Motif Name	Consensus	P-value	Log P-value	q-value (Benjamini)	# of Target Sequences with Motif(of 1474)	% of Target Sequences with Motif	# of Background Sequences with Motif(of 48608)	% of Background Sequences with Motif
MyoD(HLH)/Myotube-MyoD-ChIP-Seq/Homer	RRCAGCTGYTSY	1e-5	-1.204e+01	0.0014	1158.0	78.56%	35775.4	73.60%
CTCF(Zf)/CD4+-CTCF-ChIP-Seq/Homer	AYAGTGCCMYCTRGTGGCCA	1e-4	-1.115e+01	0.0017	320.0	21.71%	8471.7	17.43%
CTCF-SatelliteElement/CD4+-CTCF-ChIP-Seq/Homer	TGCAGTTCCMVNWRTGGCCA	1e-4	-1.101e+01	0.0017	68.0	4.61%	1299.0	2.67%
HNF4a(NR/DR1)/HepG2-HNF4a-ChIP-Seq/Homer	CARRGKBCAAAGTYCA	1e-4	-1.054e+01	0.0017	1059.0	71.85%	32528.9	66.92%
Ap4(HLH)/AML-Tfap4-ChIP-Seq(GSE45738)/Homer	NAHCAGCTGD	1e-4	-1.009e+01	0.0019	1382.0	93.76%	44193.7	90.92%
ETS:E-box/HPC7-Scl-ChIP-Seq/Homer	AGGAARCAGCTG	1e-4	-9.768e+00	0.0022	324.0	21.98%	8745.9	17.99%
BORIS(Zf)/K562-CTCFL-ChIP-Seq/Homer	CNNBRGCGCCCCCTGSTGGC	1e-4	-9.579e+00	0.0023	439.0	29.78%	12326.6	25.36%
STAT1(Stat)/HelaS3-STAT1-ChIP-Seq/Homer	NATTTCCNGGAAAT	1e-3	-8.853e+00	0.0041	898.0	60.92%	27327.5	56.22%
ERG(ETS)/VCaP-ERG-ChIP-Seq/Homer	ACAGGAAGTG	1e-3	-8.754e+00	0.0041	1461.0	99.12%	47571.6	97.87%
Nur77(NR)/K562-NR4A1-ChIP-Seq(GSE31363)/Homer	TGACCTTTNCNT	1e-3	-8.146e+00	0.0066	609.0	41.32%	17950.0	36.93%
STAT5(Stat)/mCD4+-Stat5a|b-ChIP-Seq/Homer	RTTTCTNAGAAA	1e-3	-7.443e+00	0.0122	941.0	63.84%	29009.3	59.68%
MYB(HTH)/ERMYB-Myb-ChIPSeq(GSE22095)/Homer	GGCVGTTR	1e-3	-7.290e+00	0.0130	1467.0	99.53%	47943.3	98.64%
Atoh1(bHLH)/Cerebellum-Atoh1-ChIP-Seq/Homer	VNRVCAGCTGGY	1e-3	-7.038e+00	0.0155	1370.0	92.94%	44047.0	90.62%
STAT6(Stat)/CD4-Stat6-ChIP-Seq/Homer	ABTTCYYRRGAA	1e-2	-6.769e+00	0.0188	1184.0	80.33%	37428.7	77.00%
TRa(NR)/C17.2-TRa-ChIP-Seq(GSE38347)/Homer	GGTCANYTGAGGWCA	1e-2	-6.238e+00	0.0298	1221.0	82.84%	38806.8	79.84%
GATA:SCL/Ter119-SCL-ChIP-Seq/Homer	CRGCTGBNGNSNNSAGATAA	1e-2	-6.237e+00	0.0298	409.0	27.75%	11881.0	24.44%
Stat3+il23(Stat)/CD4-Stat3-ChIP-Seq/Homer	SVYTTCCNGGAARB	1e-2	-6.213e+00	0.0298	1250.0	84.80%	39828.0	81.94%
STAT6/Macrophage-Stat6-ChIP-Seq/Homer	TTCCKNAGAA	1e-2	-6.159e+00	0.0298	1169.0	79.31%	37010.9	76.14%
Stat3(Stat)/mES-Stat3-ChIP-Seq/Homer	CTTCCGGGAA	1e-2	-5.820e+00	0.0358	1036.0	70.28%	32520.2	66.90%
NF1-halfsite(CTF)/LNCaP-NF1-ChIP-Seq/Homer	YTGCCAAG	1e-2	-5.695e+00	0.0385	1465.0	99.39%	47927.8	98.60%
Tbx20(T-box)/Heart-Tbx20-ChIP-Seq(GSE29636)/Homer	GGTGYTGACAGS	1e-2	-5.650e+00	0.0385	585.0	39.69%	17625.9	36.26%
Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo et al.)/Homer	TBGCACGCAA	1e-2	-5.410e+00	0.0465	1078.0	73.13%	34028.9	70.01%
BMYB(HTH)/Hela-BMYB-ChIPSeq(GSE27030)/Homer	NHAACBGYYV	1e-2	-5.363e+00	0.0467	1455.0	98.71%	47506.1	97.74%
Six1(Homeobox)/Myoblast-Six1-ChIP-Chip(GSE20150)/Homer	GKVTCADRTTWC	1e-2	-5.337e+00	0.0467	767.0	52.04%	23637.5	48.63%
TCFL2(HMG)/K562-TCF7L2-ChIP-Seq(GSE29196)/Homer	ACWTCAAAGG	1e-2	-5.253e+00	0.0479	285.0	19.34%	8151.5	16.77%
PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer	ADGGYAGYAGCATCT	1e-2	-5.192e+00	0.0490	953.0	64.65%	29852.4	61.42%
Tcf12(HLH)/GM12878-Tcf12-ChIP-Seq/Homer	VCAGCTGYTG	1e-2	-5.069e+00	0.0533	1252.0	84.94%	40087.4	82.47%
