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 2723)	% of Background Sequences with Motif
Mef2b(MADS)/HEK293-Mef2b.V5-ChIP-Seq(GSE67450)/Homer	GCTATTTTTGGM	1e-299	-6.893e+02	0.0000	1403.0	46.77%	153.6	5.64%
Mef2c(MADS)/GM12878-Mef2c-ChIP-Seq(GSE32465)/Homer	DCYAAAAATAGM	1e-225	-5.188e+02	0.0000	1090.0	36.33%	108.8	4.00%
Mef2a(MADS)/HL1-Mef2a.biotin-ChIP-Seq(GSE21529)/Homer	CYAAAAATAG	1e-189	-4.362e+02	0.0000	960.0	32.00%	100.2	3.68%
Mef2d(MADS)/Retina-Mef2d-ChIP-Seq(GSE61391)/Homer	GCTATTTTTAGC	1e-169	-3.910e+02	0.0000	719.0	23.97%	36.1	1.33%
Atf3(bZIP)/GBM-ATF3-ChIP-Seq(GSE33912)/Homer	DATGASTCATHN	1e-77	-1.788e+02	0.0000	407.0	13.57%	36.8	1.35%
BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer	DATGASTCAT	1e-75	-1.746e+02	0.0000	420.0	14.00%	43.4	1.59%
Fra1(bZIP)/BT549-Fra1-ChIP-Seq(GSE46166)/Homer	NNATGASTCATH	1e-72	-1.661e+02	0.0000	369.0	12.30%	30.0	1.10%
AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	VTGACTCATC	1e-67	-1.552e+02	0.0000	404.0	13.47%	49.5	1.82%
SOC1(MADS)/Seedling-SOC1-ChIP-Seq(GSE45846)/Homer	TWCCAWWTWTGG	1e-52	-1.199e+02	0.0000	315.0	10.50%	38.6	1.42%
Fosl2(bZIP)/3T3L1-Fosl2-ChIP-Seq(GSE56872)/Homer	NATGASTCABNN	1e-46	-1.065e+02	0.0000	229.0	7.63%	16.2	0.60%
RUNX1(Runt)/Jurkat-RUNX1-ChIP-Seq(GSE29180)/Homer	AAACCACARM	1e-44	-1.021e+02	0.0000	394.0	13.13%	87.1	3.20%
SEP3(MADS)/Arabidoposis-Flower-Sep3-ChIP-Seq/Homer	CCAAAAAGGG	1e-43	-1.008e+02	0.0000	634.0	21.13%	223.5	8.21%
Jun-AP1(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	GATGASTCATCN	1e-40	-9.291e+01	0.0000	183.0	6.10%	9.5	0.35%
RUNX(Runt)/HPC7-Runx1-ChIP-Seq(GSE22178)/Homer	SAAACCACAG	1e-40	-9.224e+01	0.0000	313.0	10.43%	58.7	2.16%
RUNX2(Runt)/PCa-RUNX2-ChIP-Seq(GSE33889)/Homer	NWAACCACADNN	1e-36	-8.418e+01	0.0000	327.0	10.90%	72.7	2.67%
Fli1(ETS)/CD8-FLI-ChIP-Seq(GSE20898)/Homer	NRYTTCCGGH	1e-31	-7.264e+01	0.0000	295.0	9.83%	68.7	2.52%
RUNX-AML(Runt)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	GCTGTGGTTW	1e-29	-6.842e+01	0.0000	278.0	9.27%	64.2	2.36%
PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	MGGAAGTGAAAC	1e-29	-6.797e+01	0.0000	368.0	12.27%	112.8	4.14%
PU.1:IRF8(ETS:IRF)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	GGAAGTGAAAST	1e-29	-6.682e+01	0.0000	171.0	5.70%	19.7	0.72%
ETS1(ETS)/Jurkat-ETS1-ChIP-Seq(GSE17954)/Homer	ACAGGAAGTG	1e-28	-6.654e+01	0.0000	272.0	9.07%	63.4	2.33%
Etv2(ETS)/ES-ER71-ChIP-Seq(GSE59402)/Homer(0.967)	NNAYTTCCTGHN	1e-28	-6.614e+01	0.0000	244.0	8.13%	50.2	1.84%
ERG(ETS)/VCaP-ERG-ChIP-Seq(GSE14097)/Homer	ACAGGAAGTG	1e-26	-6.143e+01	0.0000	340.0	11.33%	105.1	3.86%
PU.1(ETS)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	AGAGGAAGTG	1e-25	-5.795e+01	0.0000	178.0	5.93%	28.7	1.06%
bZIP:IRF(bZIP,IRF)/Th17-BatF-ChIP-Seq(GSE39756)/Homer	NAGTTTCABTHTGACTNW	1e-24	-5.544e+01	0.0000	228.0	7.60%	53.5	1.97%
ETV1(ETS)/GIST48-ETV1-ChIP-Seq(GSE22441)/Homer	AACCGGAAGT	1e-23	-5.437e+01	0.0000	314.0	10.47%	100.8	3.70%
IRF4(IRF)/GM12878-IRF4-ChIP-Seq(GSE32465)/Homer	ACTGAAACCA	1e-23	-5.404e+01	0.0000	225.0	7.50%	54.0	1.98%
Bach2(bZIP)/OCILy7-Bach2-ChIP-Seq(GSE44420)/Homer	TGCTGAGTCA	1e-23	-5.354e+01	0.0000	97.0	3.23%	3.3	0.12%
GABPA(ETS)/Jurkat-GABPa-ChIP-Seq(GSE17954)/Homer	RACCGGAAGT	1e-21	-4.855e+01	0.0000	215.0	7.17%	54.7	2.01%
SpiB(ETS)/OCILY3-SPIB-ChIP-Seq(GSE56857)/Homer	AAAGRGGAAGTG	1e-18	-4.326e+01	0.0000	128.0	4.27%	19.2	0.71%
Ets1-distal(ETS)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	MACAGGAAGT	1e-18	-4.304e+01	0.0000	112.0	3.73%	13.3	0.49%
IRF1(IRF)/PBMC-IRF1-ChIP-Seq(GSE43036)/Homer	GAAAGTGAAAGT	1e-17	-4.062e+01	0.0000	118.0	3.93%	17.5	0.64%
IRF:BATF(IRF:bZIP)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	CTTTCANTATGACTV	1e-17	-4.021e+01	0.0000	127.0	4.23%	21.2	0.78%
CArG(MADS)/PUER-Srf-ChIP-Seq(Sullivan_et_al.)/Homer	CCATATATGGNM	1e-16	-3.890e+01	0.0000	149.0	4.97%	32.9	1.21%
EWS:ERG-fusion(ETS)/CADO_ES1-EWS:ERG-ChIP-Seq(SRA014231)/Homer	ATTTCCTGTN	1e-16	-3.831e+01	0.0000	182.0	6.07%	49.5	1.82%
ELF5(ETS)/T47D-ELF5-ChIP-Seq(GSE30407)/Homer	ACVAGGAAGT	1e-16	-3.741e+01	0.0000	178.0	5.93%	48.2	1.77%
