Motif Name	Consensus	P-value	Log P-value	q-value (Benjamini)	# of Target Sequences with Motif(of 3000)	% of Target Sequences with Motif	# of Background Sequences with Motif(of 2557)	% of Background Sequences with Motif
Mef2b(MADS)/HEK293-Mef2b.V5-ChIP-Seq(GSE67450)/Homer	GCTATTTTTGGM	1e-189	-4.365e+02	0.0000	1043.0	34.77%	117.6	4.60%
Mef2c(MADS)/GM12878-Mef2c-ChIP-Seq(GSE32465)/Homer	DCYAAAAATAGM	1e-158	-3.645e+02	0.0000	844.0	28.13%	80.5	3.15%
Mef2a(MADS)/HL1-Mef2a.biotin-ChIP-Seq(GSE21529)/Homer	CYAAAAATAG	1e-144	-3.330e+02	0.0000	744.0	24.80%	61.3	2.40%
Mef2d(MADS)/Retina-Mef2d-ChIP-Seq(GSE61391)/Homer	GCTATTTTTAGC	1e-126	-2.917e+02	0.0000	535.0	17.83%	17.3	0.68%
AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	VTGACTCATC	1e-71	-1.639e+02	0.0000	493.0	16.43%	70.1	2.74%
RUNX(Runt)/HPC7-Runx1-ChIP-Seq(GSE22178)/Homer	SAAACCACAG	1e-71	-1.639e+02	0.0000	427.0	14.23%	45.1	1.76%
Atf3(bZIP)/GBM-ATF3-ChIP-Seq(GSE33912)/Homer	DATGASTCATHN	1e-70	-1.627e+02	0.0000	468.0	15.60%	61.2	2.39%
BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer	DATGASTCAT	1e-65	-1.516e+02	0.0000	490.0	16.33%	78.6	3.07%
Fra1(bZIP)/BT549-Fra1-ChIP-Seq(GSE46166)/Homer	NNATGASTCATH	1e-63	-1.455e+02	0.0000	427.0	14.23%	57.5	2.25%
RUNX1(Runt)/Jurkat-RUNX1-ChIP-Seq(GSE29180)/Homer	AAACCACARM	1e-61	-1.409e+02	0.0000	502.0	16.73%	92.8	3.63%
RUNX-AML(Runt)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	GCTGTGGTTW	1e-59	-1.370e+02	0.0000	388.0	12.93%	48.0	1.88%
RUNX2(Runt)/PCa-RUNX2-ChIP-Seq(GSE33889)/Homer	NWAACCACADNN	1e-55	-1.283e+02	0.0000	420.0	14.00%	67.7	2.65%
Fosl2(bZIP)/3T3L1-Fosl2-ChIP-Seq(GSE56872)/Homer	NATGASTCABNN	1e-50	-1.172e+02	0.0000	314.0	10.47%	34.3	1.34%
Jun-AP1(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	GATGASTCATCN	1e-48	-1.111e+02	0.0000	261.0	8.70%	20.6	0.81%
PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	MGGAAGTGAAAC	1e-38	-8.881e+01	0.0000	436.0	14.53%	112.7	4.41%
Fli1(ETS)/CD8-FLI-ChIP-Seq(GSE20898)/Homer	NRYTTCCGGH	1e-33	-7.710e+01	0.0000	313.0	10.43%	65.1	2.55%
ETS1(ETS)/Jurkat-ETS1-ChIP-Seq(GSE17954)/Homer	ACAGGAAGTG	1e-32	-7.410e+01	0.0000	300.0	10.00%	63.0	2.46%
ERG(ETS)/VCaP-ERG-ChIP-Seq(GSE14097)/Homer	ACAGGAAGTG	1e-29	-6.762e+01	0.0000	388.0	12.93%	113.1	4.42%
PU.1(ETS)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	AGAGGAAGTG	1e-26	-6.100e+01	0.0000	198.0	6.60%	31.0	1.21%
PU.1:IRF8(ETS:IRF)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	GGAAGTGAAAST	1e-26	-6.091e+01	0.0000	174.0	5.80%	21.6	0.84%
SOC1(MADS)/Seedling-SOC1-ChIP-Seq(GSE45846)/Homer	TWCCAWWTWTGG	1e-26	-6.065e+01	0.0000	187.0	6.23%	26.9	1.05%
Etv2(ETS)/ES-ER71-ChIP-Seq(GSE59402)/Homer(0.967)	NNAYTTCCTGHN	1e-25	-5.975e+01	0.0000	260.0	8.67%	58.2	2.28%
ETV1(ETS)/GIST48-ETV1-ChIP-Seq(GSE22441)/Homer	AACCGGAAGT	1e-23	-5.450e+01	0.0000	340.0	11.33%	105.3	4.12%
IRF4(IRF)/GM12878-IRF4-ChIP-Seq(GSE32465)/Homer	ACTGAAACCA	1e-22	-5.192e+01	0.0000	294.0	9.80%	84.6	3.31%
GABPA(ETS)/Jurkat-GABPa-ChIP-Seq(GSE17954)/Homer	RACCGGAAGT	1e-22	-5.190e+01	0.0000	238.0	7.93%	56.7	2.22%
Bach2(bZIP)/OCILy7-Bach2-ChIP-Seq(GSE44420)/Homer	TGCTGAGTCA	1e-21	-5.047e+01	0.0000	143.0	4.77%	17.5	0.68%
SpiB(ETS)/OCILY3-SPIB-ChIP-Seq(GSE56857)/Homer	AAAGRGGAAGTG	1e-21	-4.851e+01	0.0000	142.0	4.73%	18.8	0.74%
IRF1(IRF)/PBMC-IRF1-ChIP-Seq(GSE43036)/Homer	GAAAGTGAAAGT	1e-19	-4.527e+01	0.0000	141.0	4.70%	20.1	0.79%
IRF2(IRF)/Erythroblas-IRF2-ChIP-Seq(GSE36985)/Homer	GAAASYGAAASY	1e-19	-4.488e+01	0.0000	121.0	4.03%	13.2	0.52%
Initiator/Drosophila-Promoters/Homer	NTCAGTYG	1e-19	-4.484e+01	0.0000	613.0	20.43%	292.5	11.44%
bZIP:IRF(bZIP,IRF)/Th17-BatF-ChIP-Seq(GSE39756)/Homer	NAGTTTCABTHTGACTNW	1e-19	-4.391e+01	0.0000	245.0	8.17%	69.7	2.73%
ELF5(ETS)/T47D-ELF5-ChIP-Seq(GSE30407)/Homer	ACVAGGAAGT	1e-18	-4.175e+01	0.0000	216.0	7.20%	58.0	2.27%
EWS:FLI1-fusion(ETS)/SK_N_MC-EWS:FLI1-ChIP-Seq(SRA014231)/Homer	VACAGGAAAT	1e-16	-3.840e+01	0.0000	151.0	5.03%	30.9	1.21%
EHF(ETS)/LoVo-EHF-ChIP-Seq(GSE49402)/Homer	AVCAGGAAGT	1e-16	-3.806e+01	0.0000	295.0	9.83%	105.7	4.14%
EWS:ERG-fusion(ETS)/CADO_ES1-EWS:ERG-ChIP-Seq(SRA014231)/Homer	ATTTCCTGTN	1e-15	-3.609e+01	0.0000	196.0	6.53%	54.5	2.13%
Ets1-distal(ETS)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	MACAGGAAGT	1e-15	-3.491e+01	0.0000	115.0	3.83%	18.2	0.71%
ISRE(IRF)/ThioMac-LPS-Expression(GSE23622)/Homer	AGTTTCASTTTC	1e-15	-3.473e+01	0.0000	84.0	2.80%	7.2	0.28%
Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer	NRYTTCCGGY	1e-10	-2.413e+01	0.0000	136.0	4.53%	39.7	1.55%
Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer	HACTTCCGGY	1e-10	-2.372e+01	0.0000	133.0	4.43%	38.5	1.51%
SEP3(MADS)/Arabidoposis-Flower-Sep3-ChIP-Seq/Homer	CCAAAAAGGG	1e-9	-2.188e+01	0.0000	401.0	13.37%	209.9	8.21%
c-Myc(bHLH)/LNCAP-cMyc-ChIP-Seq(Unpublished)/Homer	VCCACGTG	1e-9	-2.147e+01	0.0000	77.0	2.57%	14.5	0.57%
IRF:BATF(IRF:bZIP)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	CTTTCANTATGACTV	1e-9	-2.096e+01	0.0000	100.0	3.33%	25.7	1.00%
Tcf12(bHLH)/GM12878-Tcf12-ChIP-Seq(GSE32465)/Homer	VCAGCTGYTG	1e-9	-2.076e+01	0.0000	140.0	4.67%	46.3	1.81%
ELF1(ETS)/Jurkat-ELF1-ChIP-Seq(SRA014231)/Homer	AVCCGGAAGT	1e-8	-2.031e+01	0.0000	122.0	4.07%	38.0	1.49%
IBL1(bHLH)/Seedling-IBL1-ChIP-Seq(GSE51120)/Homer	CACGTGCC	1e-8	-1.958e+01	0.0000	243.0	8.10%	110.7	4.33%