EGR(Zf)/K562-EGR1-ChIP-Seq/Homer	TCCGCCCACGCA	1e-2	-4.634e+00	0.0795	366.0	24.83%	10809.4	22.24%
EBNA1(EBV virus)/Raji-EBNA1-ChIP-Seq(GSE30709)/Homer	GGYAGCAYDTGCTDCCCNNN	1e-1	-4.456e+00	0.0917	51.0	3.46%	1199.5	2.47%
Ets1-distal(ETS)/CD4+-PolII-ChIP-Seq/Homer	MACAGGAAGT	1e-1	-4.382e+00	0.0954	749.0	50.81%	23264.7	47.86%
HEB?/mES-Nanog-ChIP-Seq/Homer	CACAGCAGGGGG	1e-1	-3.925e+00	0.1458	1022.0	69.34%	32463.1	66.79%
Hoxc9/Ainv15-Hoxc9-ChIP-Seq/Homer	GGCCATAAATCA	1e-1	-3.830e+00	0.1553	1190.0	80.73%	38185.5	78.56%
STAT4(Stat)/CD4-Stat4-ChIP-Seq/Homer	NYTTCCWGGAAR	1e-1	-3.558e+00	0.1978	1387.0	94.10%	45111.6	92.81%
E2A-nearPU.1(HLH)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	NVCACCTGBN	1e-1	-3.490e+00	0.2055	1452.0	98.51%	47529.7	97.78%
GRE/RAW264.7-GRE-ChIP-Seq/Homer	VAGRACAKWCTGTYC	1e-1	-3.415e+00	0.2150	623.0	42.27%	19384.2	39.88%
ETS(ETS)/Promoter/Homer	AACCGGAAGT	1e-1	-3.272e+00	0.2414	660.0	44.78%	20635.4	42.45%
Tcf4(HMG)/Hct116-Tcf4-ChIP-Seq/Homer	ASATCAAAGGVA	1e-1	-3.270e+00	0.2414	1072.0	72.73%	34315.7	70.60%
ELF5(ETS)/T47D-ELF5-ChIP-Seq(GSE30407)/Homer	ACVAGGAAGT	1e-1	-3.197e+00	0.2464	1276.0	86.57%	41280.5	84.93%
NeuroD1(bHLH)/Islet-NeuroD1-ChIP-Seq(GSE30298)/Homer	GCCATCTGTT	1e-1	-3.136e+00	0.2551	1265.0	85.82%	40914.8	84.18%
ELF1(ETS)/Jurkat-ELF1-ChIP-Seq/Homer	AVCCGGAAGT	1e-1	-3.083e+00	0.2622	876.0	59.43%	27815.9	57.23%
Foxo1(Forkhead)/RAW-Foxo1-ChIP-Seq/Homer	CTGTTTAC	1e-1	-3.015e+00	0.2739	1473.0	99.93%	48449.9	99.68%
ETV1(ETS)/GIST48-ETV1-ChIP-Seq/Homer	AACCGGAAGT	1e-1	-2.933e+00	0.2902	1420.0	96.34%	46391.1	95.44%
CRE(bZIP)/Promoter/Homer	CSGTGACGTCAC	1e-1	-2.882e+00	0.2982	451.0	30.60%	13942.9	28.69%
E2A(HLH)/proBcell-E2A-ChIP-Seq/Homer	DNRCAGCTGY	1e-1	-2.791e+00	0.3195	1440.0	97.69%	47142.1	96.99%
RBPJ:Ebox/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	GGGRAARRGRMCAGMTG	1e-1	-2.779e+00	0.3195	799.0	54.21%	25359.4	52.17%
PR(NR)/T47D-PR-ChIP-Seq(GSE31130)/Homer	VAGRACAKNCTGTBC	1e-1	-2.762e+00	0.3195	1474.0	100.00%	48515.8	99.81%
RFX(HTH)/K562-RFX3-ChIP-Seq/Homer	CGGTTGCCATGGCAAC	1e-1	-2.758e+00	0.3195	176.0	11.94%	5185.7	10.67%
Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer	BAACAGCTGT	1e-1	-2.660e+00	0.3338	1133.0	76.87%	36541.4	75.18%
CArG(MADS)/PUER-Srf-ChIP-Seq/Homer	CCATATATGGNM	1e-1	-2.516e+00	0.3775	869.0	58.96%	27763.4	57.12%
Srebp2(HLH)/HepG2-Srebp2-ChIP-Seq/Homer	CGGTCACSCCAC	1e-1	-2.511e+00	0.3775	700.0	47.49%	22185.8	45.64%
EWS:ERG-fusion(ETS)/CADO_ES1-EWS:ERG-ChIP-Seq/Homer	ATTTCCTGTN	1e-1	-2.492e+00	0.3775	1302.0	88.33%	42333.4	87.09%
SPDEF(ETS)/VCaP-SPDEF-ChIP-Seq/Homer	ASWTCCTGBT	1e-1	-2.459e+00	0.3775	1361.0	92.33%	44379.4	91.30%
Nkx2.1(Homeobox)/H3122-NKX2.1-ChIP-Seq(GSE39998)/Homer	CCACTCAA	1e-1	-2.398e+00	0.3929	1474.0	100.00%	48527.6	99.84%
MafA(bZIP)/Islet-MafA-ChIP-Seq(GSE30298)/Homer	TGCTGACTCA	1e-1	-2.378e+00	0.3932	1210.0	82.09%	39225.8	80.70%
Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer	SCCTAGCAACAG	1e-1	-2.368e+00	0.3932	805.0	54.61%	25696.2	52.87%
Tbox:Smad/ESCd5-Smad2_3-ChIP-Seq(GSE29422)/Homer	AGGTGHCAGACA	1e-1	-2.303e+00	0.4087	555.0	37.65%	17505.6	36.01%
Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer	HACTTCCGGY	1e0	-2.292e+00	0.4087	888.0	60.24%	28471.5	58.58%
ARE(NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	RGRACASNSTGTYCYB	1e0	-2.268e+00	0.4088	620.0	42.06%	19644.6	40.42%
X-box(HTH)/NPC-H3K4me1-ChIP-Seq/Homer	GGTTGCCATGGCAA	1e0	-2.257e+00	0.4088	298.0	20.22%	9186.9	18.90%
Hoxb4/ES-Hoxb4-ChIP-Seq(GSE34014)/Homer	TGATTRATGGCY	1e0	-2.216e+00	0.4162	618.0	41.93%	19597.3	40.32%
Smad2(MAD)/ES-SMAD2-ChIP-Seq(GSE29422)/Homer	CTGTCTGG	1e0	-2.158e+00	0.4337	1426.0	96.74%	46716.8	96.11%
Tcf3(HMG)/mES-Tcf3-ChIP-Seq/Homer	ASWTCAAAGG	1e0	-2.150e+00	0.4337	734.0	49.80%	23434.0	48.21%
Srebp1a(HLH)/HepG2-Srebp1a-ChIP-Seq/Homer	RTCACSCCAY	1e0	-2.104e+00	0.4433	827.0	56.11%	26520.9	54.56%
HIF-1a(HLH)/MCF7-HIF1a-ChIP-Seq/Homer	TACGTGCV	1e0	-2.065e+00	0.4538	604.0	40.98%	19194.3	39.49%
EBF(EBF)/proBcell-EBF-ChIP-Seq/Homer	DGTCCCYRGGGA	1e0	-2.065e+00	0.4538	519.0	35.21%	16414.3	33.77%
AP2gamma(AP2)/MCF7-TFAP2c-ChIP-Seq/Homer	HHTGSCCTSAGGSCA	1e0	-2.016e+00	0.4622	1138.0	77.20%	36909.1	75.93%
IRF2(IRF)/Erythroblas-IRF2-ChIP-Seq(GSE36985)/Homer	GAAASYGAAASY	1e0	-2.014e+00	0.4622	380.0	25.78%	11909.2	24.50%
AP-2alpha(AP2)/Hela-AP2alpha-ChIP-Seq/Homer	ATGCCCTGAGGC	1e0	-1.959e+00	0.4746	1083.0	73.47%	35086.9	72.19%
GRE(NR/IR3)/A549-GR-ChIP-Seq/Homer	NRGVACABNVTGTYCY	1e0	-1.919e+00	0.4871	348.0	23.61%	10904.3	22.43%
Sox3(HMG)/NPC-Sox3-ChIP-Seq(GSE33059)/Homer	CCWTTGTY	1e0	-1.903e+00	0.4880	1463.0	99.25%	48093.2	98.94%
HRE(HSF)/HepG2-HSF1-ChIP-Seq/Homer	BSTTCTRGAABVTTCYAGAA	1e0	-1.897e+00	0.4880	403.0	27.34%	12696.5	26.12%
Erra(NR)/HepG2-Erra-ChIP-Seq/Homer	CAAAGGTCAG	1e0	-1.825e+00	0.5127	1472.0	99.86%	48454.1	99.69%
Tcfcp2l1(CP2)/mES-Tcfcp2l1-ChIP-Seq/Homer	NRAACCRGTTYRAACCRGYT	1e0	-1.672e+00	0.5892	349.0	23.68%	11023.8	22.68%
Fox:Ebox(Forkhead:HLH)/Panc1-Foxa2-ChIP-Seq(GSE47459)/Homer	NNNVCTGWGYAAACASN	1e0	-1.591e+00	0.6301	1390.0	94.30%	45564.2	93.74%
Egr2/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer	NGCGTGGGCGGR	1e0	-1.576e+00	0.6313	319.0	21.64%	10084.1	20.75%
GATA-DR8(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATSTNDNNDSAGATAASN	1e0	-1.558e+00	0.6345	284.0	19.27%	8955.1	18.42%
Sox2(HMG)/mES-Sox2-ChIP-Seq/Homer	BCCATTGTTC	1e0	-1.529e+00	0.6445	1342.0	91.04%	43943.8	90.41%
E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer	GGCGGGAARN	1e0	-1.518e+00	0.6445	772.0	52.37%	24950.9	51.33%
Bcl6(Zf)/Liver-Bcl6-ChIP-Seq(GSE31578)/Homer	NNNCTTTCCAGGAAA	1e0	-1.462e+00	0.6717	1445.0	98.03%	47492.8	97.71%
NFAT(RHD)/Jurkat-NFATC1-ChIP-Seq/Homer	ATTTTCCATT	1e0	-1.458e+00	0.6717	1368.0	92.81%	44845.4	92.26%
ERE(NR/IR3)/MCF7-ERa-ChIP-Seq/Homer	VAGGTCACNSTGACC	1e0	-1.423e+00	0.6816	653.0	44.30%	21077.0	43.36%
PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	MGGAAGTGAAAC	1e0	-1.419e+00	0.6816	1450.0	98.37%	47674.2	98.08%
AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	VTGACTCATC	1e0	-1.401e+00	0.6816	1251.0	84.87%	40917.6	84.18%
GABPA(ETS)/Jurkat-GABPa-ChIP-Seq/Homer	RACCGGAAGT	1e0	-1.366e+00	0.6957	1255.0	85.14%	41064.7	84.48%