IRF2(IRF)/Erythroblas-IRF2-ChIP-Seq(GSE36985)/Homer	GAAASYGAAASY	1e-15	-3.612e+01	0.0000	94.0	3.13%	11.2	0.41%
ELF1(ETS)/Jurkat-ELF1-ChIP-Seq(SRA014231)/Homer	AVCCGGAAGT	1e-14	-3.305e+01	0.0000	115.0	3.83%	22.1	0.81%
Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer	TGCGTGGGYG	1e-14	-3.293e+01	0.0000	132.0	4.40%	30.7	1.13%
Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer	NRYTTCCGGY	1e-14	-3.247e+01	0.0000	131.0	4.37%	30.6	1.12%
Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer	HACTTCCGGY	1e-13	-3.195e+01	0.0000	136.0	4.53%	33.7	1.24%
EWS:FLI1-fusion(ETS)/SK_N_MC-EWS:FLI1-ChIP-Seq(SRA014231)/Homer	VACAGGAAAT	1e-13	-3.150e+01	0.0000	137.0	4.57%	34.5	1.27%
EHF(ETS)/LoVo-EHF-ChIP-Seq(GSE49402)/Homer	AVCAGGAAGT	1e-13	-3.117e+01	0.0000	244.0	8.13%	95.0	3.49%
ISRE(IRF)/ThioMac-LPS-Expression(GSE23622)/Homer	AGTTTCASTTTC	1e-12	-2.852e+01	0.0000	60.0	2.00%	4.9	0.18%
ETS(ETS)/Promoter/Homer	AACCGGAAGT	1e-12	-2.813e+01	0.0000	89.0	2.97%	15.6	0.57%
SeqBias: A/T bias	WWWWWWWWWW	1e-11	-2.584e+01	0.0000	2604.0	86.80%	2181.8	80.14%
NFkB-p65(RHD)/GM12787-p65-ChIP-Seq(GSE19485)/Homer	WGGGGATTTCCC	1e-11	-2.558e+01	0.0000	129.0	4.30%	37.5	1.38%
ETS:RUNX(ETS,Runt)/Jurkat-RUNX1-ChIP-Seq(GSE17954)/Homer	RCAGGATGTGGT	1e-10	-2.426e+01	0.0000	46.0	1.53%	2.8	0.10%
Bach1(bZIP)/K562-Bach1-ChIP-Seq(GSE31477)/Homer	AWWNTGCTGAGTCAT	1e-9	-2.269e+01	0.0000	35.0	1.17%	0.5	0.02%
PRDM1(Zf)/Hela-PRDM1-ChIP-Seq(GSE31477)/Homer	ACTTTCACTTTC	1e-9	-2.235e+01	0.0000	161.0	5.37%	60.6	2.23%
Nrf2(bZIP)/Lymphoblast-Nrf2-ChIP-Seq(GSE37589)/Homer	HTGCTGAGTCAT	1e-9	-2.139e+01	0.0000	33.0	1.10%	0.5	0.02%
NF-E2(bZIP)/K562-NFE2-ChIP-Seq(GSE31477)/Homer	GATGACTCAGCA	1e-7	-1.692e+01	0.0000	37.0	1.23%	3.0	0.11%
BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer	CNNBRGCGCCCCCTGSTGGC	1e-7	-1.671e+01	0.0000	30.0	1.00%	1.9	0.07%
SeqBias: polyA-repeat	AAAAAAAAAA	1e-7	-1.636e+01	0.0000	2908.0	96.93%	2560.8	94.06%
Initiator/Drosophila-Promoters/Homer	NTCAGTYG	1e-6	-1.610e+01	0.0000	481.0	16.03%	307.3	11.29%
MyoD(bHLH)/Myotube-MyoD-ChIP-Seq(GSE21614)/Homer	RRCAGCTGYTSY	1e-6	-1.591e+01	0.0000	104.0	3.47%	37.0	1.36%
SPDEF(ETS)/VCaP-SPDEF-ChIP-Seq(SRA014231)/Homer	ASWTCCTGBT	1e-6	-1.587e+01	0.0000	143.0	4.77%	61.3	2.25%
Tcf12(bHLH)/GM12878-Tcf12-ChIP-Seq(GSE32465)/Homer	VCAGCTGYTG	1e-6	-1.543e+01	0.0000	140.0	4.67%	60.7	2.23%
MyoG(bHLH)/C2C12-MyoG-ChIP-Seq(GSE36024)/Homer	AACAGCTG	1e-6	-1.531e+01	0.0000	152.0	5.07%	68.7	2.52%
Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer	BAACAGCTGT	1e-6	-1.440e+01	0.0000	108.0	3.60%	42.7	1.57%
Egr2(Zf)/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer	NGCGTGGGCGGR	1e-5	-1.355e+01	0.0000	50.0	1.67%	11.1	0.41%
Ap4(bHLH)/AML-Tfap4-ChIP-Seq(GSE45738)/Homer	NAHCAGCTGD	1e-5	-1.339e+01	0.0000	169.0	5.63%	84.9	3.12%
Atf2(bZIP)/3T3L1-Atf2-ChIP-Seq(GSE56872)/Homer	NRRTGACGTCAT	1e-5	-1.314e+01	0.0000	61.0	2.03%	17.4	0.64%
Tcf21(bHLH)/ArterySmoothMuscle-Tcf21-ChIP-Seq(GSE61369)/Homer	NAACAGCTGG	1e-5	-1.288e+01	0.0000	136.0	4.53%	63.6	2.33%
KLF14(Zf)/HEK293-KLF14.GFP-ChIP-Seq(GSE58341)/Homer	RGKGGGCGKGGC	1e-5	-1.270e+01	0.0000	185.0	6.17%	97.4	3.58%
c-Jun-CRE(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	ATGACGTCATCY	1e-5	-1.243e+01	0.0000	63.0	2.10%	19.9	0.73%
NFkB-p65-Rel(RHD)/ThioMac-LPS-Expression(GSE23622)/Homer	GGAAATTCCC	1e-5	-1.179e+01	0.0000	33.0	1.10%	5.5	0.20%
MafK(bZIP)/C2C12-MafK-ChIP-Seq(GSE36030)/Homer	GCTGASTCAGCA	1e-5	-1.176e+01	0.0000	44.0	1.47%	10.7	0.39%
Atf7(bZIP)/3T3L1-Atf7-ChIP-Seq(GSE56872)/Homer	NGRTGACGTCAY	1e-4	-1.123e+01	0.0001	95.0	3.17%	40.6	1.49%
Ascl1(bHLH)/NeuralTubes-Ascl1-ChIP-Seq(GSE55840)/Homer	NNVVCAGCTGBN	1e-4	-1.120e+01	0.0001	194.0	6.47%	108.8	3.99%
Oct6(POU,Homeobox)/NPC-Oct6-ChIP-Seq(GSE35496)/Homer	WATGCAAATGAG	1e-4	-1.015e+01	0.0002	74.0	2.47%	29.6	1.09%
Foxo1(Forkhead)/RAW-Foxo1-ChIP-Seq(Fan_et_al.)/Homer	CTGTTTAC	1e-4	-9.949e+00	0.0003	281.0	9.37%	178.9	6.57%
Ptf1a(bHLH)/Panc1-Ptf1a-ChIP-Seq(GSE47459)/Homer	ACAGCTGTTN	1e-4	-9.620e+00	0.0004	348.0	11.60%	232.5	8.54%
Atf1(bZIP)/K562-ATF1-ChIP-Seq(GSE31477)/Homer	GATGACGTCA	1e-4	-9.317e+00	0.0005	127.0	4.23%	66.2	2.43%