SCL(bHLH)/HPC7-Scl-ChIP-Seq(GSE13511)/Homer	AVCAGCTG	1e-8	-1.931e+01	0.0000	620.0	20.67%	376.6	14.73%
SeqBias: CG-repeat	CGCGCGCGCG	1e-7	-1.826e+01	0.0000	258.0	8.60%	123.2	4.82%
PRDM1(Zf)/Hela-PRDM1-ChIP-Seq(GSE31477)/Homer	ACTTTCACTTTC	1e-7	-1.808e+01	0.0000	170.0	5.67%	68.0	2.66%
E-box/Arabidopsis-Promoters/Homer	GCCACGTG	1e-7	-1.764e+01	0.0000	73.0	2.43%	16.9	0.66%
ETS(ETS)/Promoter/Homer	AACCGGAAGT	1e-7	-1.699e+01	0.0000	92.0	3.07%	26.0	1.02%
MYB(HTH)/ERMYB-Myb-ChIPSeq(GSE22095)/Homer	GGCVGTTR	1e-7	-1.673e+01	0.0000	387.0	12.90%	216.6	8.47%
NFkB-p65(RHD)/GM12787-p65-ChIP-Seq(GSE19485)/Homer	WGGGGATTTCCC	1e-7	-1.669e+01	0.0000	97.0	3.23%	29.4	1.15%
Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer	TGCGTGGGYG	1e-7	-1.669e+01	0.0000	128.0	4.27%	46.0	1.80%
NF-E2(bZIP)/K562-NFE2-ChIP-Seq(GSE31477)/Homer	GATGACTCAGCA	1e-7	-1.632e+01	0.0000	54.0	1.80%	9.3	0.36%
SPDEF(ETS)/VCaP-SPDEF-ChIP-Seq(SRA014231)/Homer	ASWTCCTGBT	1e-7	-1.619e+01	0.0000	157.0	5.23%	64.3	2.51%
Bach1(bZIP)/K562-Bach1-ChIP-Seq(GSE31477)/Homer	AWWNTGCTGAGTCAT	1e-6	-1.513e+01	0.0000	44.0	1.47%	6.9	0.27%
SPCH(bHLH)/Seedling-SPCH-ChIP-Seq(GSE57497)/Homer	WNBCACGTGA	1e-6	-1.433e+01	0.0000	157.0	5.23%	69.0	2.70%
MyoD(bHLH)/Myotube-MyoD-ChIP-Seq(GSE21614)/Homer	RRCAGCTGYTSY	1e-5	-1.378e+01	0.0000	112.0	3.73%	42.2	1.65%
Ap4(bHLH)/AML-Tfap4-ChIP-Seq(GSE45738)/Homer	NAHCAGCTGD	1e-5	-1.345e+01	0.0000	185.0	6.17%	88.2	3.45%
Egr2(Zf)/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer	NGCGTGGGCGGR	1e-5	-1.341e+01	0.0000	43.0	1.43%	7.2	0.28%
MyoG(bHLH)/C2C12-MyoG-ChIP-Seq(GSE36024)/Homer	AACAGCTG	1e-5	-1.341e+01	0.0000	152.0	5.07%	67.5	2.64%
KLF14(Zf)/HEK293-KLF14.GFP-ChIP-Seq(GSE58341)/Homer	RGKGGGCGKGGC	1e-5	-1.328e+01	0.0000	228.0	7.60%	117.2	4.59%
Nrf2(bZIP)/Lymphoblast-Nrf2-ChIP-Seq(GSE37589)/Homer	HTGCTGAGTCAT	1e-5	-1.322e+01	0.0000	45.0	1.50%	8.9	0.35%
Max(bHLH)/K562-Max-ChIP-Seq(GSE31477)/Homer	RCCACGTGGYYN	1e-5	-1.320e+01	0.0000	98.0	3.27%	35.4	1.39%
CArG(MADS)/PUER-Srf-ChIP-Seq(Sullivan_et_al.)/Homer	CCATATATGGNM	1e-5	-1.307e+01	0.0000	60.0	2.00%	15.6	0.61%
Tcf21(bHLH)/ArterySmoothMuscle-Tcf21-ChIP-Seq(GSE61369)/Homer	NAACAGCTGG	1e-5	-1.285e+01	0.0000	129.0	4.30%	54.7	2.14%
MafK(bZIP)/C2C12-MafK-ChIP-Seq(GSE36030)/Homer	GCTGASTCAGCA	1e-5	-1.235e+01	0.0000	70.0	2.33%	21.7	0.85%
Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer	GGGGGGGG	1e-5	-1.223e+01	0.0000	180.0	6.00%	88.6	3.47%
Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer	BAACAGCTGT	1e-5	-1.214e+01	0.0000	105.0	3.50%	41.6	1.63%
ZNF467(Zf)/HEK293-ZNF467.GFP-ChIP-Seq(GSE58341)/Homer	TGGGGAAGGGCM	1e-5	-1.209e+01	0.0000	98.0	3.27%	37.4	1.46%
NFkB-p50,p52(RHD)/Monocyte-p50-ChIP-Chip(Schreiber_et_al.)/Homer	GGGGGAATCCCC	1e-5	-1.160e+01	0.0001	26.0	0.87%	2.5	0.10%
CLOCK(bHLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer	GHCACGTG	1e-5	-1.158e+01	0.0001	86.0	2.87%	31.4	1.23%
n-Myc(bHLH)/mES-nMyc-ChIP-Seq(GSE11431)/Homer	VRCCACGTGG	1e-4	-1.126e+01	0.0001	85.0	2.83%	31.3	1.22%
AMYB(HTH)/Testes-AMYB-ChIP-Seq(GSE44588)/Homer	TGGCAGTTGG	1e-4	-1.112e+01	0.0001	296.0	9.87%	172.5	6.75%
Oct2(POU,Homeobox)/Bcell-Oct2-ChIP-Seq(GSE21512)/Homer	ATATGCAAAT	1e-4	-1.111e+01	0.0001	59.0	1.97%	18.0	0.70%
Pho4(bHLH)/Yeast-Pho4-ChIP-Seq(GSE29506)/Homer	AAGCACGTGBGD	1e-4	-1.097e+01	0.0001	33.0	1.10%	5.8	0.23%
SeqBias: polyA-repeat	AAAAAAAAAA	1e-4	-1.057e+01	0.0001	2855.0	95.17%	2365.9	92.56%
Ptf1a(bHLH)/Panc1-Ptf1a-ChIP-Seq(GSE47459)/Homer	ACAGCTGTTN	1e-4	-1.042e+01	0.0001	336.0	11.20%	204.5	8.00%
EBF(EBF)/proBcell-EBF-ChIP-Seq(GSE21978)/Homer	DGTCCCYRGGGA	1e-4	-1.005e+01	0.0002	26.0	0.87%	3.2	0.13%
BMYB(HTH)/Hela-BMYB-ChIP-Seq(GSE27030)/Homer	NHAACBGYYV	1e-4	-9.972e+00	0.0002	306.0	10.20%	184.4	7.21%
BMAL1(bHLH)/Liver-Bmal1-ChIP-Seq(GSE39860)/Homer	GNCACGTG	1e-4	-9.577e+00	0.0003	240.0	8.00%	138.8	5.43%
ETS:RUNX(ETS,Runt)/Jurkat-RUNX1-ChIP-Seq(GSE17954)/Homer	RCAGGATGTGGT	1e-3	-9.180e+00	0.0005	36.0	1.20%	8.4	0.33%
Foxo1(Forkhead)/RAW-Foxo1-ChIP-Seq(Fan_et_al.)/Homer	CTGTTTAC	1e-3	-9.049e+00	0.0005	318.0	10.60%	198.0	7.74%
E2F1(E2F)/Hela-E2F1-ChIP-Seq(GSE22478)/Homer	CWGGCGGGAA	1e-3	-8.885e+00	0.0006	18.0	0.60%	1.6	0.06%
FOXA1(Forkhead)/MCF7-FOXA1-ChIP-Seq(GSE26831)/Homer	WAAGTAAACA	1e-3	-8.801e+00	0.0007	169.0	5.63%	91.9	3.60%
RFX(HTH)/K562-RFX3-ChIP-Seq(SRA012198)/Homer	CGGTTGCCATGGCAAC	1e-3	-8.642e+00	0.0008	14.0	0.47%	0.3	0.01%
SeqBias: GCW-triplet	GCWGCWGCWGCW	1e-3	-8.595e+00	0.0008	2892.0	96.40%	2412.6	94.38%
PAX5(Paired,Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GCAGCCAAGCRTGACH	1e-3	-8.441e+00	0.0009	48.0	1.60%	15.6	0.61%
SeqBias: GA-repeat	GAGAGAGAGA	1e-3	-8.437e+00	0.0009	1022.0	34.07%	757.7	29.64%
SeqBias: A/T bias	WWWWWWWWWW	1e-3	-8.412e+00	0.0010	2468.0	82.27%	2006.9	78.51%
Atf2(bZIP)/3T3L1-Atf2-ChIP-Seq(GSE56872)/Homer	NRRTGACGTCAT	1e-3	-8.343e+00	0.0010	55.0	1.83%	19.4	0.76%
Usf2(bHLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer	GTCACGTGGT	1e-3	-8.324e+00	0.0010	42.0	1.40%	12.9	0.50%
USF1(bHLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer	SGTCACGTGR	1e-3	-8.204e+00	0.0011	65.0	2.17%	25.6	1.00%
E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer	VDTTTCCCGCCA	1e-3	-8.023e+00	0.0013	13.0	0.43%	1.0	0.04%
Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer	GTTGCCATGGCAACM	1e-3	-8.023e+00	0.0013	13.0	0.43%	0.3	0.01%