Pax7-longest(Paired/Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	NTAATTDGCYAATTANNWWD	1e0	-1.325e+00	0.7163	233.0	15.81%	7385.4	15.19%
Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer	NRYTTCCGGY	1e0	-1.284e+00	0.7371	873.0	59.23%	28401.6	58.43%
PAX5-shortForm(Paired/Homeobox)/GM12878-PAX5-ChIP-Seq/Homer	GTCACGCTCSCTGM	1e0	-1.282e+00	0.7371	310.0	21.03%	9907.1	20.38%
Nr5a2(NR)/mES-Nr5a2-ChIP-Seq/Homer	BTCAAGGTCA	1e0	-1.268e+00	0.7371	1010.0	68.52%	32945.3	67.78%
Pbx3(Homeobox)/GM12878-PBX3-ChIP-Seq/Homer	SCTGTCAMTCAN	1e0	-1.264e+00	0.7371	591.0	40.09%	19117.6	39.33%
Tlx?/NPC-H3K4me1-ChIP-Seq/Homer	CTGGCAGSCTGCCA	1e0	-1.263e+00	0.7371	875.0	59.36%	28478.7	58.59%
EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer	NWGGGTGTGGCY	1e0	-1.248e+00	0.7371	665.0	45.12%	21559.5	44.35%
TEAD4(TEA)/Tropoblast-Tead4-ChIP-Seq(GSE37350)/Homer	CCWGGAATGY	1e0	-1.172e+00	0.7708	1352.0	91.72%	44386.1	91.32%
TR4(NR/DR1)/Hela-TR4-ChIP-Seq/Homer	GAGGTCAAAGGTCA	1e0	-1.109e+00	0.8127	299.0	20.28%	9624.7	19.80%
Rfx1(HTH)/NPC-Rfx1-ChIP-Seq/Homer	KGTTGCCATGGCAA	1e0	-1.106e+00	0.8127	498.0	33.79%	16146.5	33.22%
c-Myc(HLH)/LNCAP-cMyc-ChIP-Seq/Homer	VCCACGTG	1e0	-1.076e+00	0.8220	744.0	50.47%	24258.7	49.91%
Hnf1(Homeobox)/Liver-Foxa2-Chip-Seq/Homer	GGTTAAWCATTAA	1e0	-1.034e+00	0.8483	622.0	42.20%	20264.9	41.69%
Rbpj1(?)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	HTTTCCCASG	1e0	-1.028e+00	0.8483	1448.0	98.24%	47664.3	98.06%
Gata4(Zf)/Heart-Gata4-ChIP-Seq(GSE35151)/Homer	NBWGATAAGR	1e0	-1.027e+00	0.8483	1382.0	93.76%	45438.4	93.48%
TEAD(TEA)/Fibroblast-PU.1-ChIP-Seq/Homer	YCWGGAATGY	1e0	-9.914e-01	0.8583	1293.0	87.72%	42479.1	87.39%
Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer	GGGGGGGG	1e0	-9.884e-01	0.8583	1193.0	80.94%	39157.7	80.56%
TATA-Box(TBP)/Promoter/Homer	CCTTTTAWAGSC	1e0	-9.759e-01	0.8583	1435.0	97.35%	47233.6	97.18%
Mouse_Recombination_Hotspot/Testis-DMC1-ChIP-Seq/Homer	ACTYKNATTCGTGNTACTTC	1e0	-9.734e-01	0.8583	277.0	18.79%	8969.0	18.45%
ETS:RUNX/Jurkat-RUNX1-ChIP-Seq/Homer	RCAGGATGTGGT	1e0	-9.688e-01	0.8583	266.0	18.05%	8610.1	17.71%
E2F(E2F)/Cell-Cycle-Exp/Homer	TTSGCGCGAAAA	1e0	-8.675e-01	0.9248	70.0	4.75%	2243.2	4.61%
Sox6(HMG)/Myotubes-Sox6-ChIP-Seq(GSE32627)/Homer	CCATTGTTNY	1e0	-8.385e-01	0.9430	1454.0	98.64%	47899.8	98.55%
p63(p53)/Keratinocyte-p63-ChIP-Seq/Homer	NNDRCATGYCYNRRCATGYH	1e0	-8.318e-01	0.9430	843.0	57.19%	27679.9	56.95%
PRDM1/BMI1(Zf)/Hela-PRDM1-ChIP-Seq(GSE31477)/Homer	ACTTTCACTTTC	1e0	-8.200e-01	0.9430	1204.0	81.68%	39609.5	81.49%
EWS:FLI1-fusion(ETS)/SK_N_MC-EWS:FLI1-ChIP-Seq/Homer	VACAGGAAAT	1e0	-7.978e-01	0.9548	1056.0	71.64%	34732.5	71.46%
ZFX(Zf)/mES-Zfx-ChIP-Seq/Homer	AGGCCTRG	1e0	-7.719e-01	0.9709	1320.0	89.55%	43470.1	89.43%
GATA-IR4(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NAGATWNBNATCTNN	1e0	-7.311e-01	1.0000	295.0	20.01%	9691.7	19.94%
Nkx2.5(Homeobox)/HL1-Nkx2.5.biotin-ChIP-Seq/Homer	RRSCACTYAA	1e0	-7.280e-01	1.0000	1474.0	100.00%	48582.2	99.95%
ZNF143|STAF(Zf)/CUTLL-ZNF143-ChIP-Seq(GSE29600)/Homer	ATTTCCCAGVAKSCY	1e0	-7.139e-01	1.0000	842.0	57.12%	27732.2	57.05%