Sp1(Zf)/Promoter/Homer	GGCCCCGCCCCC	1e-3	-8.877e+00	0.0007	20.0	0.67%	2.9	0.11%
Dorsal(RHD)/Embryo-dl-ChIP-Seq(GSE65441)/Homer	GGGAAAAMCCCG	1e-3	-8.782e+00	0.0008	41.0	1.37%	12.3	0.45%
CEBP:AP1(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	DRTGTTGCAA	1e-3	-8.534e+00	0.0010	128.0	4.27%	69.1	2.54%
E2A(bHLH)/proBcell-E2A-ChIP-Seq(GSE21978)/Homer	DNRCAGCTGY	1e-3	-7.966e+00	0.0017	197.0	6.57%	122.6	4.50%
Unknown1/Arabidopsis-Promoters/Homer	RGGGTAWWWTHGTAA	1e-3	-7.796e+00	0.0020	25.0	0.83%	5.8	0.21%
RFX(HTH)/K562-RFX3-ChIP-Seq(SRA012198)/Homer	CGGTTGCCATGGCAAC	1e-3	-7.759e+00	0.0021	12.0	0.40%	0.7	0.03%
HLH-1(bHLH)/cElegans-Embryo-HLH1-ChIP-Seq(modEncode)/Homer	RACAGCTGTTBH	1e-3	-7.572e+00	0.0025	107.0	3.57%	57.2	2.10%
JunD(bZIP)/K562-JunD-ChIP-Seq/Homer	ATGACGTCATCN	1e-3	-7.525e+00	0.0026	20.0	0.67%	3.4	0.12%
Brn1(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	TATGCWAATBAV	1e-3	-7.306e+00	0.0032	54.0	1.80%	22.2	0.82%
NFkB-p50,p52(RHD)/Monocyte-p50-ChIP-Chip(Schreiber_et_al.)/Homer	GGGGGAATCCCC	1e-3	-7.295e+00	0.0032	26.0	0.87%	6.1	0.23%
MYB(HTH)/ERMYB-Myb-ChIPSeq(GSE22095)/Homer	GGCVGTTR	1e-3	-7.243e+00	0.0033	296.0	9.87%	203.3	7.47%
SCL(bHLH)/HPC7-Scl-ChIP-Seq(GSE13511)/Homer	AVCAGCTG	1e-3	-7.160e+00	0.0035	575.0	19.17%	434.9	15.97%
Atf4(bZIP)/MEF-Atf4-ChIP-Seq(GSE35681)/Homer	MTGATGCAAT	1e-3	-6.922e+00	0.0044	48.0	1.60%	19.5	0.72%
CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	AYAGTGCCMYCTRGTGGCCA	1e-2	-6.899e+00	0.0045	21.0	0.70%	4.1	0.15%
Chop(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	ATTGCATCAT	1e-2	-6.778e+00	0.0050	41.0	1.37%	15.0	0.55%
Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer	GGGGGGGG	1e-2	-6.585e+00	0.0060	126.0	4.20%	74.9	2.75%
PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer	ADGGYAGYAGCATCT	1e-2	-6.454e+00	0.0068	59.0	1.97%	27.6	1.01%
PAX6(Paired,Homeobox)/Forebrain-Pax6-ChIP-Seq(GSE66961)/Homer	NGTGTTCAVTSAAGCGKAAA	1e-2	-6.134e+00	0.0092	15.0	0.50%	2.4	0.09%
Oct2(POU,Homeobox)/Bcell-Oct2-ChIP-Seq(GSE21512)/Homer	ATATGCAAAT	1e-2	-6.049e+00	0.0099	65.0	2.17%	32.2	1.18%
MafA(bZIP)/Islet-MafA-ChIP-Seq(GSE30298)/Homer	TGCTGACTCA	1e-2	-5.495e+00	0.0171	95.0	3.17%	55.5	2.04%
CHR(?)/Hela-CellCycle-Expression/Homer	SRGTTTCAAA	1e-2	-5.466e+00	0.0174	107.0	3.57%	64.8	2.38%
LHY(Myb)/Seedling-LHY-ChIP-Seq(GSE52175)/Homer	ADAAATATCT	1e-2	-5.134e+00	0.0240	156.0	5.20%	103.3	3.80%
SeqBias: TA-repeat	TATATATATA	1e-2	-5.094e+00	0.0247	885.0	29.50%	721.9	26.52%
Max(bHLH)/K562-Max-ChIP-Seq(GSE31477)/Homer	RCCACGTGGYYN	1e-2	-5.059e+00	0.0254	64.0	2.13%	35.0	1.28%
Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer	SCCTAGCAACAG	1e-2	-5.048e+00	0.0254	39.0	1.30%	18.0	0.66%
Atoh1(bHLH)/Cerebellum-Atoh1-ChIP-Seq(GSE22111)/Homer	VNRVCAGCTGGY	1e-2	-5.019e+00	0.0258	127.0	4.23%	81.5	2.99%
HEB(bHLH)/mES-Heb-ChIP-Seq(GSE53233)/Homer	VCAGCTGBNN	1e-2	-5.011e+00	0.0258	234.0	7.80%	166.8	6.13%
MITF(bHLH)/MastCells-MITF-ChIP-Seq(GSE48085)/Homer	RTCATGTGAC	1e-2	-4.961e+00	0.0268	111.0	3.70%	69.2	2.54%
TATA-Box(TBP)/Promoter/Homer	CCTTTTAWAGSC	1e-2	-4.799e+00	0.0313	269.0	8.97%	196.4	7.21%
NRF(NRF)/Promoter/Homer	STGCGCATGCGC	1e-2	-4.712e+00	0.0338	10.0	0.33%	1.5	0.05%
PPARE(NR),DR1/3T3L1-Pparg-ChIP-Seq(GSE13511)/Homer	TGACCTTTGCCCCA	1e-2	-4.698e+00	0.0339	79.0	2.63%	46.7	1.71%
Nur77(NR)/K562-NR4A1-ChIP-Seq(GSE31363)/Homer	TGACCTTTNCNT	1e-2	-4.695e+00	0.0339	20.0	0.67%	7.0	0.26%
Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer	GTTGCCATGGCAACM	1e-1	-4.563e+00	0.0381	12.0	0.40%	2.1	0.08%
Pho4(bHLH)/Yeast-Pho4-ChIP-Seq(GSE29506)/Homer	AAGCACGTGBGD	1e-1	-4.530e+00	0.0390	14.0	0.47%	3.5	0.13%
Tgif1(Homeobox)/mES-Tgif1-ChIP-Seq(GSE55404)/Homer	YTGWCADY	1e-1	-4.485e+00	0.0404	446.0	14.87%	347.1	12.75%
Oct4(POU,Homeobox)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAW	1e-1	-4.417e+00	0.0428	87.0	2.90%	53.9	1.98%
Pho2(bHLH)/Yeast-Pho2-ChIP-Seq(GSE29506)/Homer	CCCACGTGCT	1e-1	-4.405e+00	0.0430	26.0	0.87%	10.8	0.40%
BMYB(HTH)/Hela-BMYB-ChIP-Seq(GSE27030)/Homer	NHAACBGYYV	1e-1	-4.377e+00	0.0438	229.0	7.63%	166.2	6.10%
AP-2alpha(AP2)/Hela-AP2alpha-ChIP-Seq(GSE31477)/Homer	ATGCCCTGAGGC	1e-1	-4.242e+00	0.0497	66.0	2.20%	38.5	1.41%