Sp1(Zf)/Promoter/Homer	GGCCCCGCCCCC	1e-3	-7.574e+00	0.0021	28.0	0.93%	6.3	0.25%
ETS:E-box(ETS,bHLH)/HPC7-Scl-ChIP-Seq(GSE22178)/Homer	AGGAARCAGCTG	1e-3	-7.518e+00	0.0022	21.0	0.70%	3.7	0.14%
c-Jun-CRE(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	ATGACGTCATCY	1e-3	-7.496e+00	0.0022	61.0	2.03%	24.4	0.95%
Ascl1(bHLH)/NeuralTubes-Ascl1-ChIP-Seq(GSE55840)/Homer	NNVVCAGCTGBN	1e-3	-7.475e+00	0.0022	168.0	5.60%	95.9	3.75%
E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer	GGCGGGAARN	1e-3	-7.447e+00	0.0023	47.0	1.57%	16.1	0.63%
KLF5(Zf)/LoVo-KLF5-ChIP-Seq(GSE49402)/Homer	DGGGYGKGGC	1e-3	-7.417e+00	0.0023	152.0	5.07%	84.7	3.31%
PIF4(bHLH)/Seedling-PIF4-ChIP-Seq(GSE35315)/Homer	NNBCACGTGN	1e-3	-7.139e+00	0.0030	152.0	5.07%	85.6	3.35%
MITF(bHLH)/MastCells-MITF-ChIP-Seq(GSE48085)/Homer	RTCATGTGAC	1e-3	-7.097e+00	0.0031	117.0	3.90%	61.7	2.41%
Oct4(POU,Homeobox)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAW	1e-3	-6.976e+00	0.0035	77.0	2.57%	35.7	1.40%
CEBP:AP1(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	DRTGTTGCAA	1e-3	-6.974e+00	0.0035	112.0	3.73%	58.5	2.29%
FOXA1(Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WAAGTAAACA	1e-3	-6.916e+00	0.0036	197.0	6.57%	118.3	4.63%
Oct6(POU,Homeobox)/NPC-Oct6-ChIP-Seq(GSE35496)/Homer	WATGCAAATGAG	1e-2	-6.815e+00	0.0040	62.0	2.07%	26.7	1.04%
Tal1	CATCTG	1e-2	-6.638e+00	0.0047	155.0	5.17%	89.5	3.50%
NPAS2(bHLH)/Liver-NPAS2-ChIP-Seq(GSE39860)/Homer	KCCACGTGAC	1e-2	-6.633e+00	0.0047	106.0	3.53%	56.0	2.19%
RORgt(NR)/EL4-RORgt.Flag-ChIP-Seq(GSE56019)/Homer	AAYTAGGTCA	1e-2	-6.399e+00	0.0059	21.0	0.70%	4.6	0.18%
HEB(bHLH)/mES-Heb-ChIP-Seq(GSE53233)/Homer	VCAGCTGBNN	1e-2	-6.336e+00	0.0062	222.0	7.40%	139.2	5.44%
Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer	SCCTAGCAACAG	1e-2	-6.120e+00	0.0076	43.0	1.43%	16.9	0.66%
Sox10(HMG)/SciaticNerve-Sox3-ChIP-Seq(GSE35132)/Homer	CCWTTGTYYB	1e-2	-6.013e+00	0.0084	205.0	6.83%	128.4	5.02%
Klf9(Zf)/GBM-Klf9-ChIP-Seq(GSE62211)/Homer	GCCACRCCCACY	1e-2	-5.996e+00	0.0084	46.0	1.53%	18.1	0.71%
Tgif2(Homeobox)/mES-Tgif2-ChIP-Seq(GSE55404)/Homer	TGTCANYT	1e-2	-5.846e+00	0.0097	508.0	16.93%	363.7	14.23%
Pho2(bHLH)/Yeast-Pho2-ChIP-Seq(GSE29506)/Homer	CCCACGTGCT	1e-2	-5.819e+00	0.0099	52.0	1.73%	22.4	0.88%
PHA-4(Forkhead)/cElegans-Embryos-PHA4-ChIP-Seq(modEncode)/Homer	KTGTTTGC	1e-2	-5.790e+00	0.0101	515.0	17.17%	369.6	14.46%
c-Myc(bHLH)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	VVCCACGTGG	1e-2	-5.711e+00	0.0108	50.0	1.67%	21.2	0.83%
PIF5ox(bHLH)/Arabidopsis-PIF5ox-ChIP-Seq(GSE35062)/Homer	BCACGTGVDN	1e-2	-5.609e+00	0.0119	124.0	4.13%	71.6	2.80%
T1ISRE(IRF)/ThioMac-Ifnb-Expression/Homer	ACTTTCGTTTCT	1e-2	-5.552e+00	0.0125	9.0	0.30%	0.8	0.03%
Esrrb(NR)/mES-Esrrb-ChIP-Seq(GSE11431)/Homer	KTGACCTTGA	1e-2	-5.487e+00	0.0132	68.0	2.27%	33.6	1.32%
Atf1(bZIP)/K562-ATF1-ChIP-Seq(GSE31477)/Homer	GATGACGTCA	1e-2	-5.403e+00	0.0143	103.0	3.43%	57.9	2.26%
Zic(Zf)/Cerebellum-ZIC1.2-ChIP-Seq(GSE60731)/Homer	CCTGCTGAGH	1e-2	-5.242e+00	0.0166	73.0	2.43%	37.1	1.45%
Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo_et_al.)/Homer	TBGCACGCAA	1e-2	-5.165e+00	0.0178	83.0	2.77%	44.9	1.76%
Brn1(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	TATGCWAATBAV	1e-2	-5.099e+00	0.0189	43.0	1.43%	18.5	0.72%
Unknown1/Arabidopsis-Promoters/Homer	RGGGTAWWWTHGTAA	1e-2	-5.097e+00	0.0189	24.0	0.80%	7.6	0.30%
Tbet(T-box)/CD8-Tbet-ChIP-Seq(GSE33802)/Homer	AGGTGTGAAM	1e-2	-4.855e+00	0.0237	185.0	6.17%	119.3	4.67%
Dorsal(RHD)/Embryo-dl-ChIP-Seq(GSE65441)/Homer	GGGAAAAMCCCG	1e-1	-4.479e+00	0.0343	36.0	1.20%	15.6	0.61%
LHY(Myb)/Seedling-LHY-ChIP-Seq(GSE52175)/Homer	ADAAATATCT	1e-1	-4.438e+00	0.0355	131.0	4.37%	81.6	3.19%
FoxL2(Forkhead)/Ovary-FoxL2-ChIP-Seq(GSE60858)/Homer	WWTRTAAACAVG	1e-1	-4.435e+00	0.0355	166.0	5.53%	108.0	4.22%
FOXM1(Forkhead)/MCF7-FOXM1-ChIP-Seq(GSE72977)/Homer	TRTTTACTTW	1e-1	-4.400e+00	0.0363	147.0	4.90%	93.1	3.64%
Atoh1(bHLH)/Cerebellum-Atoh1-ChIP-Seq(GSE22111)/Homer	VNRVCAGCTGGY	1e-1	-4.354e+00	0.0377	103.0	3.43%	61.5	2.41%
SeqBias: TA-repeat	TATATATATA	1e-1	-4.329e+00	0.0384	801.0	26.70%	615.0	24.06%
bHLHE40(bHLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer	KCACGTGMCN	1e-1	-4.139e+00	0.0460	38.0	1.27%	17.4	0.68%
Atf7(bZIP)/3T3L1-Atf7-ChIP-Seq(GSE56872)/Homer	NGRTGACGTCAY	1e-1	-4.023e+00	0.0513	83.0	2.77%	48.9	1.91%
E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer	GGCGGGAAAH	1e-1	-3.955e+00	0.0545	45.0	1.50%	22.6	0.88%
Hoxc9(Homeobox)/Ainv15-Hoxc9-ChIP-Seq(GSE21812)/Homer	GGCCATAAATCA	1e-1	-3.922e+00	0.0560	64.0	2.13%	35.9	1.40%
HLH-1(bHLH)/cElegans-Embryo-HLH1-ChIP-Seq(modEncode)/Homer	RACAGCTGTTBH	1e-1	-3.865e+00	0.0588	96.0	3.20%	58.2	2.28%
E2A(bHLH)/proBcell-E2A-ChIP-Seq(GSE21978)/Homer	DNRCAGCTGY	1e-1	-3.807e+00	0.0618	164.0	5.47%	109.6	4.29%
PGR(NR)/EndoStromal-PGR-ChIP-Seq(GSE69539)/Homer	AAGAACATWHTGTTC	1e-1	-3.787e+00	0.0626	32.0	1.07%	14.7	0.58%
Foxa2(Forkhead)/Liver-Foxa2-ChIP-Seq(GSE25694)/Homer	CYTGTTTACWYW	1e-1	-3.759e+00	0.0640	109.0	3.63%	68.7	2.69%
Nr5a2(NR)/mES-Nr5a2-ChIP-Seq(GSE19019)/Homer	BTCAAGGTCA	1e-1	-3.629e+00	0.0723	33.0	1.10%	15.0	0.59%
FHY3(FAR1)/Arabidopsis-FHY3-ChIP-Seq(GSE30711)/Homer	HHCACGCGCBTN	1e-1	-3.476e+00	0.0837	43.0	1.43%	22.5	0.88%
PAX5(Paired,Homeobox),condensed/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GTCACGCTCSCTGM	1e-1	-3.455e+00	0.0849	16.0	0.53%	5.3	0.21%