Klf4(Zf)/mES-Klf4-ChIP-Seq/Homer	GCCACACCCA	1e0	-6.924e-01	1.0000	929.0	63.03%	30617.9	62.99%
PU.1(ETS)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	AGAGGAAGTG	1e0	-6.822e-01	1.0000	1008.0	68.39%	33229.0	68.36%
MyoG(HLH)/C2C12-MyoG-ChIP-Seq(GSE36024)/Homer	AACAGCTG	1e0	-6.792e-01	1.0000	1275.0	86.50%	42031.1	86.47%
NF1:FOXA1/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WNTGTTTRYTTTGGCA	1e0	-6.653e-01	1.0000	206.0	13.98%	6796.3	13.98%
OCT4-SOX2-TCF-NANOG((POU/Homeobox/HMG)/mES-ChIP-Seq/Homer	ATTTGCATAACAATG	1e0	-6.262e-01	1.0000	721.0	48.91%	23814.0	48.99%
Nr5a2(NR)/Pancreas-LRH1-ChIP-Seq(GSE34295)/Homer	BTCAAGGTCA	1e0	-6.214e-01	1.0000	1197.0	81.21%	39498.4	81.26%
FXR(NR/IR1)/Liver-FXR-ChIP-Seq/Homer	AGGTCANTGACCTB	1e0	-5.832e-01	1.0000	874.0	59.29%	28894.7	59.45%
GFY(?)/Promoter/Homer	ACTACAATTCCC	1e0	-5.698e-01	1.0000	173.0	11.74%	5761.0	11.85%
Reverb(NR/DR2)/BLRP(RAW)-Reverba-ChIP-Seq/Homer	GTRGGTCASTGGGTCA	1e0	-5.498e-01	1.0000	516.0	35.01%	17118.4	35.22%
RARg(NR)/ES-RARg-ChIP-Seq(GSE30538)/Homer	AGGTCAAGGTCA	1e0	-5.295e-01	1.0000	115.0	7.80%	3857.2	7.94%
E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer	GGCGGGAAAH	1e0	-5.291e-01	1.0000	583.0	39.55%	19349.7	39.81%
USF1(HLH)/GM12878-Usf1-ChIP-Seq/Homer	SGTCACGTGR	1e0	-4.908e-01	1.0000	863.0	58.55%	28618.8	58.88%
Ptf1a(HLH)/Panc1-Ptf1a-ChIP-Seq(GSE47459)/Homer	ACAGCTGTTN	1e0	-4.666e-01	1.0000	1472.0	99.86%	48534.6	99.85%
Nkx3.1(Homeobox)/LNCaP-Nkx3.1-ChIP-Seq(GSE28264)/Homer	AAGCACTTAA	1e0	-4.550e-01	1.0000	1474.0	100.00%	48591.5	99.97%
VDR(NR/DR3)/GM10855-VDR+vitD-ChIP-Seq/Homer	ARAGGTCANWGAGTTCANNN	1e0	-4.529e-01	1.0000	565.0	38.33%	18830.1	38.74%
Fli1(ETS)/CD8-FLI-ChIP-Seq(GSE20898)/Homer	NRYTTCCGGH	1e0	-4.199e-01	1.0000	1325.0	89.89%	43825.8	90.16%
NFkB-p65(RHD)/GM12787-p65-ChIP-Seq/Homer	WGGGGATTTCCC	1e0	-3.747e-01	1.0000	1048.0	71.10%	34819.9	71.64%
Atf1(bZIP)/K562-ATF1-ChIP-Seq(GSE31477)/Homer	GATGACGTCA	1e0	-3.699e-01	1.0000	1320.0	89.55%	43698.3	89.90%
NF-E2(bZIP)/K562-NFE2-ChIP-Seq/Homer	GATGACTCAGCA	1e0	-3.456e-01	1.0000	145.0	9.84%	4978.9	10.24%
Foxa2(Forkhead)/Liver-Foxa2-ChIP-Seq/Homer	CYTGTTTACWYW	1e0	-3.409e-01	1.0000	1314.0	89.15%	43526.5	89.55%
LXRE(NR/DR4)/BLRP(RAW)-LXRb-ChIP-Seq/Homer	RGGTTACTANAGGTCA	1e0	-3.303e-01	1.0000	688.0	46.68%	23037.5	47.40%
p53(p53)/mES-cMyc-ChIP-Seq/Homer	ACATGCCCGGGCAT	1e0	-3.280e-01	1.0000	71.0	4.82%	2491.5	5.13%
RUNX2(Runt)/PCa-RUNX2-ChIP-Seq(GSE33889)/Homer	NWAACCACADNN	1e0	-3.228e-01	1.0000	1321.0	89.62%	43767.2	90.04%
HOXA2(Homeobox)/mES-Hoxa2-ChIP-Seq/Homer	GYCATCMATCAT	1e0	-3.200e-01	1.0000	341.0	23.13%	11554.9	23.77%
ATF3(bZIP)/K562-ATF3-ChIP-Seq/Homer	SGGTCACGTGAC	1e0	-3.150e-01	1.0000	355.0	24.08%	12026.5	24.74%
ISRE(IRF)/ThioMac-LPS-exp(GSE23622)/HOMER	AGTTTCASTTTC	1e0	-3.012e-01	1.0000	230.0	15.60%	7870.0	16.19%
ZNF711(Zf)/SH-SY5Y-ZNF711-ChIP-Seq/Homer	AGGCCTAG	1e0	-2.853e-01	1.0000	1417.0	96.13%	46867.0	96.42%
Olig2(bHLH)/Neuron-Olig2-ChIP-Seq(GSE30882)/Homer	RCCATMTGTT	1e0	-2.747e-01	1.0000	1466.0	99.46%	48383.1	99.54%
NRF1/Promoter/Homer	STGCGCATGCGC	1e0	-2.685e-01	1.0000	189.0	12.82%	6529.5	13.43%
