/GM10855-VDR+vitD-ChIP-Seq/Homer	ARAGGTCANWGAGTTCANNN	1e0	-4.508e-01	1.0000	126.0	1.18%	478.3	1.21%
Nkx3.1(Homeobox)/LNCaP-Nkx3.1-ChIP-Seq(GSE28264)/Homer	AAGCACTTAA	1e0	-4.213e-01	1.0000	2873.0	26.87%	10662.5	27.04%
E2A-nearPU.1(HLH)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	NVCACCTGBN	1e0	-4.202e-01	1.0000	1288.0	12.04%	4799.6	12.17%
SPDEF(ETS)/VCaP-SPDEF-ChIP-Seq/Homer	ASWTCCTGBT	1e0	-4.056e-01	1.0000	798.0	7.46%	2985.9	7.57%
CRX(Homeobox)/Retina-Crx-ChIP-Seq/Homer	GCTAATCC	1e0	-3.978e-01	1.0000	3653.0	34.16%	13552.0	34.36%
PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	MGGAAGTGAAAC	1e0	-3.894e-01	1.0000	1455.0	13.61%	5425.7	13.76%
Nanog(Homeobox)/mES-Nanog-ChIP-Seq/Homer	RGCCATTAAC	1e0	-3.781e-01	1.0000	5102.0	47.71%	18906.3	47.94%
Tbx20(T-box)/Heart-Tbx20-ChIP-Seq(GSE29636)/Homer	GGTGYTGACAGS	1e0	-3.767e-01	1.0000	133.0	1.24%	510.6	1.29%
ARE(NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	RGRACASNSTGTYCYB	1e0	-3.703e-01	1.0000	148.0	1.38%	567.7	1.44%
GABPA(ETS)/Jurkat-GABPa-ChIP-Seq/Homer	RACCGGAAGT	1e0	-3.588e-01	1.0000	587.0	5.49%	2209.0	5.60%
PR(NR)/T47D-PR-ChIP-Seq(GSE31130)/Homer	VAGRACAKNCTGTBC	1e0	-3.572e-01	1.0000	2089.0	19.53%	7782.4	19.73%
EWS:ERG-fusion(ETS)/CADO_ES1-EWS:ERG-ChIP-Seq/Homer	ATTTCCTGTN	1e0	-3.334e-01	1.0000	785.0	7.34%	2951.9	7.48%
EBNA1(EBV virus)/Raji-EBNA1-ChIP-Seq(GSE30709)/Homer	GGYAGCAYDTGCTDCCCNNN	1e0	-3.314e-01	1.0000	4.0	0.04%	18.5	0.05%
Gata1(Zf)/K562-GATA1-ChIP-Seq/Homer	SAGATAAGRV	1e0	-3.310e-01	1.0000	664.0	6.21%	2501.5	6.34%
AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	VTGACTCATC	1e0	-3.277e-01	1.0000	670.0	6.27%	2524.4	6.40%
ERG(ETS)/VCaP-ERG-ChIP-Seq/Homer	ACAGGAAGTG	1e0	-3.155e-01	1.0000	1326.0	12.40%	4966.0	12.59%
ELF1(ETS)/Jurkat-ELF1-ChIP-Seq/Homer	AVCCGGAAGT	1e0	-3.119e-01	1.0000	241.0	2.25%	923.6	2.34%
Chop(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	ATTGCATCATCY	1e0	-3.091e-01	1.0000	183.0	1.71%	705.6	1.79%
AP2gamma(AP2)/MCF7-TFAP2c-ChIP-Seq/Homer	HHTGSCCTSAGGSCA	1e0	-3.028e-01	1.0000	445.0	4.16%	1690.0	4.29%
FOXA1:AR/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	AGTAAACAAAAAAGAACAND	1e0	-3.014e-01	1.0000	118.0	1.10%	460.7	1.17%