Pax8(Paired,Homeobox)/Thyroid-Pax8-ChIP-Seq(GSE26938)/Homer	GTCATGCHTGRCTGS	1e-1	-3.387e+00	0.0897	29.0	0.97%	13.9	0.54%
CEBP:CEBP(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	NTNATGCAAYMNNHTGMAAY	1e-1	-3.387e+00	0.0897	29.0	0.97%	13.2	0.52%
JunD(bZIP)/K562-JunD-ChIP-Seq/Homer	ATGACGTCATCN	1e-1	-3.383e+00	0.0897	14.0	0.47%	4.4	0.17%
NFAT:AP1(RHD,bZIP)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	SARTGGAAAAWRTGAGTCAB	1e-1	-3.225e+00	0.1039	33.0	1.10%	17.0	0.66%
TATA-Box(TBP)/Promoter/Homer	CCTTTTAWAGSC	1e-1	-3.216e+00	0.1042	203.0	6.77%	143.3	5.61%
Rbpj1(?)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	HTTTCCCASG	1e-1	-3.200e+00	0.1052	150.0	5.00%	102.2	4.00%
ABF1/SacCer-Promoters/Homer	CGTRNAAARTGA	1e-1	-3.185e+00	0.1061	17.0	0.57%	6.5	0.25%
RARg(NR)/ES-RARg-ChIP-Seq(GSE30538)/Homer	AGGTCAAGGTCA	1e-1	-3.083e+00	0.1167	5.0	0.17%	0.0	0.00%
Nur77(NR)/K562-NR4A1-ChIP-Seq(GSE31363)/Homer	TGACCTTTNCNT	1e-1	-2.974e+00	0.1292	29.0	0.97%	14.4	0.56%
STAT5(Stat)/mCD4+-Stat5-ChIP-Seq(GSE12346)/Homer	RTTTCTNAGAAA	1e-1	-2.944e+00	0.1323	52.0	1.73%	30.6	1.20%
ARE(NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	RGRACASNSTGTYCYB	1e-1	-2.859e+00	0.1431	24.0	0.80%	11.6	0.45%
RBPJ:Ebox(?,bHLH)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	GGGRAARRGRMCAGMTG	1e-1	-2.847e+00	0.1439	27.0	0.90%	13.5	0.53%
HIF-1b(HLH)/T47D-HIF1b-ChIP-Seq(GSE59937)/Homer	RTACGTGC	1e-1	-2.639e+00	0.1761	149.0	4.97%	105.8	4.14%
STAT1(Stat)/HelaS3-STAT1-ChIP-Seq(GSE12782)/Homer	NATTTCCNGGAAAT	1e-1	-2.596e+00	0.1826	39.0	1.30%	22.4	0.88%
SeqBias: G/A bias	RRRRRRRRRR	1e-1	-2.586e+00	0.1833	2945.0	98.17%	2494.1	97.57%
DPL-1(E2F)/cElegans-Adult-ChIP-Seq(modEncode)/Homer	TAGCGCGC	1e-1	-2.574e+00	0.1844	69.0	2.30%	44.2	1.73%
Lhx2(Homeobox)/HFSC-Lhx2-ChIP-Seq(GSE48068)/Homer	TAATTAGN	1e-1	-2.543e+00	0.1890	143.0	4.77%	101.9	3.99%
X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	GGTTGCCATGGCAA	1e-1	-2.511e+00	0.1940	10.0	0.33%	3.2	0.12%
Sox6(HMG)/Myotubes-Sox6-ChIP-Seq(GSE32627)/Homer	CCATTGTTNY	1e-1	-2.475e+00	0.1997	193.0	6.43%	141.2	5.52%
NFkB-p65-Rel(RHD)/ThioMac-LPS-Expression(GSE23622)/Homer	GGAAATTCCC	1e-1	-2.382e+00	0.2166	13.0	0.43%	5.3	0.21%
ZNF675(Zf)/HEK293-ZNF675.GFP-ChIP-Seq(GSE58341)/Homer	ARGAGGMCAAAATGW	1e-1	-2.382e+00	0.2166	13.0	0.43%	5.8	0.23%
CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	AYAGTGCCMYCTRGTGGCCA	1e-1	-2.375e+00	0.2169	6.0	0.20%	1.5	0.06%
Sox9(HMG)/Limb-SOX9-ChIP-Seq(GSE73225)/Homer	AGGVNCCTTTGT	1e-1	-2.372e+00	0.2169	90.0	3.00%	61.0	2.39%
Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer	GCCACACCCA	1e0	-2.295e+00	0.2321	43.0	1.43%	26.1	1.02%
Nr5a2(NR)/Pancreas-LRH1-ChIP-Seq(GSE34295)/Homer	BTCAAGGTCA	1e0	-2.247e+00	0.2421	40.0	1.33%	24.4	0.95%
HOXB13(Homeobox)/ProstateTumor-HOXB13-ChIP-Seq(GSE56288)/Homer	TTTTATKRGG	1e0	-2.230e+00	0.2449	174.0	5.80%	128.1	5.01%
Rfx1(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	KGTTGCCATGGCAA	1e0	-2.181e+00	0.2555	17.0	0.57%	8.5	0.33%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	AGGTCAAGGTCA	1e0	-2.123e+00	0.2692	9.0	0.30%	3.7	0.14%
Tgif1(Homeobox)/mES-Tgif1-ChIP-Seq(GSE55404)/Homer	YTGWCADY	1e0	-2.111e+00	0.2710	451.0	15.03%	356.0	13.93%
CHR(?)/Hela-CellCycle-Expression/Homer	SRGTTTCAAA	1e0	-2.108e+00	0.2710	135.0	4.50%	98.5	3.85%
Cbf1(bHLH)/Yeast-Cbf1-ChIP-Seq(GSE29506)/Homer	TCACGTGAYH	1e0	-2.079e+00	0.2765	35.0	1.17%	21.9	0.86%
HRE(HSF)/Striatum-HSF1-ChIP-Seq(GSE38000)/Homer	TTCTAGAABNTTCTA	1e0	-2.076e+00	0.2765	21.0	0.70%	11.3	0.44%
Hoxb4(Homeobox)/ES-Hoxb4-ChIP-Seq(GSE34014)/Homer	TGATTRATGGCY	1e0	-2.051e+00	0.2812	18.0	0.60%	9.0	0.35%
CRE(bZIP)/Promoter/Homer	CSGTGACGTCAC	1e0	-2.016e+00	0.2897	25.0	0.83%	15.0	0.59%
MafA(bZIP)/Islet-MafA-ChIP-Seq(GSE30298)/Homer	TGCTGACTCA	1e0	-2.013e+00	0.2897	129.0	4.30%	94.5	3.70%
Cdx2(Homeobox)/mES-Cdx2-ChIP-Seq(GSE14586)/Homer	GYMATAAAAH	1e0	-1.974e+00	0.2986	116.0	3.87%	84.4	3.30%
Unknown6/Drosophila-Promoters/Homer	AATTTTAAAA	1e0	-1.971e+00	0.2986	207.0	6.90%	157.5	6.16%
E-box/Drosophila-Promoters/Homer	AACAGCTGTTHN	1e0	-1.959e+00	0.2998	33.0	1.10%	20.0	0.78%
SeqBias: CA-repeat	CACACACACA	1e0	-1.958e+00	0.2998	920.0	30.67%	749.7	29.33%
HIF2a(bHLH)/785_O-HIF2a-ChIP-Seq(GSE34871)/Homer	GCACGTACCC	1e0	-1.958e+00	0.2998	53.0	1.77%	35.6	1.39%
HIF-1a(bHLH)/MCF7-HIF1a-ChIP-Seq(GSE28352)/Homer	TACGTGCV	1e0	-1.894e+00	0.3149	34.0	1.13%	21.5	0.84%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	RGGTCADNNAGAGGTCAV	1e0	-1.888e+00	0.3149	5.0	0.17%	1.3	0.05%
ZBTB33(Zf)/GM12878-ZBTB33-ChIP-Seq(GSE32465)/Homer	GGVTCTCGCGAGAAC	1e0	-1.849e+00	0.3239	3.0	0.10%	0.0	0.00%
GATA3(Zf),DR8/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATSTNDNNDSAGATAASN	1e0	-1.849e+00	0.3239	3.0	0.10%	0.8	0.03%
Bcl6(Zf)/Liver-Bcl6-ChIP-Seq(GSE31578)/Homer	NNNCTTTCCAGGAAA	1e0	-1.822e+00	0.3310	132.0	4.40%	99.0	3.87%
NeuroD1(bHLH)/Islet-NeuroD1-ChIP-Seq(GSE30298)/Homer	GCCATCTGTT	1e0	-1.784e+00	0.3422	66.0	2.20%	46.2	1.81%
Tbx20(T-box)/Heart-Tbx20-ChIP-Seq(GSE29636)/Homer	GGTGYTGACAGS	1e0	-1.749e+00	0.3526	21.0	0.70%	12.1	0.47%
ZBTB18(Zf)/HEK293-ZBTB18.GFP-ChIP-Seq(GSE58341)/Homer	AACATCTGGA	1e0	-1.730e+00	0.3575	41.0	1.37%	27.2	1.06%
ZNF189(Zf)/HEK293-ZNF189.GFP-ChIP-Seq(GSE58341)/Homer	TGGAACAGMA	1e0	-1.638e+00	0.3899	80.0	2.67%	58.8	2.30%