PAX5(Paired/Homeobox)/GM12878-PAX5-ChIP-Seq/Homer	GCAGCCAAGCRTGACH	1e0	-2.659e-01	1.0000	877.0	59.50%	29353.2	60.39%
JunD(bZIP)/K562-JunD-ChIP-Seq/Homer	ATGACGTCATCN	1e0	-2.633e-01	1.0000	191.0	12.96%	6602.5	13.58%
Tbx5(T-box)/HL1-Tbx5.biotin-ChIP-Seq/Homer	AGGTGTCA	1e0	-2.426e-01	1.0000	1474.0	100.00%	48598.0	99.98%
HOXD13(Homeobox)/Chicken-Hoxd13-ChIP-Seq(GSE38910)/Homer	NCYAATAAAA	1e0	-2.371e-01	1.0000	1392.0	94.44%	46108.4	94.86%
Cdx2(Homeobox)/mES-Cdx2-ChIP-Seq/Homer	GYMATAAAAH	1e0	-2.274e-01	1.0000	1292.0	87.65%	42924.3	88.31%
PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer	GSCTGTCACTCA	1e0	-2.216e-01	1.0000	213.0	14.45%	7393.7	15.21%
E-box(HLH)/Promoter/Homer	SSGGTCACGTGA	1e0	-2.172e-01	1.0000	149.0	10.11%	5235.4	10.77%
MafK(bZIP)/C2C12-MafK-ChIP-Seq(GSE36030)/Homer	GCTGASTCAGCA	1e0	-2.168e-01	1.0000	544.0	36.91%	18451.8	37.96%
Pitx1(Homeobox)/Chicken-Pitx1-ChIP-Seq(GSE38910)/Homer	TAATCCCN	1e0	-2.123e-01	1.0000	1474.0	100.00%	48599.6	99.99%
PAX3:FKHR-fusion(Paired/Homeobox)/Rh4-PAX3:FKHR-ChIP-Seq/Homer	ACCRTGACTAATTNN	1e0	-2.034e-01	1.0000	654.0	44.37%	22117.7	45.50%
MafF(bZIP)/HepG2-MafF-ChIP-Seq(GSE31477)/Homer	HWWGTCAGCAWWTTT	1e0	-2.014e-01	1.0000	916.0	62.14%	30742.8	63.25%
GATA3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATAASR	1e0	-1.879e-01	1.0000	1441.0	97.76%	47666.2	98.07%
AR-halfsite(NR)/LNCaP-AR-ChIP-Seq(GSE27824)/Homer	CCAGGAACAG	1e0	-1.820e-01	1.0000	1474.0	100.00%	48600.4	99.99%
Eomes(T-box)/H9-Eomes-ChIP-Seq/Homer	AGGTGTTAAN	1e0	-1.820e-01	1.0000	1474.0	100.00%	48600.0	99.99%
bHLHE40(HLH)/HepG2-BHLHE40-ChIP-Seq/Homer	SGKCACGTGM	1e0	-1.805e-01	1.0000	383.0	25.98%	13161.7	27.08%
RXR(NR/DR1)/3T3L1-RXR-ChIP-Seq/Homer	TAGGGCAAAGGTCA	1e0	-1.754e-01	1.0000	1339.0	90.84%	44487.6	91.53%
Sp1(Zf)/Promoter/Homer	GGCCCCGCCCCC	1e0	-1.715e-01	1.0000	446.0	30.26%	15281.6	31.44%
Pax7(Paired/Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCAATTA	1e0	-1.670e-01	1.0000	442.0	29.99%	15157.1	31.18%
NFY(CCAAT)/Promoter/Homer	RGCCAATSRG	1e0	-1.570e-01	1.0000	1237.0	83.92%	41254.5	84.87%
Nanog(Homeobox)/mES-Nanog-ChIP-Seq/Homer	RGCCATTAAC	1e0	-1.516e-01	1.0000	1474.0	100.00%	48601.3	99.99%
FOXA1(Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WAAGTAAACA	1e0	-1.404e-01	1.0000	1415.0	96.00%	46906.2	96.50%
ETS1(ETS)/Jurkat-ETS1-ChIP-Seq/Homer	ACAGGAAGTG	1e0	-1.350e-01	1.0000	1321.0	89.62%	43971.6	90.46%
Nrf2(bZIP)/Lymphoblast-Nrf2-ChIP-Seq(GSE37589)/Homer	HTGCTGAGTCAT	1e0	-1.347e-01	1.0000	122.0	8.28%	4422.9	9.10%
Oct4:Sox17/F9-Sox17-ChIP-Seq(GSE44553)/Homer	CCATTGTATGCAAAT	1e0	-1.325e-01	1.0000	520.0	35.28%	17835.8	36.69%
Pax7-long(Paired/Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCHGATTAC	1e0	-1.296e-01	1.0000	142.0	9.63%	5118.6	10.53%
Pax8(Paired/Homeobox)/Rat-Pax8-ChIP-Seq/Homer	GTCATGCHTGRCTGS	1e0	-1.289e-01	1.0000	820.0	55.63%	27757.4	57.11%
Esrrb(NR)/mES-Esrrb-ChIP-Seq/Homer	KTGACCTTGA	1e0	-1.289e-01	1.0000	1177.0	79.85%	39378.7	81.01%
Jun-AP1(bZIP)/K562-cJun-ChIP-Seq/Homer	GATGASTCATCN	1e0	-1.236e-01	1.0000	555.0	37.65%	19022.4	39.14%
SCL/HPC7-Scl-ChIP-Seq/Homer	AVCAGCTG	1e0	-1.213e-01	1.0000	1474.0	100.00%	48602.7	99.99%