Mouse_Recombination_Hotspot/Testis-DMC1-ChIP-Seq/Homer	ACTYKNATTCGTGNTACTTC	1e0	-2.832e-01	1.0000	79.0	0.74%	313.0	0.79%
Ptf1a(HLH)/Panc1-Ptf1a-ChIP-Seq(GSE47459)/Homer	ACAGCTGTTN	1e0	-2.817e-01	1.0000	2229.0	20.84%	8326.7	21.11%
Nur77(NR)/K562-NR4A1-ChIP-Seq(GSE31363)/Homer	TGACCTTTNCNT	1e0	-2.791e-01	1.0000	181.0	1.69%	701.6	1.78%
Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer	HACTTCCGGY	1e0	-2.748e-01	1.0000	254.0	2.38%	977.4	2.48%
GRE/RAW264.7-GRE-ChIP-Seq/Homer	VAGRACAKWCTGTYC	1e0	-2.693e-01	1.0000	168.0	1.57%	653.1	1.66%
LXRE(NR/DR4)/BLRP(RAW)-LXRb-ChIP-Seq/Homer	RGGTTACTANAGGTCA	1e0	-2.676e-01	1.0000	169.0	1.58%	657.9	1.67%
GLI3(Zf)/GLI3-ChIP-Chip/Homer	CGTGGGTGGTCC	1e0	-2.644e-01	1.0000	56.0	0.52%	226.9	0.58%
Fli1(ETS)/CD8-FLI-ChIP-Seq(GSE20898)/Homer	NRYTTCCGGH	1e0	-2.630e-01	1.0000	764.0	7.14%	2889.5	7.33%
Smad3(MAD)/NPC-Smad3-ChIP-Seq(GSE36673)/Homer	TWGTCTGV	1e0	-2.484e-01	1.0000	2498.0	23.36%	9336.3	23.67%
c-Jun-CRE(bZIP)/K562-cJun-ChIP-Seq/Homer	ATGACGTCATCY	1e0	-2.474e-01	1.0000	294.0	2.75%	1132.4	2.87%
Jun-AP1(bZIP)/K562-cJun-ChIP-Seq/Homer	GATGASTCATCN	1e0	-2.472e-01	1.0000	147.0	1.37%	576.1	1.46%
RARg(NR)/ES-RARg-ChIP-Seq(GSE30538)/Homer	AGGTCAAGGTCA	1e0	-2.458e-01	1.0000	20.0	0.19%	86.3	0.22%
TRa(NR)/C17.2-TRa-ChIP-Seq(GSE38347)/Homer	GGTCANYTGAGGWCA	1e0	-2.414e-01	1.0000	432.0	4.04%	1652.8	4.19%
BORIS(Zf)/K562-CTCFL-ChIP-Seq/Homer	CNNBRGCGCCCCCTGSTGGC	1e0	-2.366e-01	1.0000	48.0	0.45%	197.3	0.50%
Smad2(MAD)/ES-SMAD2-ChIP-Seq(GSE29422)/Homer	CTGTCTGG	1e0	-2.355e-01	1.0000	1080.0	10.10%	4075.8	10.33%
GATA3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATAASR	1e0	-2.306e-01	1.0000	2169.0	20.28%	8124.3	20.60%
NFY(CCAAT)/Promoter/Homer	RGCCAATSRG	1e0	-2.282e-01	1.0000	723.0	6.76%	2745.9	6.96%
Ets1-distal(ETS)/CD4+-PolII-ChIP-Seq/Homer	MACAGGAAGT	1e0	-2.277e-01	1.0000	214.0	2.00%	834.0	2.11%
E2F(E2F)/Cell-Cycle-Exp/Homer	TTSGCGCGAAAA	1e0	-2.273e-01	1.0000	10.0	0.09%	46.4	0.12%
Tbox:Smad/ESCd5-Smad2_3-ChIP-Seq(GSE29422)/Homer	AGGTGHCAGACA	1e0	-2.252e-01	1.0000	135.0	1.26%	533.1	1.35%
BMYB(HTH)/Hela-BMYB-ChIPSeq(GSE27030)/Homer	NHAACBGYYV	1e0	-2.140e-01	1.0000	1447.0	13.53%	5449.9	13.82%
TCFL2(HMG)/K562-TCF7L2-ChIP-Seq(GSE29196)/Homer	ACWTCAAAGG	1e0	-2.122e-01	1.0000	67.0	0.63%	273.7	0.69%