PAX5(Paired,Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GCAGCCAAGCRTGACH	1e-1	-4.191e+00	0.0518	42.0	1.40%	21.3	0.78%
T1ISRE(IRF)/ThioMac-Ifnb-Expression/Homer	ACTTTCGTTTCT	1e-1	-4.152e+00	0.0534	9.0	0.30%	1.3	0.05%
Esrrb(NR)/mES-Esrrb-ChIP-Seq(GSE11431)/Homer	KTGACCTTGA	1e-1	-4.053e+00	0.0584	50.0	1.67%	27.5	1.01%
ZNF675(Zf)/HEK293-ZNF675.GFP-ChIP-Seq(GSE58341)/Homer	ARGAGGMCAAAATGW	1e-1	-4.018e+00	0.0595	20.0	0.67%	7.8	0.29%
FHY3(FAR1)/Arabidopsis-FHY3-ChIP-Seq(GSE30711)/Homer	HHCACGCGCBTN	1e-1	-4.018e+00	0.0595	20.0	0.67%	7.3	0.27%
RXR(NR),DR1/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer	TAGGGCAAAGGTCA	1e-1	-3.979e+00	0.0613	86.0	2.87%	54.1	1.99%
EBF(EBF)/proBcell-EBF-ChIP-Seq(GSE21978)/Homer	DGTCCCYRGGGA	1e-1	-3.923e+00	0.0644	23.0	0.77%	9.5	0.35%
ZNF382(Zf)/HEK293-ZNF382.GFP-ChIP-Seq(GSE58341)/Homer	GNCTGTASTRNTGBCTCHTT	1e-1	-3.877e+00	0.0668	6.0	0.20%	0.6	0.02%
FoxL2(Forkhead)/Ovary-FoxL2-ChIP-Seq(GSE60858)/Homer	WWTRTAAACAVG	1e-1	-3.873e+00	0.0668	160.0	5.33%	113.2	4.16%
Tal1	CATCTG	1e-1	-3.827e+00	0.0690	151.0	5.03%	106.9	3.93%
SeqBias: GCW-triplet	GCWGCWGCWGCW	1e-1	-3.659e+00	0.0810	2881.0	96.03%	2584.1	94.91%
ZNF467(Zf)/HEK293-ZNF467.GFP-ChIP-Seq(GSE58341)/Homer	TGGGGAAGGGCM	1e-1	-3.618e+00	0.0838	67.0	2.23%	41.1	1.51%
HOXA2(Homeobox)/mES-Hoxa2-ChIP-Seq(Donaldson_et_al.)/Homer	GYCATCMATCAT	1e-1	-3.560e+00	0.0881	10.0	0.33%	2.8	0.10%
ARE(NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	RGRACASNSTGTYCYB	1e-1	-3.514e+00	0.0914	17.0	0.57%	6.6	0.24%
SPCH(bHLH)/Seedling-SPCH-ChIP-Seq(GSE57497)/Homer	WNBCACGTGA	1e-1	-3.420e+00	0.0997	117.0	3.90%	81.4	2.99%
AP-2gamma(AP2)/MCF7-TFAP2C-ChIP-Seq(GSE21234)/Homer	SCCTSAGGSCAW	1e-1	-3.379e+00	0.1023	89.0	2.97%	59.8	2.20%
NeuroD1(bHLH)/Islet-NeuroD1-ChIP-Seq(GSE30298)/Homer	GCCATCTGTT	1e-1	-3.379e+00	0.1023	89.0	2.97%	59.7	2.19%
CEBP(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	ATTGCGCAAC	1e-1	-3.334e+00	0.1061	90.0	3.00%	60.5	2.22%
Tgif2(Homeobox)/mES-Tgif2-ChIP-Seq(GSE55404)/Homer	TGTCANYT	1e-1	-3.327e+00	0.1061	473.0	15.77%	382.7	14.06%
Tbet(T-box)/CD8-Tbet-ChIP-Seq(GSE33802)/Homer	AGGTGTGAAM	1e-1	-3.131e+00	0.1280	182.0	6.07%	136.2	5.00%
AMYB(HTH)/Testes-AMYB-ChIP-Seq(GSE44588)/Homer	TGGCAGTTGG	1e-1	-3.109e+00	0.1299	201.0	6.70%	152.0	5.58%
NFAT:AP1(RHD,bZIP)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	SARTGGAAAAWRTGAGTCAB	1e-1	-3.104e+00	0.1299	25.0	0.83%	13.0	0.48%
TOD6?/SacCer-Promoters/Homer	GCGATGAGMT	1e-1	-3.097e+00	0.1299	19.0	0.63%	8.5	0.31%
Pdx1(Homeobox)/Islet-Pdx1-ChIP-Seq(SRA008281)/Homer	YCATYAATCA	1e-1	-3.032e+00	0.1372	129.0	4.30%	93.6	3.44%
CRE(bZIP)/Promoter/Homer	CSGTGACGTCAC	1e-1	-3.018e+00	0.1382	29.0	0.97%	15.3	0.56%
RORgt(NR)/EL4-RORgt.Flag-ChIP-Seq(GSE56019)/Homer	AAYTAGGTCA	1e-1	-2.819e+00	0.1674	24.0	0.80%	13.0	0.48%
Six1(Homeobox)/Myoblast-Six1-ChIP-Chip(GSE20150)/Homer	GKVTCADRTTWC	1e-1	-2.814e+00	0.1674	31.0	1.03%	17.7	0.65%
LIN-39(Homeobox)/cElegans.L3-LIN39-ChIP-Seq(modEncode)/Homer	ATGATTRATG	1e-1	-2.770e+00	0.1733	187.0	6.23%	143.5	5.27%
EBF1(EBF)/Near-E2A-ChIP-Seq(GSE21512)/Homer	GTCCCCWGGGGA	1e-1	-2.752e+00	0.1750	80.0	2.67%	55.6	2.04%
GAGA-repeat/SacCer-Promoters/Homer	CTYTCTYTCTCTCTC	1e-1	-2.739e+00	0.1762	645.0	21.50%	540.9	19.87%
GRE(NR),IR3/A549-GR-ChIP-Seq(GSE32465)/Homer	NRGVACABNVTGTYCY	1e-1	-2.725e+00	0.1762	10.0	0.33%	3.4	0.12%
ETS:E-box(ETS,bHLH)/HPC7-Scl-ChIP-Seq(GSE22178)/Homer	AGGAARCAGCTG	1e-1	-2.725e+00	0.1762	10.0	0.33%	3.1	0.11%
SeqBias: CA-repeat	CACACACACA	1e-1	-2.719e+00	0.1762	903.0	30.10%	769.7	28.27%
HIF-1a(bHLH)/MCF7-HIF1a-ChIP-Seq(GSE28352)/Homer	TACGTGCV	1e-1	-2.658e+00	0.1857	22.0	0.73%	11.1	0.41%
X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	GGTTGCCATGGCAA	1e-1	-2.628e+00	0.1901	13.0	0.43%	5.0	0.18%
PRDM14(Zf)/H1-PRDM14-ChIP-Seq(GSE22767)/Homer	RGGTCTCTAACY	1e-1	-2.600e+00	0.1942	26.0	0.87%	14.1	0.52%
RARg(NR)/ES-RARg-ChIP-Seq(GSE30538)/Homer	AGGTCAAGGTCA	1e-1	-2.584e+00	0.1961	4.0	0.13%	0.6	0.02%
TATA-box/Drosophila-Promoters/Homer	CTATAAAAGCSV	1e-1	-2.544e+00	0.2027	23.0	0.77%	13.0	0.48%