CEBP(bZIP)/CEBPb-ChIP-Seq(GSE21512)/Homer	ATTGCGCAAC	1e0	-1.194e-01	1.0000	1324.0	89.82%	44091.2	90.71%
Bach2(bZIP)/OCILy7-Bach2-ChIP-Seq(GSE44420)/Homer	TGCTGAGTCA	1e0	-1.188e-01	1.0000	454.0	30.80%	15673.7	32.25%
RUNX(Runt)/HPC7-Runx1-ChIP-Seq/Homer	SAAACCACAG	1e0	-1.180e-01	1.0000	1223.0	82.97%	40879.2	84.10%
Mef2a(MADS)/HL1-Mef2a.biotin-ChIP-Seq/Homer/	CYAAAAATAG	1e0	-1.152e-01	1.0000	1312.0	89.01%	43719.2	89.94%
PPARE(NR/DR1)/3T3L1-Pparg-ChIP-Seq/Homer	TGACCTTTGCCCCA	1e0	-1.087e-01	1.0000	1312.0	89.01%	43731.8	89.97%
Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq/Homer	MAATCACTGC	1e0	-9.268e-02	1.0000	1347.0	91.38%	44861.9	92.30%
Chop(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	ATTGCATCATCY	1e0	-9.156e-02	1.0000	540.0	36.64%	18624.6	38.32%
Unknown/Homeobox/Limb-p300-ChIP-Seq/Homer	SSCMATWAAA	1e0	-9.092e-02	1.0000	1253.0	85.01%	41899.5	86.20%
Gata1(Zf)/K562-GATA1-ChIP-Seq/Homer	SAGATAAGRV	1e0	-8.812e-02	1.0000	1154.0	78.29%	38741.7	79.70%
Tbet(T-box)/CD8-Tbet-ChIP-Seq(GSE33802)/Homer	AGGTGTGAAM	1e0	-8.429e-02	1.0000	1426.0	96.74%	47298.3	97.31%
FOXA1(Forkhead)/MCF7-FOXA1-ChIP-Seq/Homer	WAAGTAAACA	1e0	-8.253e-02	1.0000	1386.0	94.03%	46088.1	94.82%
HIF2a(HLH)/O785-HIF2a-ChIP-Seq(GSE34871)/Homer	GCACGTACCC	1e0	-8.224e-02	1.0000	687.0	46.61%	23531.2	48.41%
RUNX-AML(Runt)/CD4+-PolII-ChIP-Seq/Homer	GCTGTGGTTW	1e0	-8.138e-02	1.0000	1248.0	84.67%	41765.9	85.93%
Gata2(Zf)/K562-GATA2-ChIP-Seq/Homer	BBCTTATCTS	1e0	-6.642e-02	1.0000	1212.0	82.23%	40666.3	83.66%
Smad4(MAD)/ESC-SMAD4-ChIP-Seq(GSE29422)/Homer	VBSYGTCTGG	1e0	-6.565e-02	1.0000	1406.0	95.39%	46726.2	96.13%
Mef2c(MADS)/GM12878-Mef2c-ChIP-Seq(GSE32465)/Homer	DCYAAAAATAGM	1e0	-6.317e-02	1.0000	1339.0	90.84%	44677.6	91.92%
c-Jun-CRE(bZIP)/K562-cJun-ChIP-Seq/Homer	ATGACGTCATCY	1e0	-5.755e-02	1.0000	866.0	58.75%	29525.6	60.74%
Atf4(bZIP)/MEF-Atf4-ChIP-Seq(GSE35681)/Homer	ATGATGCAAT	1e0	-4.375e-02	1.0000	634.0	43.01%	21972.2	45.20%
EBF1(EBF)/Near-E2A-ChIP-Seq/Homer	GTCCCCWGGGGA	1e0	-4.325e-02	1.0000	1162.0	78.83%	39171.6	80.59%
NFAT:AP1/Jurkat-NFATC1-ChIP-Seq/Homer	SARTGGAAAAWRTGAGTCAB	1e0	-4.226e-02	1.0000	566.0	38.40%	19724.1	40.58%
GATA-IR3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NNNNNBAGATAWYATCTVHN	1e0	-3.818e-02	1.0000	609.0	41.32%	21182.6	43.58%
HOXA9/HSC-Hoxa9-ChIP-Seq(GSE33509)/Homer	GGCCATAAATCA	1e0	-3.512e-02	1.0000	1233.0	83.65%	41466.8	85.31%
p53(p53)/p53-ChIP-Chip/Homer	NRGACATGTCYRGACATGTC	1e0	-3.500e-02	1.0000	16.0	1.09%	789.9	1.63%
T1ISRE(IRF)/Ifnb-Exp/Homer	ACTTTCGTTTCT	1e0	-2.893e-02	1.0000	33.0	2.24%	1470.4	3.03%
CHR/Cell-Cycle-Exp/Homer	SRGTTTCAAA	1e0	-2.746e-02	1.0000	1235.0	83.79%	41576.2	85.54%
p53(p53)/Saos-p53-ChIP-Seq/Homer	RRCATGYCYRGRCATGYYYN	1e0	-2.664e-02	1.0000	247.0	16.76%	9075.6	18.67%
REST-NRSF(Zf)/Jurkat-NRSF-ChIP-Seq/Homer	GGMGCTGTCCATGGTGCTGA	1e0	-2.281e-02	1.0000	12.0	0.81%	654.1	1.35%
RUNX1(Runt)/Jurkat-RUNX1-ChIP-Seq/Homer	AAACCACARM	1e0	-1.923e-02	1.0000	1369.0	92.88%	45759.5	94.14%
CRX(Homeobox)/Retina-Crx-ChIP-Seq/Homer	GCTAATCC	1e0	-1.901e-02	1.0000	1469.0	99.66%	48538.9	99.86%
YY1(Zf)/Promoter/Homer	CAAGATGGCGGC	1e0	-1.621e-02	1.0000	137.0	9.29%	5333.0	10.97%