Tcf3(HMG)/mES-Tcf3-ChIP-Seq/Homer	ASWTCAAAGG	1e0	-2.039e-01	1.0000	252.0	2.36%	981.1	2.49%
PRDM1/BMI1(Zf)/Hela-PRDM1-ChIP-Seq(GSE31477)/Homer	ACTTTCACTTTC	1e0	-1.988e-01	1.0000	666.0	6.23%	2540.7	6.44%
ETS:E-box/HPC7-Scl-ChIP-Seq/Homer	AGGAARCAGCTG	1e0	-1.782e-01	1.0000	61.0	0.57%	253.2	0.64%
ETV1(ETS)/GIST48-ETV1-ChIP-Seq/Homer	AACCGGAAGT	1e0	-1.723e-01	1.0000	984.0	9.20%	3739.4	9.48%
RBPJ:Ebox/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	GGGRAARRGRMCAGMTG	1e0	-1.686e-01	1.0000	205.0	1.92%	809.8	2.05%
Znf263(Zf)/K562-Znf263-ChIP-Seq/Homer	CVGTSCTCCC	1e0	-1.507e-01	1.0000	1224.0	11.45%	4645.9	11.78%
STAT1(Stat)/HelaS3-STAT1-ChIP-Seq/Homer	NATTTCCNGGAAAT	1e0	-1.447e-01	1.0000	320.0	2.99%	1252.7	3.18%
T1ISRE(IRF)/Ifnb-Exp/Homer	ACTTTCGTTTCT	1e0	-1.414e-01	1.0000	10.0	0.09%	50.9	0.13%
GATA-DR4(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATGKDGAGATAAG	1e0	-1.414e-01	1.0000	125.0	1.17%	507.7	1.29%
NF1(CTF)/LNCAP-NF1-ChIP-Seq/Homer	CYTGGCABNSTGCCAR	1e0	-1.382e-01	1.0000	230.0	2.15%	911.5	2.31%
GFY-Staf/Promoters/Homer	RACTACAATTCCCAGAAKGC	1e0	-1.361e-01	1.0000	16.0	0.15%	76.8	0.19%
CHR/Cell-Cycle-Exp/Homer	SRGTTTCAAA	1e0	-1.330e-01	1.0000	1023.0	9.57%	3902.2	9.89%
Pbx3(Homeobox)/GM12878-PBX3-ChIP-Seq/Homer	SCTGTCAMTCAN	1e0	-1.317e-01	1.0000	153.0	1.43%	617.9	1.57%
CEBP:AP1(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	DRTGTTGCAA	1e0	-1.205e-01	1.0000	925.0	8.65%	3541.9	8.98%
Rbpj1(?)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	HTTTCCCASG	1e0	-1.090e-01	1.0000	1307.0	12.22%	4978.8	12.62%
Tbet(T-box)/CD8-Tbet-ChIP-Seq(GSE33802)/Homer	AGGTGTGAAM	1e0	-1.070e-01	1.0000	1258.0	11.76%	4796.8	12.16%
E-box(HLH)/Promoter/Homer	SSGGTCACGTGA	1e0	-9.816e-02	1.0000	19.0	0.18%	92.7	0.24%
Pax8(Paired/Homeobox)/Rat-Pax8-ChIP-Seq/Homer	GTCATGCHTGRCTGS	1e0	-9.617e-02	1.0000	221.0	2.07%	888.1	2.25%
Egr2/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer	NGCGTGGGCGGR	1e0	-8.514e-02	1.0000	40.0	0.37%	181.5	0.46%
MafK(bZIP)/C2C12-MafK-ChIP-Seq(GSE36030)/Homer	GCTGASTCAGCA	1e0	-7.885e-02	1.0000	124.0	1.16%	517.3	1.31%
Pitx1(Homeobox)/Chicken-Pitx1-ChIP-Seq(GSE38910)/Homer	TAATCCCN	1e0	-7.654e-02	1.0000	5886.0	55.04%	21980.1	55.73%