PHA-4(Forkhead)/cElegans-Embryos-PHA4-ChIP-Seq(modEncode)/Homer	KTGTTTGC	1e-1	-2.544e+00	0.2027	511.0	17.03%	426.0	15.65%
BMAL1(bHLH)/Liver-Bmal1-ChIP-Seq(GSE39860)/Homer	GNCACGTG	1e-1	-2.525e+00	0.2039	194.0	6.47%	152.0	5.58%
Hoxc9(Homeobox)/Ainv15-Hoxc9-ChIP-Seq(GSE21812)/Homer	GGCCATAAATCA	1e-1	-2.458e+00	0.2164	94.0	3.13%	68.9	2.53%
n-Myc(bHLH)/mES-nMyc-ChIP-Seq(GSE11431)/Homer	VRCCACGTGG	1e-1	-2.336e+00	0.2429	51.0	1.70%	34.7	1.27%
Rfx1(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	KGTTGCCATGGCAA	1e0	-2.288e+00	0.2533	15.0	0.50%	7.4	0.27%
E-box/Arabidopsis-Promoters/Homer	GCCACGTG	1e0	-2.278e+00	0.2541	34.0	1.13%	21.3	0.78%
Unknown-ESC-element(?)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	CACAGCAGGGGG	1e0	-2.221e+00	0.2675	44.0	1.47%	29.8	1.09%
SeqBias: C/A-bias	MMMMMMMMMM	1e0	-2.139e+00	0.2884	2923.0	97.43%	2637.7	96.89%
IBL1(bHLH)/Seedling-IBL1-ChIP-Seq(GSE51120)/Homer	CACGTGCC	1e0	-2.119e+00	0.2926	152.0	5.07%	119.7	4.40%
SeqBias: GA-repeat	GAGAGAGAGA	1e0	-2.065e+00	0.3066	969.0	32.30%	840.9	30.89%
PIF5ox(bHLH)/Arabidopsis-PIF5ox-ChIP-Seq(GSE35062)/Homer	BCACGTGVDN	1e0	-2.055e+00	0.3078	98.0	3.27%	74.4	2.73%
E-box/Drosophila-Promoters/Homer	AACAGCTGTTHN	1e0	-2.020e+00	0.3169	34.0	1.13%	22.7	0.83%
STAT5(Stat)/mCD4+-Stat5-ChIP-Seq(GSE12346)/Homer	RTTTCTNAGAAA	1e0	-2.001e+00	0.3209	44.0	1.47%	30.5	1.12%
Usf2(bHLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer	GTCACGTGGT	1e0	-1.990e+00	0.3226	30.0	1.00%	19.3	0.71%
USF1(bHLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer	SGTCACGTGR	1e0	-1.968e+00	0.3276	35.0	1.17%	23.3	0.86%
ZNF41(Zf)/HEK293-ZNF41.GFP-ChIP-Seq(GSE58341)/Homer	CCTCATGGTGYCYTWYTCCCTTGTG	1e0	-1.938e+00	0.3358	3.0	0.10%	0.0	0.00%
Mouse_Recombination_Hotspot(Zf)/Testis-DMC1-ChIP-Seq(GSE24438)/Homer	ACTYKNATTCGTGNTACTTC	1e0	-1.933e+00	0.3358	11.0	0.37%	5.1	0.19%
TCFL2(HMG)/K562-TCF7L2-ChIP-Seq(GSE29196)/Homer	ACWTCAAAGG	1e0	-1.914e+00	0.3397	8.0	0.27%	4.0	0.15%
HOXA9(Homeobox)/HSC-Hoxa9-ChIP-Seq(GSE33509)/Homer	GGCCATAAATCA	1e0	-1.906e+00	0.3404	105.0	3.50%	81.1	2.98%
c-Myc(bHLH)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	VVCCACGTGG	1e0	-1.874e+00	0.3496	37.0	1.23%	25.1	0.92%
DMRT6(DM)/Testis-DMRT6-ChIP-Seq(GSE60440)/Homer	YDGHTACAWTGTADC	1e0	-1.865e+00	0.3505	19.0	0.63%	11.2	0.41%
NPAS2(bHLH)/Liver-NPAS2-ChIP-Seq(GSE39860)/Homer	KCCACGTGAC	1e0	-1.831e+00	0.3607	96.0	3.20%	74.1	2.72%
SeqBias: CG-repeat	CGCGCGCGCG	1e0	-1.801e+00	0.3694	159.0	5.30%	128.9	4.73%
Eomes(T-box)/H9-Eomes-ChIP-Seq(GSE26097)/Homer	ATTAACACCT	1e0	-1.755e+00	0.3846	318.0	10.60%	267.9	9.84%
GATA3(Zf),DR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATGKDGAGATAAG	1e0	-1.743e+00	0.3849	9.0	0.30%	4.4	0.16%
Zfp809(Zf)/ES-Zfp809-ChIP-Seq(GSE70799)/Homer	GGGGCTYGKCTGGGA	1e0	-1.743e+00	0.3849	9.0	0.30%	4.3	0.16%
Bcl6(Zf)/Liver-Bcl6-ChIP-Seq(GSE31578)/Homer	NNNCTTTCCAGGAAA	1e0	-1.708e+00	0.3962	130.0	4.33%	104.3	3.83%
E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer	GGCGGGAAAH	1e0	-1.626e+00	0.4275	38.0	1.27%	27.2	1.00%
HOXB13(Homeobox)/ProstateTumor-HOXB13-ChIP-Seq(GSE56288)/Homer	TTTTATKRGG	1e0	-1.614e+00	0.4303	197.0	6.57%	163.0	5.99%
ZNF165(Zf)/WHIM12-ZNF165-ChIP-Seq(GSE65937)/Homer	AAGGKGRCGCAGGCA	1e0	-1.612e+00	0.4303	10.0	0.33%	5.8	0.21%
Unknown6/Drosophila-Promoters/Homer	AATTTTAAAA	1e0	-1.606e+00	0.4303	167.0	5.57%	137.8	5.06%
PIF4(bHLH)/Seedling-PIF4-ChIP-Seq(GSE35315)/Homer	NNBCACGTGN	1e0	-1.601e+00	0.4303	116.0	3.87%	93.1	3.42%
Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo_et_al.)/Homer	TBGCACGCAA	1e0	-1.576e+00	0.4375	83.0	2.77%	65.8	2.42%
TATA-box/SacCer-Promoters/Homer	BBHWTATATA	1e0	-1.574e+00	0.4375	125.0	4.17%	101.2	3.72%
Nr5a2(NR)/mES-Nr5a2-ChIP-Seq(GSE19019)/Homer	BTCAAGGTCA	1e0	-1.560e+00	0.4396	29.0	0.97%	20.7	0.76%
DMRT1(DM)/Testis-DMRT1-ChIP-Seq(GSE64892)/Homer	TWGHWACAWTGTWDC	1e0	-1.554e+00	0.4398	24.0	0.80%	16.1	0.59%
MafF(bZIP)/HepG2-MafF-ChIP-Seq(GSE31477)/Homer	HWWGTCAGCAWWTTT	1e0	-1.469e+00	0.4762	43.0	1.43%	32.2	1.18%
PGR(NR)/EndoStromal-PGR-ChIP-Seq(GSE69539)/Homer	AAGAACATWHTGTTC	1e0	-1.464e+00	0.4762	26.0	0.87%	18.7	0.69%