RBFox2(?)/Heart-RBFox2-CLIP-Seq(GSE57926)/Homer	TGCATGCA	1e0	-1.627e+00	0.3920	206.0	6.87%	160.1	6.26%
caudal(Homeobox)/Drosophila-Embryos-ChIP-Chip(modEncode)/Homer	GGYCATAAAW	1e0	-1.616e+00	0.3942	121.0	4.03%	91.1	3.56%
Six1(Homeobox)/Myoblast-Six1-ChIP-Chip(GSE20150)/Homer	GKVTCADRTTWC	1e0	-1.609e+00	0.3950	35.0	1.17%	23.2	0.91%
NRF1(NRF)/MCF7-NRF1-ChIP-Seq(Unpublished)/Homer	CTGCGCATGCGC	1e0	-1.594e+00	0.3991	6.0	0.20%	3.0	0.12%
HOXA2(Homeobox)/mES-Hoxa2-ChIP-Seq(Donaldson_et_al.)/Homer	GYCATCMATCAT	1e0	-1.579e+00	0.4028	9.0	0.30%	4.6	0.18%
ZNF416(Zf)/HEK293-ZNF416.GFP-ChIP-Seq(GSE58341)/Homer	WDNCTGGGCA	1e0	-1.556e+00	0.4102	83.0	2.77%	61.9	2.42%
Sox3(HMG)/NPC-Sox3-ChIP-Seq(GSE33059)/Homer	CCWTTGTY	1e0	-1.544e+00	0.4130	206.0	6.87%	161.6	6.32%
GAGA-repeat/SacCer-Promoters/Homer	CTYTCTYTCTCTCTC	1e0	-1.543e+00	0.4130	672.0	22.40%	549.9	21.51%
Reverb(NR),DR2/RAW-Reverba.biotin-ChIP-Seq(GSE45914)/Homer	GTRGGTCASTGGGTCA	1e0	-1.498e+00	0.4283	13.0	0.43%	7.7	0.30%
Chop(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	ATTGCATCAT	1e0	-1.498e+00	0.4283	33.0	1.10%	22.6	0.88%
ERE(NR),IR3/MCF7-ERa-ChIP-Seq(Unpublished)/Homer	VAGGTCACNSTGACC	1e0	-1.466e+00	0.4379	21.0	0.70%	13.0	0.51%
LIN-39(Homeobox)/cElegans.L3-LIN39-ChIP-Seq(modEncode)/Homer	ATGATTRATG	1e0	-1.464e+00	0.4379	178.0	5.93%	139.8	5.47%
ZNF165(Zf)/WHIM12-ZNF165-ChIP-Seq(GSE65937)/Homer	AAGGKGRCGCAGGCA	1e0	-1.446e+00	0.4424	10.0	0.33%	5.7	0.22%
SUT1?/SacCer-Promoters/Homer	CCCCGCGC	1e0	-1.433e+00	0.4460	712.0	23.73%	585.1	22.89%
HRE(HSF)/HepG2-HSF1-ChIP-Seq(GSE31477)/Homer	BSTTCTRGAABVTTCYAGAA	1e0	-1.406e+00	0.4559	7.0	0.23%	3.7	0.14%
TATA-box/Drosophila-Promoters/Homer	CTATAAAAGCSV	1e0	-1.406e+00	0.4559	14.0	0.47%	8.3	0.33%
Atf4(bZIP)/MEF-Atf4-ChIP-Seq(GSE35681)/Homer	MTGATGCAAT	1e0	-1.367e+00	0.4695	36.0	1.20%	25.7	1.01%
Brachyury(T-box)/Mesoendoderm-Brachyury-ChIP-exo(GSE54963)/Homer	ANTTMRCASBNNNGTGYKAAN	1e0	-1.348e+00	0.4766	23.0	0.77%	15.3	0.60%
Unknown-ESC-element(?)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	CACAGCAGGGGG	1e0	-1.302e+00	0.4965	33.0	1.10%	23.6	0.92%
GRE(NR),IR3/RAW264.7-GRE-ChIP-Seq(Unpublished)/Homer	VAGRACAKWCTGTYC	1e0	-1.275e+00	0.5075	20.0	0.67%	13.8	0.54%
GATA(Zf),IR3/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NNNNNBAGATAWYATCTVHN	1e0	-1.259e+00	0.5110	16.0	0.53%	10.4	0.41%
VDR(NR),DR3/GM10855-VDR+vitD-ChIP-Seq(GSE22484)/Homer	ARAGGTCANWGAGTTCANNN	1e0	-1.259e+00	0.5110	16.0	0.53%	10.8	0.42%
Pdx1(Homeobox)/Islet-Pdx1-ChIP-Seq(SRA008281)/Homer	YCATYAATCA	1e0	-1.235e+00	0.5210	120.0	4.00%	94.6	3.70%
ZNF16(Zf)/HEK293-ZNF16.GFP-ChIP-Seq(GSE58341)/Homer	MACCTTCYATGGCTCCCTAKTGCCY	1e0	-1.233e+00	0.5210	2.0	0.07%	0.0	0.00%
GFX(?)/Promoter/Homer	ATTCTCGCGAGA	1e0	-1.233e+00	0.5210	2.0	0.07%	0.0	0.00%
Tcf4(HMG)/Hct116-Tcf4-ChIP-Seq(SRA012054)/Homer	ASATCAAAGGVA	1e0	-1.212e+00	0.5258	61.0	2.03%	46.5	1.82%
HOXA9(Homeobox)/HSC-Hoxa9-ChIP-Seq(GSE33509)/Homer	GGCCATAAATCA	1e0	-1.202e+00	0.5288	83.0	2.77%	65.0	2.54%
ZNF692(Zf)/HEK293-ZNF692.GFP-ChIP-Seq(GSE58341)/Homer	GTGGGCCCCA	1e0	-1.172e+00	0.5422	9.0	0.30%	5.2	0.20%
Nkx3.1(Homeobox)/LNCaP-Nkx3.1-ChIP-Seq(GSE28264)/Homer	AAGCACTTAA	1e0	-1.106e+00	0.5770	323.0	10.77%	265.2	10.37%
PABPC1(?)/MEL-PABC1-CLIP-Seq(GSE69755)/Homer	HAATAAAGNN	1e0	-1.046e+00	0.6095	324.0	10.80%	267.9	10.48%
EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer	NWGGGTGTGGCY	1e0	-1.014e+00	0.6265	21.0	0.70%	15.8	0.62%
REB1/SacCer-Promoters/Homer	KCCGGGTAAYRR	1e0	-1.014e+00	0.6265	16.0	0.53%	11.2	0.44%
GFY-Staf(?,Zf)/Promoter/Homer	RACTACAATTCCCAGAAKGC	1e0	-9.818e-01	0.6415	3.0	0.10%	1.1	0.04%
Unknown(Homeobox)/Limb-p300-ChIP-Seq/Homer	SSCMATWAAA	1e0	-9.408e-01	0.6654	87.0	2.90%	70.2	2.75%
STAT4(Stat)/CD4-Stat4-ChIP-Seq(GSE22104)/Homer	NYTTCCWGGAAR	1e0	-9.334e-01	0.6674	118.0	3.93%	96.9	3.79%
TOD6?/SacCer-Promoters/Homer	GCGATGAGMT	1e0	-9.225e-01	0.6718	13.0	0.43%	9.9	0.39%
Stat3(Stat)/mES-Stat3-ChIP-Seq(GSE11431)/Homer	CTTCCGGGAA	1e0	-9.214e-01	0.6718	35.0	1.17%	27.8	1.09%
Tcfcp2l1(CP2)/mES-Tcfcp2l1-ChIP-Seq(GSE11431)/Homer	NRAACCRGTTYRAACCRGYT	1e0	-8.656e-01	0.7019	9.0	0.30%	6.3	0.25%
E-box(bHLH)/Promoter/Homer	SSGGTCACGTGA	1e0	-8.656e-01	0.7019	9.0	0.30%	6.1	0.24%
YY1(Zf)/Promoter/Homer	CAAGATGGCGGC	1e0	-8.645e-01	0.7019	4.0	0.13%	2.9	0.11%
Meis1(Homeobox)/MastCells-Meis1-ChIP-Seq(GSE48085)/Homer	VGCTGWCAVB	1e0	-8.521e-01	0.7054	189.0	6.30%	157.9	6.18%
Fox:Ebox(Forkhead,bHLH)/Panc1-Foxa2-ChIP-Seq(GSE47459)/Homer	NNNVCTGWGYAAACASN	1e0	-8.508e-01	0.7054	100.0	3.33%	82.5	3.23%
OCT4-SOX2-TCF-NANOG(POU,Homeobox,HMG)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAACAATG	1e0	-8.438e-01	0.7054	15.0	0.50%	11.4	0.45%
AP-2alpha(AP2)/Hela-AP2alpha-ChIP-Seq(GSE31477)/Homer	ATGCCCTGAGGC	1e0	-8.190e-01	0.7199	46.0	1.53%	38.0	1.48%
PR(NR)/T47D-PR-ChIP-Seq(GSE31130)/Homer	VAGRACAKNCTGTBC	1e0	-7.722e-01	0.7512	212.0	7.07%	178.7	6.99%
PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer	ADGGYAGYAGCATCT	1e0	-7.468e-01	0.7673	44.0	1.47%	36.4	1.43%
NRF(NRF)/Promoter/Homer	STGCGCATGCGC	1e0	-7.375e-01	0.7713	6.0	0.20%	4.3	0.17%
Unknown3/Arabidopsis-Promoters/Homer	AYTAAACCGG	1e0	-7.061e-01	0.7926	20.0	0.67%	16.1	0.63%
E2F(E2F)/Hela-CellCycle-Expression/Homer	TTSGCGCGAAAA	1e0	-6.962e-01	0.7971	7.0	0.23%	5.4	0.21%