TATA-Box(TBP)/Promoter/Homer	CCTTTTAWAGSC	1e0	-7.609e-02	1.0000	1686.0	15.77%	6420.5	16.28%
Foxh1(Forkhead)/hESC-FOXH1-ChIP-Seq(GSE29422)/Homer	NNTGTGGATTSS	1e0	-7.488e-02	1.0000	768.0	7.18%	2977.8	7.55%
Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer	SCCTAGCAACAG	1e0	-7.324e-02	1.0000	229.0	2.14%	927.3	2.35%
Stat3(Stat)/mES-Stat3-ChIP-Seq/Homer	CTTCCGGGAA	1e0	-7.175e-02	1.0000	353.0	3.30%	1404.6	3.56%
MYB(HTH)/ERMYB-Myb-ChIPSeq(GSE22095)/Homer	GGCVGTTR	1e0	-6.272e-02	1.0000	1623.0	15.18%	6198.7	15.72%
Bach2(bZIP)/OCILy7-Bach2-ChIP-Seq(GSE44420)/Homer	TGCTGAGTCA	1e0	-6.203e-02	1.0000	111.0	1.04%	471.5	1.20%
ETS1(ETS)/Jurkat-ETS1-ChIP-Seq/Homer	ACAGGAAGTG	1e0	-6.184e-02	1.0000	771.0	7.21%	2998.6	7.60%
NRF1(NRF)/MCF7-NRF1-ChIP-Seq/Homer	CTGCGCATGCGC	1e0	-5.676e-02	1.0000	7.0	0.07%	43.4	0.11%
PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer	GSCTGTCACTCA	1e0	-5.439e-02	1.0000	40.0	0.37%	187.3	0.47%
Gata2(Zf)/K562-GATA2-ChIP-Seq/Homer	BBCTTATCTS	1e0	-5.408e-02	1.0000	746.0	6.98%	2910.4	7.38%
STAT4(Stat)/CD4-Stat4-ChIP-Seq/Homer	NYTTCCWGGAAR	1e0	-4.492e-02	1.0000	1035.0	9.68%	4011.5	10.17%
Nrf2(bZIP)/Lymphoblast-Nrf2-ChIP-Seq(GSE37589)/Homer	HTGCTGAGTCAT	1e0	-4.414e-02	1.0000	25.0	0.23%	126.6	0.32%
ZNF143|STAF(Zf)/CUTLL-ZNF143-ChIP-Seq(GSE29600)/Homer	ATTTCCCAGVAKSCY	1e0	-4.273e-02	1.0000	222.0	2.08%	915.5	2.32%
Smad4(MAD)/ESC-SMAD4-ChIP-Seq(GSE29422)/Homer	VBSYGTCTGG	1e0	-4.242e-02	1.0000	1044.0	9.76%	4048.3	10.26%
CTCF-SatelliteElement/CD4+-CTCF-ChIP-Seq/Homer	TGCAGTTCCMVNWRTGGCCA	1e0	-4.129e-02	1.0000	5.0	0.05%	35.3	0.09%
STAT5(Stat)/mCD4+-Stat5a|b-ChIP-Seq/Homer	RTTTCTNAGAAA	1e0	-4.124e-02	1.0000	353.0	3.30%	1423.2	3.61%
X-box(HTH)/NPC-H3K4me1-ChIP-Seq/Homer	GGTTGCCATGGCAA	1e0	-4.011e-02	1.0000	62.0	0.58%	282.9	0.72%
PAX5-shortForm(Paired/Homeobox)/GM12878-PAX5-ChIP-Seq/Homer	GTCACGCTCSCTGM	1e0	-3.847e-02	1.0000	49.0	0.46%	229.5	0.58%
HEB?/mES-Nanog-ChIP-Seq/Homer	CACAGCAGGGGG	1e0	-3.581e-02	1.0000	314.0	2.94%	1277.3	3.24%
Bach1(bZIP)/K562-Bach1-ChIP-Seq(GSE31477)/Homer	AWWNTGCTGAGTCAT	1e0	-3.089e-02	1.0000	32.0	0.30%	160.6	0.41%
Rfx1(HTH)/NPC-Rfx1-ChIP-Seq/Homer	KGTTGCCATGGCAA	1e0	-3.044e-02	1.0000	110.0	1.03%	481.3	1.22%