Tcf4(HMG)/Hct116-Tcf4-ChIP-Seq(SRA012054)/Homer	ASATCAAAGGVA	1e0	-1.344e+00	0.5340	48.0	1.60%	37.4	1.38%
NFAT(RHD)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	ATTTTCCATT	1e0	-1.340e+00	0.5340	113.0	3.77%	93.7	3.44%
GATA3(Zf),DR8/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATSTNDNNDSAGATAASN	1e0	-1.313e+00	0.5449	9.0	0.30%	5.3	0.20%
Sox9(HMG)/Limb-SOX9-ChIP-Seq(GSE73225)/Homer	AGGVNCCTTTGT	1e0	-1.305e+00	0.5465	78.0	2.60%	63.5	2.33%
E2F1(E2F)/Hela-E2F1-ChIP-Seq(GSE22478)/Homer	CWGGCGGGAA	1e0	-1.304e+00	0.5465	19.0	0.63%	13.5	0.50%
Sox10(HMG)/SciaticNerve-Sox3-ChIP-Seq(GSE35132)/Homer	CCWTTGTYYB	1e0	-1.294e+00	0.5468	182.0	6.07%	154.2	5.66%
ZSCAN22(Zf)/HEK293-ZSCAN22.GFP-ChIP-Seq(GSE58341)/Homer	SMCAGTCWGAKGGAGGAGGC	1e0	-1.292e+00	0.5468	2.0	0.07%	0.7	0.02%
Olig2(bHLH)/Neuron-Olig2-ChIP-Seq(GSE30882)/Homer	RCCATMTGTT	1e0	-1.225e+00	0.5802	199.0	6.63%	170.9	6.28%
ZNF322(Zf)/HEK293-ZNF322.GFP-ChIP-Seq(GSE58341)/Homer	GAGCCTGGTACTGWGCCTGR	1e0	-1.194e+00	0.5954	16.0	0.53%	11.8	0.43%
E2F(E2F)/Hela-CellCycle-Expression/Homer	TTSGCGCGAAAA	1e0	-1.191e+00	0.5954	6.0	0.20%	3.1	0.11%
ZNF189(Zf)/HEK293-ZNF189.GFP-ChIP-Seq(GSE58341)/Homer	TGGAACAGMA	1e0	-1.173e+00	0.6018	72.0	2.40%	59.7	2.19%
Sox6(HMG)/Myotubes-Sox6-ChIP-Seq(GSE32627)/Homer	CCATTGTTNY	1e0	-1.127e+00	0.6271	168.0	5.60%	144.1	5.29%
RBPJ:Ebox(?,bHLH)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	GGGRAARRGRMCAGMTG	1e0	-1.127e+00	0.6271	24.0	0.80%	18.0	0.66%
AARE(HLH)/mES-cMyc-ChIP-Seq/Homer	GATTGCATCA	1e0	-1.120e+00	0.6271	12.0	0.40%	8.8	0.32%
CEBP:CEBP(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	NTNATGCAAYMNNHTGMAAY	1e0	-1.052e+00	0.6659	20.0	0.67%	15.3	0.56%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	RGGTCADNNAGAGGTCAV	1e0	-1.051e+00	0.6659	3.0	0.10%	1.1	0.04%
RLR1?/SacCer-Promoters/Homer	WTTTTCYYTTTT	1e0	-1.022e+00	0.6793	146.0	4.87%	126.7	4.65%
E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer	GGCGGGAARN	1e0	-1.016e+00	0.6803	36.0	1.20%	29.9	1.10%
Stat3+il21(Stat)/CD4-Stat3-ChIP-Seq(GSE19198)/Homer	SVYTTCCNGGAARB	1e0	-1.012e+00	0.6803	52.0	1.73%	43.7	1.60%
ZBTB18(Zf)/HEK293-ZBTB18.GFP-ChIP-Seq(GSE58341)/Homer	AACATCTGGA	1e0	-9.965e-01	0.6869	45.0	1.50%	37.7	1.38%
ZNF317(Zf)/HEK293-ZNF317.GFP-ChIP-Seq(GSE58341)/Homer	GTCWGCTGTYYCTCT	1e0	-9.857e-01	0.6877	9.0	0.30%	6.5	0.24%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	AGGTCAAGGTCA	1e0	-9.857e-01	0.6877	9.0	0.30%	6.9	0.25%
FOXA1(Forkhead)/MCF7-FOXA1-ChIP-Seq(GSE26831)/Homer	WAAGTAAACA	1e0	-9.841e-01	0.6877	142.0	4.73%	123.7	4.54%
RBFox2(?)/Heart-RBFox2-CLIP-Seq(GSE57926)/Homer	TGCATGCA	1e0	-9.646e-01	0.6958	201.0	6.70%	176.1	6.47%
Smad3(MAD)/NPC-Smad3-ChIP-Seq(GSE36673)/Homer	TWGTCTGV	1e0	-9.560e-01	0.6985	309.0	10.30%	273.6	10.05%
ABF1/SacCer-Promoters/Homer	CGTRNAAARTGA	1e0	-9.427e-01	0.7045	10.0	0.33%	7.8	0.29%
Srebp1a(bHLH)/HepG2-Srebp1a-ChIP-Seq(GSE31477)/Homer	RTCACSCCAY	1e0	-9.415e-01	0.7045	17.0	0.57%	13.4	0.49%
ZFX(Zf)/mES-Zfx-ChIP-Seq(GSE11431)/Homer	AGGCCTRG	1e0	-9.230e-01	0.7119	104.0	3.47%	90.7	3.33%
SUT1?/SacCer-Promoters/Homer	CCCCGCGC	1e0	-9.157e-01	0.7138	643.0	21.43%	575.2	21.13%
FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer	NYYTGTTTACHN	1e0	-8.908e-01	0.7284	53.0	1.77%	45.3	1.66%
ZNF711(Zf)/SHSY5Y-ZNF711-ChIP-Seq(GSE20673)/Homer	AGGCCTAG	1e0	-8.790e-01	0.7337	148.0	4.93%	130.5	4.79%
ZNF669(Zf)/HEK293-ZNF669.GFP-ChIP-Seq(GSE58341)/Homer	GARTGGTCATCGCCC	1e0	-8.734e-01	0.7344	5.0	0.17%	3.9	0.14%
HRE(HSF)/Striatum-HSF1-ChIP-Seq(GSE38000)/Homer	TTCTAGAABNTTCTA	1e0	-8.716e-01	0.7344	20.0	0.67%	16.7	0.61%
Tbx20(T-box)/Heart-Tbx20-ChIP-Seq(GSE29636)/Homer	GGTGYTGACAGS	1e0	-8.716e-01	0.7344	20.0	0.67%	16.7	0.61%
ERE(NR),IR3/MCF7-ERa-ChIP-Seq(Unpublished)/Homer	VAGGTCACNSTGACC	1e0	-8.519e-01	0.7403	21.0	0.70%	17.4	0.64%
HIF-1b(HLH)/T47D-HIF1b-ChIP-Seq(GSE59937)/Homer	RTACGTGC	1e0	-8.429e-01	0.7437	105.0	3.50%	92.8	3.41%
GATA:SCL(Zf,bHLH)/Ter119-SCL-ChIP-Seq(GSE18720)/Homer	CRGCTGBNGNSNNSAGATAA	1e0	-8.257e-01	0.7532	6.0	0.20%	4.7	0.17%
CLOCK(bHLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer	GHCACGTG	1e0	-8.194e-01	0.7546	41.0	1.37%	35.2	1.29%