Unknown1(NR/Ini-like)/Drosophila-Promoters/Homer	MYGGTCACACTG	1e0	-6.849e-01	0.8029	21.0	0.70%	17.3	0.68%
PAX6(Paired,Homeobox)/Forebrain-Pax6-ChIP-Seq(GSE66961)/Homer	NGTGTTCAVTSAAGCGKAAA	1e0	-6.340e-01	0.8379	9.0	0.30%	7.1	0.28%
TCFL2(HMG)/K562-TCF7L2-ChIP-Seq(GSE29196)/Homer	ACWTCAAAGG	1e0	-6.340e-01	0.8379	9.0	0.30%	7.7	0.30%
Unknown4/Drosophila-Promoters/Homer	AAAAATACCRMA	1e0	-6.297e-01	0.8381	24.0	0.80%	20.4	0.80%
Unknown2/Arabidopsis-Promoters/Homer	AAACGACGTCGTTTT	1e0	-6.163e-01	0.8392	1.0	0.03%	0.0	0.00%
REST-NRSF(Zf)/Jurkat-NRSF-ChIP-Seq/Homer	GGMGCTGTCCATGGTGCTGA	1e0	-6.163e-01	0.8392	1.0	0.03%	0.0	0.00%
EBNA1(EBV-virus)/Raji-EBNA1-ChIP-Seq(GSE30709)/Homer	GGYAGCAYDTGCTDCCCNNN	1e0	-6.163e-01	0.8392	1.0	0.03%	0.6	0.02%
AARE(HLH)/mES-cMyc-ChIP-Seq/Homer	GATTGCATCA	1e0	-6.094e-01	0.8416	10.0	0.33%	8.1	0.32%
NF1:FOXA1(CTF,Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WNTGTTTRYTTTGGCA	1e0	-5.801e-01	0.8597	2.0	0.07%	1.6	0.06%
Unknown3/Drosophila-Promoters/Homer	ACVAKCTGGCAGCGC	1e0	-5.801e-01	0.8597	2.0	0.07%	1.4	0.05%
GRE(NR),IR3/A549-GR-ChIP-Seq(GSE32465)/Homer	NRGVACABNVTGTYCY	1e0	-5.683e-01	0.8665	12.0	0.40%	10.3	0.40%
PRDM14(Zf)/H1-PRDM14-ChIP-Seq(GSE22767)/Homer	RGGTCTCTAACY	1e0	-5.570e-01	0.8729	21.0	0.70%	18.1	0.71%
ZNF136(Zf)/HEK293-ZNF136.GFP-ChIP-Seq(GSE58341)/Homer	YTKGATAHAGTATTCTWGGTNGGCA	1e0	-4.718e-01	0.9468	8.0	0.27%	7.7	0.30%
ZNF143|STAF(Zf)/CUTLL-ZNF143-ChIP-Seq(GSE29600)/Homer	ATTTCCCAGVAKSCY	1e0	-4.599e-01	0.9544	9.0	0.30%	8.7	0.34%
MafF(bZIP)/HepG2-MafF-ChIP-Seq(GSE31477)/Homer	HWWGTCAGCAWWTTT	1e0	-4.597e-01	0.9544	47.0	1.57%	42.1	1.65%
STAT6(Stat)/Macrophage-Stat6-ChIP-Seq(GSE38377)/Homer	TTCCKNAGAA	1e0	-4.579e-01	0.9544	72.0	2.40%	64.1	2.51%
Olig2(bHLH)/Neuron-Olig2-ChIP-Seq(GSE30882)/Homer	RCCATMTGTT	1e0	-4.408e-01	0.9616	176.0	5.87%	155.7	6.09%
ZNF317(Zf)/HEK293-ZNF317.GFP-ChIP-Seq(GSE58341)/Homer	GTCWGCTGTYYCTCT	1e0	-4.196e-01	0.9784	13.0	0.43%	12.9	0.51%
Stat3+il21(Stat)/CD4-Stat3-ChIP-Seq(GSE19198)/Homer	SVYTTCCNGGAARB	1e0	-4.112e-01	0.9828	71.0	2.37%	64.9	2.54%
ZNF711(Zf)/SHSY5Y-ZNF711-ChIP-Seq(GSE20673)/Homer	AGGCCTAG	1e0	-4.106e-01	0.9828	144.0	4.80%	128.0	5.01%
RXR(NR),DR1/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer	TAGGGCAAAGGTCA	1e0	-4.077e-01	0.9828	63.0	2.10%	57.3	2.24%
Hnf1(Homeobox)/Liver-Foxa2-Chip-Seq(GSE25694)/Homer	GGTTAAWCATTAA	1e0	-4.027e-01	0.9828	15.0	0.50%	14.3	0.56%
Sox4(HMG)/proB-Sox4-ChIP-Seq(GSE50066)/Homer	YCTTTGTTCC	1e0	-4.023e-01	0.9828	81.0	2.70%	73.3	2.87%
STAT6(Stat)/CD4-Stat6-ChIP-Seq(GSE22104)/Homer	ABTTCYYRRGAA	1e0	-3.956e-01	0.9828	65.0	2.17%	59.9	2.34%
Pknox1(Homeobox)/ES-Prep1-ChIP-Seq(GSE63282)/Homer	SCTGTCAVTCAV	1e0	-3.948e-01	0.9828	16.0	0.53%	15.3	0.60%
Gata1(Zf)/K562-GATA1-ChIP-Seq(GSE18829)/Homer	SAGATAAGRV	1e0	-3.893e-01	0.9828	48.0	1.60%	44.1	1.72%
KLF10(Zf)/HEK293-KLF10.GFP-ChIP-Seq(GSE58341)/Homer	GGGGGTGTGTCC	1e0	-3.831e-01	0.9828	49.0	1.63%	46.0	1.80%
AR-halfsite(NR)/LNCaP-AR-ChIP-Seq(GSE27824)/Homer	CCAGGAACAG	1e0	-3.745e-01	0.9856	351.0	11.70%	309.1	12.09%
Tcf3(HMG)/mES-Tcf3-ChIP-Seq(GSE11724)/Homer	ASWTCAAAGG	1e0	-3.645e-01	0.9918	32.0	1.07%	30.9	1.21%
Eomes(T-box)/H9-Eomes-ChIP-Seq(GSE26097)/Homer	ATTAACACCT	1e0	-3.640e-01	0.9918	302.0	10.07%	267.2	10.45%
SeqBias: C/A-bias	MMMMMMMMMM	1e0	-3.496e-01	0.9993	2908.0	96.93%	2483.2	97.14%
PAX3:FKHR-fusion(Paired,Homeobox)/Rh4-PAX3:FKHR-ChIP-Seq(GSE19063)/Homer	ACCRTGACTAATTNN	1e0	-3.480e-01	0.9993	23.0	0.77%	22.7	0.89%
LXRE(NR),DR4/RAW-LXRb.biotin-ChIP-Seq(GSE21512)/Homer	RGGTTACTANAGGTCA	1e0	-3.344e-01	1.0000	6.0	0.20%	6.2	0.24%
ZNF669(Zf)/HEK293-ZNF669.GFP-ChIP-Seq(GSE58341)/Homer	GARTGGTCATCGCCC	1e0	-3.329e-01	1.0000	5.0	0.17%	5.5	0.21%
ZNF322(Zf)/HEK293-ZNF322.GFP-ChIP-Seq(GSE58341)/Homer	GAGCCTGGTACTGWGCCTGR	1e0	-3.323e-01	1.0000	8.0	0.27%	9.0	0.35%
ZSCAN22(Zf)/HEK293-ZSCAN22.GFP-ChIP-Seq(GSE58341)/Homer	SMCAGTCWGAKGGAGGAGGC	1e0	-3.175e-01	1.0000	3.0	0.10%	3.2	0.12%
GLI3(Zf)/Limb-GLI3-ChIP-Chip(GSE11077)/Homer	CGTGGGTGGTCC	1e0	-3.164e-01	1.0000	13.0	0.43%	13.5	0.53%
PPARE(NR),DR1/3T3L1-Pparg-ChIP-Seq(GSE13511)/Homer	TGACCTTTGCCCCA	1e0	-3.067e-01	1.0000	64.0	2.13%	60.5	2.37%
Unknown5/Drosophila-Promoters/Homer	GCTGATAASV	1e0	-2.975e-01	1.0000	45.0	1.50%	43.2	1.69%
Pit1+1bp(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGCATAATTCA	1e0	-2.975e-01	1.0000	33.0	1.10%	32.7	1.28%
Sox2(HMG)/mES-Sox2-ChIP-Seq(GSE11431)/Homer	BCCATTGTTC	1e0	-2.791e-01	1.0000	81.0	2.70%	76.1	2.98%
CEBP(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	ATTGCGCAAC	1e0	-2.517e-01	1.0000	79.0	2.63%	75.9	2.97%
ZNF41(Zf)/HEK293-ZNF41.GFP-ChIP-Seq(GSE58341)/Homer	CCTCATGGTGYCYTWYTCCCTTGTG	1e0	-2.377e-01	1.0000	1.0	0.03%	1.4	0.06%
ZNF519(Zf)/HEK293-ZNF519.GFP-ChIP-Seq(GSE58341)/Homer	GAGSCCGAGC	1e0	-2.363e-01	1.0000	12.0	0.40%	13.8	0.54%
Zfp809(Zf)/ES-Zfp809-ChIP-Seq(GSE70799)/Homer	GGGGCTYGKCTGGGA	1e0	-2.361e-01	1.0000	11.0	0.37%	12.1	0.47%
TATA-box/SacCer-Promoters/Homer	BBHWTATATA	1e0	-2.152e-01	1.0000	81.0	2.70%	78.8	3.08%
PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer	GSCTGTCACTCA	1e0	-2.129e-01	1.0000	5.0	0.17%	6.8	0.27%
SeqBias: polyC-repeat	CCCCCCCCCC	1e0	-1.892e-01	1.0000	2306.0	76.87%	1991.2	77.90%
Pax7(Paired,Homeobox),longest/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	NTAATTDGCYAATTANNWWD	1e0	-1.818e-01	1.0000	3.0	0.10%	4.9	0.19%