CTCF(Zf)/CD4+-CTCF-ChIP-Seq/Homer	AYAGTGCCMYCTRGTGGCCA	1e0	-2.416e-02	1.0000	30.0	0.28%	154.9	0.39%
Eomes(T-box)/H9-Eomes-ChIP-Seq/Homer	AGGTGTTAAN	1e0	-2.352e-02	1.0000	3965.0	37.08%	14989.2	38.01%
REST-NRSF(Zf)/Jurkat-NRSF-ChIP-Seq/Homer	GGMGCTGTCCATGGTGCTGA	1e0	-2.270e-02	1.0000	1.0	0.01%	14.2	0.04%
CArG(MADS)/PUER-Srf-ChIP-Seq/Homer	CCATATATGGNM	1e0	-1.904e-02	1.0000	309.0	2.89%	1276.3	3.24%
GRE(NR/IR3)/A549-GR-ChIP-Seq/Homer	NRGVACABNVTGTYCY	1e0	-1.883e-02	1.0000	69.0	0.65%	322.9	0.82%
HRE(HSF)/HepG2-HSF1-ChIP-Seq/Homer	BSTTCTRGAABVTTCYAGAA	1e0	-1.797e-02	1.0000	79.0	0.74%	364.1	0.92%
Atf4(bZIP)/MEF-Atf4-ChIP-Seq(GSE35681)/Homer	ATGATGCAAT	1e0	-1.743e-02	1.0000	215.0	2.01%	910.5	2.31%
Nr5a2(NR)/Pancreas-LRH1-ChIP-Seq(GSE34295)/Homer	BTCAAGGTCA	1e0	-1.742e-02	1.0000	492.0	4.60%	1987.2	5.04%
NFAT:AP1/Jurkat-NFATC1-ChIP-Seq/Homer	SARTGGAAAAWRTGAGTCAB	1e0	-1.490e-02	1.0000	174.0	1.63%	751.0	1.90%
GFY(?)/Promoter/Homer	ACTACAATTCCC	1e0	-1.423e-02	1.0000	29.0	0.27%	155.1	0.39%
TEAD4(TEA)/Tropoblast-Tead4-ChIP-Seq(GSE37350)/Homer	CCWGGAATGY	1e0	-1.056e-02	1.0000	795.0	7.43%	3167.5	8.03%
Esrrb(NR)/mES-Esrrb-ChIP-Seq/Homer	KTGACCTTGA	1e0	-1.049e-02	1.0000	497.0	4.65%	2023.4	5.13%
Nr5a2(NR)/mES-Nr5a2-ChIP-Seq/Homer	BTCAAGGTCA	1e0	-9.129e-03	1.0000	317.0	2.96%	1327.3	3.37%
Stat3+il23(Stat)/CD4-Stat3-ChIP-Seq/Homer	SVYTTCCNGGAARB	1e0	-7.453e-03	1.0000	541.0	5.06%	2204.5	5.59%
TEAD(TEA)/Fibroblast-PU.1-ChIP-Seq/Homer	YCWGGAATGY	1e0	-6.675e-03	1.0000	775.0	7.25%	3108.0	7.88%
ZFX(Zf)/mES-Zfx-ChIP-Seq/Homer	AGGCCTRG	1e0	-6.294e-03	1.0000	764.0	7.14%	3069.0	7.78%
CRE(bZIP)/Promoter/Homer	CSGTGACGTCAC	1e0	-3.919e-03	1.0000	69.0	0.65%	343.3	0.87%
NF1-halfsite(CTF)/LNCaP-NF1-ChIP-Seq/Homer	YTGCCAAG	1e0	-1.747e-03	1.0000	1330.0	12.44%	5279.3	13.39%
ZNF711(Zf)/SH-SY5Y-ZNF711-ChIP-Seq/Homer	AGGCCTAG	1e0	-1.736e-03	1.0000	1135.0	10.61%	4536.4	11.50%
Bcl6(Zf)/Liver-Bcl6-ChIP-Seq(GSE31578)/Homer	NNNCTTTCCAGGAAA	1e0	-1.368e-03	1.0000	1298.0	12.14%	5167.3	13.10%
GATA-IR4(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NAGATWNBNATCTNN	1e0	-1.219e-03	1.0000	72.0	0.67%	370.9	0.94%
Tbx5(T-box)/HL1-Tbx5.biotin-ChIP-Seq/Homer	AGGTGTCA	1e0	-1.890e-04	1.0000	3280.0	30.67%	12726.8	32.27%