HNF6(Homeobox)/Liver-Hnf6-ChIP-Seq(ERP000394)	NTATYGATCH	1e0	-1.587e-02	1.0000	1128.0	76.53%	38304.8	78.81%
CEBP:AP1(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	DRTGTTGCAA	1e0	-1.580e-02	1.0000	1278.0	86.70%	43011.9	88.49%
IRF4(IRF)/GM12878-IRF4-ChIP-Seq/Homer	ACTGAAACCA	1e0	-1.541e-02	1.0000	1020.0	69.20%	34860.4	71.72%
Bach1(bZIP)/K562-Bach1-ChIP-Seq(GSE31477)/Homer	AWWNTGCTGAGTCAT	1e0	-1.467e-02	1.0000	127.0	8.62%	4993.1	10.27%
c-Myc/mES-cMyc-ChIP-Seq/Homer	VVCCACGTGG	1e0	-1.313e-02	1.0000	905.0	61.40%	31183.4	64.15%
E2F1(E2F)/Hela-E2F1-ChIP-Seq/Hoemr	CWGGCGGGAA	1e0	-1.050e-02	1.0000	356.0	24.15%	13006.0	26.76%
Smad3(MAD)/NPC-Smad3-ChIP-Seq(GSE36673)/Homer	TWGTCTGV	1e0	-4.869e-03	1.0000	1471.0	99.80%	48584.0	99.95%
NF1(CTF)/LNCAP-NF1-ChIP-Seq/Homer	CYTGGCABNSTGCCAR	1e0	-4.670e-03	1.0000	812.0	55.09%	28387.5	58.40%
GFY-Staf/Promoters/Homer	RACTACAATTCCCAGAAKGC	1e0	-4.566e-03	1.0000	73.0	4.95%	3178.2	6.54%
Znf263(Zf)/K562-Znf263-ChIP-Seq/Homer	CVGTSCTCCC	1e0	-3.657e-03	1.0000	1405.0	95.32%	46959.3	96.61%
PRDM14(Zf)/H1-PRDM14-ChIP-Seq/Homer	RGGTCTCTAACY	1e0	-3.197e-03	1.0000	714.0	48.44%	25254.4	51.96%
E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer	VDTTTCCCGCCA	1e0	-2.897e-03	1.0000	162.0	10.99%	6486.2	13.34%
GLI3(Zf)/GLI3-ChIP-Chip/Homer	CGTGGGTGGTCC	1e0	-2.885e-03	1.0000	305.0	20.69%	11507.8	23.68%
Max(HLH)/K562-Max-ChIP-Seq/Homer	RCCACGTGGYYN	1e0	-2.846e-03	1.0000	1071.0	72.66%	36819.1	75.75%
Lhx3-like?(Homeobox)/Forebrain-p300-ChIP-Seq/Homer	CTAATTAGCH	1e0	-2.161e-03	1.0000	1347.0	91.38%	45339.4	93.28%
NFkB-p65-Rel(RHD)/LPS-exp(GSE23622)/Homer	GGAAATTCCC	1e0	-1.519e-03	1.0000	140.0	9.50%	5781.8	11.90%
Foxh1(Forkhead)/hESC-FOXH1-ChIP-Seq(GSE29422)/Homer	NNTGTGGATTSS	1e0	-1.498e-03	1.0000	1197.0	81.21%	40859.4	84.06%
FOXA1:AR/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	AGTAAACAAAAAAGAACAND	1e0	-1.281e-03	1.0000	357.0	24.22%	13443.9	27.66%
GFX(?)/Promoter/Homer	ATTCTCGCGAGA	1e0	-1.011e-03	1.0000	9.0	0.61%	694.9	1.43%
Oct2(POU/Homeobox)/Bcell-Oct2-ChIP-Seq/Homer	ATATGCAAAT	1e0	-5.330e-04	1.0000	899.0	60.99%	31619.1	65.05%
NFkB-p50,p52(RHD)/p50-ChIP-Chip/Homer	GGGGGAATCCCC	1e0	-5.010e-04	1.0000	256.0	17.37%	10081.8	20.74%
NRF1(NRF)/MCF7-NRF1-ChIP-Seq/Homer	CTGCGCATGCGC	1e0	-2.990e-04	1.0000	69.0	4.68%	3298.6	6.79%
FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer	NYYTGTTTACHN	1e0	-2.820e-04	1.0000	1015.0	68.86%	35421.6	72.87%
n-Myc(HLH)/mES-nMyc-ChIP-Seq/Homer	VRCCACGTGG	1e0	-1.430e-04	1.0000	1018.0	69.06%	35615.3	73.27%
ZBTB33/GM12878-ZBTB33-ChIP-Seq/Homer	GGVTCTCGCGAGAAC	1e0	-4.500e-05	1.0000	26.0	1.76%	1664.6	3.42%
Oct4(POU/Homeobox)/mES-Oct4-ChIP-Seq/Homer	ATTTGCATAW	1e0	-4.100e-05	1.0000	1078.0	73.13%	37655.9	77.47%
Pdx1(Homeobox)/Islet-Pdx1-ChIP-Seq/Homer	YCATYAATCA	1e0	-2.300e-05	1.0000	1326.0	89.96%	45111.3	92.81%
GATA-DR4(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATGKDGAGATAAG	1e0	-1.900e-05	1.0000	303.0	20.56%	12187.7	25.07%
Usf2(HLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer	GTCACGTGGT	1e0	-0.000e+00	1.0000	804.0	54.55%	29779.6	61.27%