GEI-11(Myb?)/cElegans-L4-GEI11-ChIP-Seq(modEncode)/Homer	CCGACAYYTYACGGG	1e0	-1.818e-01	1.0000	3.0	0.10%	4.9	0.19%
Unknown4/Arabidopsis-Promoters/Homer	CKTCKTCTTY	1e0	-1.796e-01	1.0000	85.0	2.83%	83.5	3.27%
SFP1/SacCer-Promoters/Homer	DDAAAAATTTTY	1e0	-1.761e-01	1.0000	15.0	0.50%	17.3	0.68%
Tlx?(NR)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	CTGGCAGSCTGCCA	1e0	-1.753e-01	1.0000	14.0	0.47%	16.8	0.66%
GATA3(Zf),DR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATGKDGAGATAAG	1e0	-1.525e-01	1.0000	2.0	0.07%	4.0	0.15%
FOXA1:AR(Forkhead,NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	AGTAAACAAAAAAGAACAND	1e0	-1.445e-01	1.0000	6.0	0.20%	8.2	0.32%
Oct4:Sox17(POU,Homeobox,HMG)/F9-Sox17-ChIP-Seq(GSE44553)/Homer	CCATTGTATGCAAAT	1e0	-1.445e-01	1.0000	6.0	0.20%	8.9	0.35%
ZFX(Zf)/mES-Zfx-ChIP-Seq(GSE11431)/Homer	AGGCCTRG	1e0	-1.421e-01	1.0000	94.0	3.13%	93.9	3.68%
Unknown2/Drosophila-Promoters/Homer	CATCMCTA	1e0	-1.376e-01	1.0000	84.0	2.80%	84.3	3.30%
ZNF415(Zf)/HEK293-ZNF415.GFP-ChIP-Seq(GSE58341)/Homer	GRTGMTRGAGCC	1e0	-1.173e-01	1.0000	10.0	0.33%	13.4	0.52%
NF1(CTF)/LNCAP-NF1-ChIP-Seq(Unpublished)/Homer	CYTGGCABNSTGCCAR	1e0	-1.127e-01	1.0000	9.0	0.30%	12.4	0.48%
Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq(GSE22178)/Homer	MAATCACTGC	1e0	-1.115e-01	1.0000	57.0	1.90%	60.0	2.35%
Mouse_Recombination_Hotspot(Zf)/Testis-DMC1-ChIP-Seq(GSE24438)/Homer	ACTYKNATTCGTGNTACTTC	1e0	-1.073e-01	1.0000	8.0	0.27%	11.3	0.44%
ELT-3(Gata)/cElegans-L1-ELT3-ChIP-Seq(modEncode)/Homer	AWTGATAAGA	1e0	-1.062e-01	1.0000	33.0	1.10%	37.5	1.47%
PCF/Arabidopsis-Promoters/Homer	NNWWWTGGGCYTDDN	1e0	-1.042e-01	1.0000	21.0	0.70%	25.4	0.99%
GATA:SCL(Zf,bHLH)/Ter119-SCL-ChIP-Seq(GSE18720)/Homer	CRGCTGBNGNSNNSAGATAA	1e0	-1.032e-01	1.0000	3.0	0.10%	5.3	0.21%
Pax7(Paired,Homeobox),long/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCHGATTAC	1e0	-1.024e-01	1.0000	1.0	0.03%	2.5	0.10%
Gata2(Zf)/K562-GATA2-ChIP-Seq(GSE18829)/Homer	BBCTTATCTS	1e0	-9.603e-02	1.0000	53.0	1.77%	57.3	2.24%
p63(p53)/Keratinocyte-p63-ChIP-Seq(GSE17611)/Homer	NNDRCATGYCYNRRCATGYH	1e0	-9.390e-02	1.0000	14.0	0.47%	18.5	0.73%
Tbx5(T-box)/HL1-Tbx5.biotin-ChIP-Seq(GSE21529)/Homer	AGGTGTCA	1e0	-9.239e-02	1.0000	383.0	12.77%	357.4	13.98%
AP-2gamma(AP2)/MCF7-TFAP2C-ChIP-Seq(GSE21234)/Homer	SCCTSAGGSCAW	1e0	-8.872e-02	1.0000	64.0	2.13%	68.8	2.69%
PQM-1(?)/cElegans-L3-ChIP-Seq(modEncode)/Homer	ACTGATAAGA	1e0	-8.231e-02	1.0000	25.0	0.83%	30.1	1.18%
THRa(NR)/C17.2-THRa-ChIP-Seq(GSE38347)/Homer	GGTCANYTGAGGWCA	1e0	-8.167e-02	1.0000	24.0	0.80%	29.8	1.16%
Erra(NR)/HepG2-Erra-ChIP-Seq(GSE31477)/Homer	CAAAGGTCAG	1e0	-6.839e-02	1.0000	141.0	4.70%	142.9	5.59%
p53(p53)/Saos-p53-ChIP-Seq/Homer	RRCATGYCYRGRCATGYYYN	1e0	-5.795e-02	1.0000	3.0	0.10%	6.1	0.24%
ZNF382(Zf)/HEK293-ZNF382.GFP-ChIP-Seq(GSE58341)/Homer	GNCTGTASTRNTGBCTCHTT	1e0	-5.795e-02	1.0000	3.0	0.10%	6.6	0.26%
p53(p53)/Saos-p53-ChIP-Seq(GSE15780)/Homer	RRCATGYCYRGRCATGYYYN	1e0	-5.795e-02	1.0000	3.0	0.10%	6.1	0.24%
FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer	NYYTGTTTACHN	1e0	-5.441e-02	1.0000	43.0	1.43%	50.4	1.97%
Sox15(HMG)/CPA-Sox15-ChIP-Seq(GSE62909)/Homer	RAACAATGGN	1e0	-5.408e-02	1.0000	106.0	3.53%	111.4	4.36%
Srebp2(bHLH)/HepG2-Srebp2-ChIP-Seq(GSE31477)/Homer	CGGTCACSCCAC	1e0	-5.145e-02	1.0000	9.0	0.30%	14.7	0.58%
TR4(NR),DR1/Hela-TR4-ChIP-Seq(GSE24685)/Homer	GAGGTCAAAGGTCA	1e0	-5.111e-02	1.0000	5.0	0.17%	9.8	0.38%
GRHL2(CP2)/HBE-GRHL2-ChIP-Seq(GSE46194)/Homer	AAACYKGTTWDACMRGTTTB	1e0	-4.958e-02	1.0000	27.0	0.90%	35.0	1.37%
GAGA-repeat/Arabidopsis-Promoters/Homer	CTCTCTCTCY	1e0	-4.908e-02	1.0000	99.0	3.30%	105.4	4.12%
EBF1(EBF)/Near-E2A-ChIP-Seq(GSE21512)/Homer	GTCCCCWGGGGA	1e0	-4.755e-02	1.0000	80.0	2.67%	87.1	3.41%
HNF4a(NR),DR1/HepG2-HNF4a-ChIP-Seq(GSE25021)/Homer	CARRGKBCAAAGTYCA	1e0	-4.044e-02	1.0000	18.0	0.60%	25.0	0.98%
Zelda(Zf)/Embryo-zld-ChIP-Seq(GSE65441)/Homer	KBCTACCTGW	1e0	-3.631e-02	1.0000	25.0	0.83%	33.5	1.31%
Pbx3(Homeobox)/GM12878-PBX3-ChIP-Seq(GSE32465)/Homer	SCTGTCAMTCAN	1e0	-3.560e-02	1.0000	15.0	0.50%	22.5	0.88%
DMRT6(DM)/Testis-DMRT6-ChIP-Seq(GSE60440)/Homer	YDGHTACAWTGTADC	1e0	-3.372e-02	1.0000	14.0	0.47%	22.0	0.86%
HOXD13(Homeobox)/Chicken-Hoxd13-ChIP-Seq(GSE38910)/Homer	NCYAATAAAA	1e0	-3.056e-02	1.0000	157.0	5.23%	163.5	6.39%
Pitx1(Homeobox)/Chicken-Pitx1-ChIP-Seq(GSE38910)/Homer	TAATCCCN	1e0	-2.677e-02	1.0000	489.0	16.30%	466.7	18.26%
Znf263(Zf)/K562-Znf263-ChIP-Seq(GSE31477)/Homer	CVGTSCTCCC	1e0	-2.325e-02	1.0000	79.0	2.63%	90.5	3.54%
DMRT1(DM)/Testis-DMRT1-ChIP-Seq(GSE64892)/Homer	TWGHWACAWTGTWDC	1e0	-2.191e-02	1.0000	19.0	0.63%	28.7	1.12%
ZBTB12(Zf)/HEK293-ZBTB12.GFP-ChIP-Seq(GSE58341)/Homer	NGNTCTAGAACCNGV	1e0	-2.176e-02	1.0000	13.0	0.43%	21.8	0.85%
GFY(?)/Promoter/Homer	ACTACAATTCCC	1e0	-2.078e-02	1.0000	1.0	0.03%	4.2	0.16%
Brn2(POU,Homeobox)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATATTC	1e0	-1.949e-02	1.0000	8.0	0.27%	15.7	0.61%
Nanog(Homeobox)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	RGCCATTAAC	1e0	-1.782e-02	1.0000	503.0	16.77%	483.7	18.92%
RLR1?/SacCer-Promoters/Homer	WTTTTCYYTTTT	1e0	-1.594e-02	1.0000	124.0	4.13%	136.5	5.34%
Phox2a(Homeobox)/Neuron-Phox2a-ChIP-Seq(GSE31456)/Homer	YTAATYNRATTA	1e0	-1.506e-02	1.0000	36.0	1.20%	48.6	1.90%
E2A(bHLH),near_PU.1/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	NVCACCTGBN	1e0	-1.020e-02	1.0000	109.0	3.63%	124.2	4.86%