AR-halfsite(NR)/LNCaP-AR-ChIP-Seq(GSE27824)/Homer	CCAGGAACAG	1e0	-8.074e-01	0.7604	386.0	12.87%	346.9	12.74%
Unknown3/Drosophila-Promoters/Homer	ACVAKCTGGCAGCGC	1e0	-7.891e-01	0.7676	7.0	0.23%	5.3	0.19%
E-box(bHLH)/Promoter/Homer	SSGGTCACGTGA	1e0	-7.891e-01	0.7676	7.0	0.23%	5.3	0.20%
NRF1(NRF)/MCF7-NRF1-ChIP-Seq(Unpublished)/Homer	CTGCGCATGCGC	1e0	-7.596e-01	0.7872	8.0	0.27%	6.3	0.23%
c-Myc(bHLH)/LNCAP-cMyc-ChIP-Seq(Unpublished)/Homer	VCCACGTG	1e0	-7.580e-01	0.7872	27.0	0.90%	23.6	0.87%
Pax8(Paired,Homeobox)/Thyroid-Pax8-ChIP-Seq(GSE26938)/Homer	GTCATGCHTGRCTGS	1e0	-7.580e-01	0.7872	27.0	0.90%	23.7	0.87%
Stat3(Stat)/mES-Stat3-ChIP-Seq(GSE11431)/Homer	CTTCCGGGAA	1e0	-7.561e-01	0.7872	37.0	1.23%	32.0	1.18%
FOXA1(Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WAAGTAAACA	1e0	-7.495e-01	0.7872	161.0	5.37%	144.2	5.30%
Hoxb4(Homeobox)/ES-Hoxb4-ChIP-Seq(GSE34014)/Homer	TGATTRATGGCY	1e0	-7.475e-01	0.7872	18.0	0.60%	15.1	0.55%
caudal(Homeobox)/Drosophila-Embryos-ChIP-Chip(modEncode)/Homer	GGYCATAAAW	1e0	-7.429e-01	0.7872	131.0	4.37%	117.1	4.30%
E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer	VDTTTCCCGCCA	1e0	-7.350e-01	0.7872	9.0	0.30%	7.3	0.27%
p53(p53)/Saos-p53-ChIP-Seq/Homer	RRCATGYCYRGRCATGYYYN	1e0	-7.350e-01	0.7872	9.0	0.30%	7.6	0.28%
p53(p53)/Saos-p53-ChIP-Seq(GSE15780)/Homer	RRCATGYCYRGRCATGYYYN	1e0	-7.350e-01	0.7872	9.0	0.30%	7.6	0.28%
Unknown4/Drosophila-Promoters/Homer	AAAAATACCRMA	1e0	-7.332e-01	0.7872	29.0	0.97%	25.9	0.95%
STAT6(Stat)/Macrophage-Stat6-ChIP-Seq(GSE38377)/Homer	TTCCKNAGAA	1e0	-7.198e-01	0.7872	51.0	1.70%	45.7	1.68%
Tcfcp2l1(CP2)/mES-Tcfcp2l1-ChIP-Seq(GSE11431)/Homer	NRAACCRGTTYRAACCRGYT	1e0	-7.138e-01	0.7872	10.0	0.33%	8.6	0.32%
Nr5a2(NR)/Pancreas-LRH1-ChIP-Seq(GSE34295)/Homer	BTCAAGGTCA	1e0	-6.807e-01	0.8063	34.0	1.13%	30.0	1.10%
ZNF692(Zf)/HEK293-ZNF692.GFP-ChIP-Seq(GSE58341)/Homer	GTGGGCCCCA	1e0	-6.788e-01	0.8063	12.0	0.40%	10.7	0.39%
Sox3(HMG)/NPC-Sox3-ChIP-Seq(GSE33059)/Homer	CCWTTGTY	1e0	-6.674e-01	0.8104	190.0	6.33%	173.0	6.35%
Hnf1(Homeobox)/Liver-Foxa2-Chip-Seq(GSE25694)/Homer	GGTTAAWCATTAA	1e0	-6.504e-01	0.8210	14.0	0.47%	12.5	0.46%
GFX(?)/Promoter/Homer	ATTCTCGCGAGA	1e0	-6.457e-01	0.8210	1.0	0.03%	0.0	0.00%
DREF/Drosophila-Promoters/Homer	AVYTATCGATAD	1e0	-6.457e-01	0.8210	1.0	0.03%	0.5	0.02%
ZNF16(Zf)/HEK293-ZNF16.GFP-ChIP-Seq(GSE58341)/Homer	MACCTTCYATGGCTCCCTAKTGCCY	1e0	-6.457e-01	0.8210	1.0	0.03%	0.0	0.00%
EFL-1(E2F)/cElegans-L1-EFL1-ChIP-Seq(modEncode)/Homer	TGCAARYGCGCTCYA	1e0	-6.457e-01	0.8210	1.0	0.03%	0.5	0.02%
LIN-15B(Zf)/cElegans-L3-LIN15B-ChIP-Seq(modEncode)/Homer	CARTGGAGCGCRYTTGCATT	1e0	-6.457e-01	0.8210	1.0	0.03%	0.0	0.00%
REST-NRSF(Zf)/Jurkat-NRSF-ChIP-Seq/Homer	GGMGCTGTCCATGGTGCTGA	1e0	-6.457e-01	0.8210	1.0	0.03%	0.0	0.00%
GATA(Zf),IR3/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NNNNNBAGATAWYATCTVHN	1e0	-6.379e-01	0.8210	15.0	0.50%	14.0	0.51%
REB1/SacCer-Promoters/Homer	KCCGGGTAAYRR	1e0	-6.264e-01	0.8210	16.0	0.53%	14.9	0.55%
ZBTB33(Zf)/GM12878-ZBTB33-ChIP-Seq(GSE32465)/Homer	GGVTCTCGCGAGAAC	1e0	-6.228e-01	0.8210	2.0	0.07%	1.8	0.07%
GFY-Staf(?,Zf)/Promoter/Homer	RACTACAATTCCCAGAAKGC	1e0	-6.061e-01	0.8246	3.0	0.10%	2.0	0.08%
PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer	GSCTGTCACTCA	1e0	-5.923e-01	0.8328	4.0	0.13%	3.9	0.14%
Smad2(MAD)/ES-SMAD2-ChIP-Seq(GSE29422)/Homer	CTGTCTGG	1e0	-5.740e-01	0.8449	122.0	4.07%	112.6	4.14%
KLF5(Zf)/LoVo-KLF5-ChIP-Seq(GSE49402)/Homer	DGGGYGKGGC	1e0	-5.739e-01	0.8449	98.0	3.27%	90.5	3.33%
Nkx3.1(Homeobox)/LNCaP-Nkx3.1-ChIP-Seq(GSE28264)/Homer	AAGCACTTAA	1e0	-5.723e-01	0.8449	297.0	9.90%	272.3	10.00%
Znf263(Zf)/K562-Znf263-ChIP-Seq(GSE31477)/Homer	CVGTSCTCCC	1e0	-5.650e-01	0.8449	100.0	3.33%	92.7	3.40%
PAX5(Paired,Homeobox),condensed/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GTCACGCTCSCTGM	1e0	-5.604e-01	0.8449	7.0	0.23%	6.4	0.23%
DPL-1(E2F)/cElegans-Adult-ChIP-Seq(modEncode)/Homer	TAGCGCGC	1e0	-5.481e-01	0.8506	53.0	1.77%	50.0	1.84%
VDR(NR),DR3/GM10855-VDR+vitD-ChIP-Seq(GSE22484)/Homer	ARAGGTCANWGAGTTCANNN	1e0	-5.288e-01	0.8639	11.0	0.37%	11.0	0.40%