Lhx1(Homeobox)/EmbryoCarcinoma-Lhx1-ChIP-Seq(GSE70957)/Homer	NNYTAATTAR	1e0	-9.180e-03	1.0000	134.0	4.47%	149.4	5.85%
Tbox:Smad(T-box,MAD)/ESCd5-Smad2_3-ChIP-Seq(GSE29422)/Homer	AGGTGHCAGACA	1e0	-9.110e-03	1.0000	9.0	0.30%	18.8	0.74%
SeqBias: CG bias	SSSSSSSSSS	1e0	-7.206e-03	1.0000	987.0	32.90%	920.3	36.00%
Lhx3(Homeobox)/Neuron-Lhx3-ChIP-Seq(GSE31456)/Homer	ADBTAATTAR	1e0	-5.782e-03	1.0000	205.0	6.83%	220.4	8.62%
GATA(Zf),IR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NAGATWNBNATCTNN	1e0	-4.351e-03	1.0000	1.0	0.03%	6.1	0.24%
Trl(Zf)/S2-GAGAfactor-ChIP-Seq(GSE40646)/Homer	RGAGAGAG	1e0	-3.752e-03	1.0000	202.0	6.73%	220.8	8.64%
Pit1(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGMATATDC	1e0	-3.197e-03	1.0000	99.0	3.30%	120.9	4.73%
CES-1(Homeobox)/cElegans-L1-CES1-ChIP-Seq(modEncode)/Homer	AAATTSAATTTN	1e0	-2.843e-03	1.0000	59.0	1.97%	79.8	3.12%
GATA3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATAASR	1e0	-2.625e-03	1.0000	138.0	4.60%	161.0	6.30%
ZNF264(Zf)/HEK293-ZNF264.GFP-ChIP-Seq(GSE58341)/Homer	RGGGCACTAACY	1e0	-2.613e-03	1.0000	44.0	1.47%	63.2	2.47%
FXR(NR),IR1/Liver-FXR-ChIP-Seq(Chong_et_al.)/Homer	AGGTCANTGACCTB	1e0	-2.024e-03	1.0000	17.0	0.57%	32.8	1.28%
Gata4(Zf)/Heart-Gata4-ChIP-Seq(GSE35151)/Homer	NBWGATAAGR	1e0	-1.780e-03	1.0000	78.0	2.60%	101.5	3.97%
Srebp1a(bHLH)/HepG2-Srebp1a-ChIP-Seq(GSE31477)/Homer	RTCACSCCAY	1e0	-1.666e-03	1.0000	10.0	0.33%	23.3	0.91%
Foxh1(Forkhead)/hESC-FOXH1-ChIP-Seq(GSE29422)/Homer	NNTGTGGATTSS	1e0	-1.257e-03	1.0000	34.0	1.13%	54.5	2.13%
NFAT(RHD)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	ATTTTCCATT	1e0	-6.650e-04	1.0000	78.0	2.60%	105.6	4.13%
Otx2(Homeobox)/EpiLC-Otx2-ChIP-Seq(GSE56098)/Homer	NYTAATCCYB	1e0	-4.960e-04	1.0000	41.0	1.37%	65.7	2.57%
BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer	CNNBRGCGCCCCCTGSTGGC	1e0	-2.840e-04	1.0000	9.0	0.30%	25.7	1.00%
Nkx6.1(Homeobox)/Islet-Nkx6.1-ChIP-Seq(GSE40975)/Homer	GKTAATGR	1e0	-2.500e-04	1.0000	336.0	11.20%	366.0	14.32%
NFY(CCAAT)/Promoter/Homer	RGCCAATSRG	1e0	-1.570e-04	1.0000	30.0	1.00%	55.1	2.16%
HNF6(Homeobox)/Liver-Hnf6-ChIP-Seq(ERP000394)/Homer	NTATYGATCH	1e0	-7.700e-05	1.0000	27.0	0.90%	53.8	2.11%
CRX(Homeobox)/Retina-Crx-ChIP-Seq(GSE20012)/Homer	GCTAATCC	1e0	-7.600e-05	1.0000	195.0	6.50%	235.2	9.20%
Smad2(MAD)/ES-SMAD2-ChIP-Seq(GSE29422)/Homer	CTGTCTGG	1e0	-6.700e-05	1.0000	94.0	3.13%	131.1	5.13%
NF1-halfsite(CTF)/LNCaP-NF1-ChIP-Seq(Unpublished)/Homer	YTGCCAAG	1e0	-5.200e-05	1.0000	94.0	3.13%	132.4	5.18%
Nkx2.5(Homeobox)/HL1-Nkx2.5.biotin-ChIP-Seq(GSE21529)/Homer	RRSCACTYAA	1e0	-3.300e-05	1.0000	225.0	7.50%	269.7	10.55%
Smad3(MAD)/NPC-Smad3-ChIP-Seq(GSE36673)/Homer	TWGTCTGV	1e0	-3.200e-05	1.0000	249.0	8.30%	293.4	11.48%
Bapx1(Homeobox)/VertebralCol-Bapx1-ChIP-Seq(GSE36672)/Homer	TTRAGTGSYK	1e0	-2.700e-05	1.0000	243.0	8.10%	288.2	11.28%
Nkx2.1(Homeobox)/LungAC-Nkx2.1-ChIP-Seq(GSE43252)/Homer	RSCACTYRAG	1e0	-1.200e-05	1.0000	302.0	10.07%	350.7	13.72%
Pax7(Paired,Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCAATTA	1e0	-9.000e-06	1.0000	2.0	0.07%	17.8	0.70%
Smad4(MAD)/ESC-SMAD4-ChIP-Seq(GSE29422)/Homer	VBSYGTCTGG	1e0	-7.000e-06	1.0000	84.0	2.80%	128.9	5.04%
EGL-5(Homeobox)/cElegans-L3-EGL5-ChIP-Seq(modEncode)/Homer	ATTTAATGGG	1e0	-7.000e-06	1.0000	137.0	4.57%	186.5	7.30%
GSC(Homeobox)/FrogEmbryos-GSC-ChIP-Seq(DRA000576)/Homer	RGGATTAR	1e0	-3.000e-06	1.0000	89.0	2.97%	136.2	5.33%
Isl1(Homeobox)/Neuron-Isl1-ChIP-Seq(GSE31456)/Homer	CTAATKGV	1e0	-1.000e-06	1.0000	195.0	6.50%	254.5	9.95%
TEAD2(TEA)/Py2T-Tead2-ChIP-Seq(GSE55709)/Homer	CCWGGAATGY	1e0	-0.000e+00	1.0000	11.0	0.37%	41.8	1.64%
KANADI1(Myb)/Seedling-KAN1-ChIP-Seq(GSE48081)/Homer	ARGAATAWWN	1e0	-0.000e+00	1.0000	87.0	2.90%	142.4	5.57%
Nkx2.2(Homeobox)/NPC-Nkx2.2-ChIP-Seq(GSE61673)/Homer	BTBRAGTGSN	1e0	-0.000e+00	1.0000	151.0	5.03%	230.0	9.00%
TEAD4(TEA)/Tropoblast-Tead4-ChIP-Seq(GSE37350)/Homer	CCWGGAATGY	1e0	-0.000e+00	1.0000	15.0	0.50%	62.0	2.42%
ZFP3(Zf)/HEK293-ZFP3.GFP-ChIP-Seq(GSE58341)/Homer	GGGTTTTGAAGGATGARTAGGAGTT	1e0	-0.000e+00	1.0000	0.0	0.00%	1.0	0.04%
LIN-15B(Zf)/cElegans-L3-LIN15B-ChIP-Seq(modEncode)/Homer	CARTGGAGCGCRYTTGCATT	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
CTCF-SatelliteElement(Zf?)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	TGCAGTTCCMVNWRTGGCCA	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
p53(p53)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	ACATGCCCGGGCAT	1e0	0.000e+00	1.0000	0.0	0.00%	0.3	0.01%
EFL-1(E2F)/cElegans-L1-EFL1-ChIP-Seq(modEncode)/Homer	TGCAARYGCGCTCYA	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
 Ik-1	NHTTGGGAATRCC	1e0	0.000e+00	1.0000	3000.0	100.00%	2556.2	100.00%
OCT:OCT(POU,Homeobox,IR1)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATWATTCATGA	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
DREF/Drosophila-Promoters/Homer	AVYTATCGATAD	1e0	0.000e+00	1.0000	0.0	0.00%	0.4	0.02%
OCT:OCT(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	ATGAATATTCATGAG	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
ZNF528(Zf)/HEK293-ZNF528.GFP-ChIP-Seq(GSE58341)/Homer	AGAAATGACTTCCCT	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
TEAD(TEA)/Fibroblast-PU.1-ChIP-Seq(Unpublished)/Homer	YCWGGAATGY	1e0	0.000e+00	1.0000	13.0	0.43%	62.4	2.44%