Unknown1(NR/Ini-like)/Drosophila-Promoters/Homer	MYGGTCACACTG	1e0	-4.979e-01	0.8876	16.0	0.53%	15.8	0.58%
Tlx?(NR)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	CTGGCAGSCTGCCA	1e0	-4.873e-01	0.8937	18.0	0.60%	17.5	0.64%
Cbf1(bHLH)/Yeast-Cbf1-ChIP-Seq(GSE29506)/Homer	TCACGTGAYH	1e0	-4.822e-01	0.8937	19.0	0.63%	18.4	0.68%
ZNF143|STAF(Zf)/CUTLL-ZNF143-ChIP-Seq(GSE29600)/Homer	ATTTCCCAGVAKSCY	1e0	-4.822e-01	0.8937	19.0	0.63%	18.7	0.69%
OCT4-SOX2-TCF-NANOG(POU,Homeobox,HMG)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAACAATG	1e0	-4.774e-01	0.8937	20.0	0.67%	19.3	0.71%
Unknown3/Arabidopsis-Promoters/Homer	AYTAAACCGG	1e0	-4.636e-01	0.9016	23.0	0.77%	22.5	0.83%
E2A(bHLH),near_PU.1/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	NVCACCTGBN	1e0	-4.531e-01	0.9078	145.0	4.83%	136.8	5.03%
STAT4(Stat)/CD4-Stat4-ChIP-Seq(GSE22104)/Homer	NYTTCCWGGAAR	1e0	-4.498e-01	0.9078	91.0	3.03%	86.2	3.17%
STAT1(Stat)/HelaS3-STAT1-ChIP-Seq(GSE12782)/Homer	NATTTCCNGGAAAT	1e0	-4.356e-01	0.9137	30.0	1.00%	29.5	1.08%
PAX3:FKHR-fusion(Paired,Homeobox)/Rh4-PAX3:FKHR-ChIP-Seq(GSE19063)/Homer	ACCRTGACTAATTNN	1e0	-4.356e-01	0.9137	30.0	1.00%	29.4	1.08%
Nkx6.1(Homeobox)/Islet-Nkx6.1-ChIP-Seq(GSE40975)/Homer	GKTAATGR	1e0	-4.336e-01	0.9137	404.0	13.47%	375.9	13.81%
Sox2(HMG)/mES-Sox2-ChIP-Seq(GSE11431)/Homer	BCCATTGTTC	1e0	-4.171e-01	0.9239	71.0	2.37%	68.2	2.50%
Unknown4/Arabidopsis-Promoters/Homer	CKTCKTCTTY	1e0	-4.025e-01	0.9342	76.0	2.53%	73.3	2.69%
ZNF416(Zf)/HEK293-ZNF416.GFP-ChIP-Seq(GSE58341)/Homer	WDNCTGGGCA	1e0	-3.944e-01	0.9384	95.0	3.17%	91.2	3.35%
HRE(HSF)/HepG2-HSF1-ChIP-Seq(GSE31477)/Homer	BSTTCTRGAABVTTCYAGAA	1e0	-3.943e-01	0.9384	7.0	0.23%	7.2	0.26%
Tcf3(HMG)/mES-Tcf3-ChIP-Seq(GSE11724)/Homer	ASWTCAAAGG	1e0	-3.810e-01	0.9442	22.0	0.73%	22.4	0.82%
Klf9(Zf)/GBM-Klf9-ChIP-Seq(GSE62211)/Homer	GCCACRCCCACY	1e0	-3.789e-01	0.9442	23.0	0.77%	23.5	0.86%
Cdx2(Homeobox)/mES-Cdx2-ChIP-Seq(GSE14586)/Homer	GYMATAAAAH	1e0	-3.606e-01	0.9569	109.0	3.63%	105.5	3.88%
GEI-11(Myb?)/cElegans-L4-GEI11-ChIP-Seq(modEncode)/Homer	CCGACAYYTYACGGG	1e0	-3.556e-01	0.9582	3.0	0.10%	3.6	0.13%
SeqBias: polyC-repeat	CCCCCCCCCC	1e0	-3.284e-01	0.9812	2355.0	78.50%	2153.7	79.11%
Pax7(Paired,Homeobox),longest/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	NTAATTDGCYAATTANNWWD	1e0	-3.242e-01	0.9819	2.0	0.07%	2.2	0.08%
bHLHE40(bHLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer	KCACGTGMCN	1e0	-3.082e-01	0.9942	19.0	0.63%	20.5	0.75%
GRE(NR),IR3/RAW264.7-GRE-ChIP-Seq(Unpublished)/Homer	VAGRACAKWCTGTYC	1e0	-3.068e-01	0.9942	16.0	0.53%	17.2	0.63%
PCF/Arabidopsis-Promoters/Homer	NNWWWTGGGCYTDDN	1e0	-3.050e-01	0.9942	27.0	0.90%	28.9	1.06%
GLI3(Zf)/Limb-GLI3-ChIP-Chip(GSE11077)/Homer	CGTGGGTGGTCC	1e0	-2.932e-01	0.9988	10.0	0.33%	11.2	0.41%
Lhx2(Homeobox)/HFSC-Lhx2-ChIP-Seq(GSE48068)/Homer	TAATTAGN	1e0	-2.806e-01	1.0000	153.0	5.10%	149.3	5.48%
PR(NR)/T47D-PR-ChIP-Seq(GSE31130)/Homer	VAGRACAKNCTGTBC	1e0	-2.747e-01	1.0000	190.0	6.33%	184.7	6.78%
HIF2a(bHLH)/785_O-HIF2a-ChIP-Seq(GSE34871)/Homer	GCACGTACCC	1e0	-2.495e-01	1.0000	27.0	0.90%	30.0	1.10%
ZBTB12(Zf)/HEK293-ZBTB12.GFP-ChIP-Seq(GSE58341)/Homer	NGNTCTAGAACCNGV	1e0	-2.448e-01	1.0000	20.0	0.67%	22.5	0.83%
Foxa2(Forkhead)/Liver-Foxa2-ChIP-Seq(GSE25694)/Homer	CYTGTTTACWYW	1e0	-2.353e-01	1.0000	87.0	2.90%	88.0	3.23%
Tbox:Smad(T-box,MAD)/ESCd5-Smad2_3-ChIP-Seq(GSE29422)/Homer	AGGTGHCAGACA	1e0	-2.349e-01	1.0000	15.0	0.50%	17.8	0.66%
FOXA1:AR(Forkhead,NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	AGTAAACAAAAAAGAACAND	1e0	-2.336e-01	1.0000	4.0	0.13%	5.0	0.19%
ZNF136(Zf)/HEK293-ZNF136.GFP-ChIP-Seq(GSE58341)/Homer	YTKGATAHAGTATTCTWGGTNGGCA	1e0	-2.134e-01	1.0000	10.0	0.33%	12.5	0.46%
Srebp2(bHLH)/HepG2-Srebp2-ChIP-Seq(GSE31477)/Homer	CGGTCACSCCAC	1e0	-1.984e-01	1.0000	8.0	0.27%	10.1	0.37%
Meis1(Homeobox)/MastCells-Meis1-ChIP-Seq(GSE48085)/Homer	VGCTGWCAVB	1e0	-1.866e-01	1.0000	160.0	5.33%	160.0	5.88%
p63(p53)/Keratinocyte-p63-ChIP-Seq(GSE17611)/Homer	NNDRCATGYCYNRRCATGYH	1e0	-1.823e-01	1.0000	16.0	0.53%	19.1	0.70%
Sox4(HMG)/proB-Sox4-ChIP-Seq(GSE50066)/Homer	YCTTTGTTCC	1e0	-1.696e-01	1.0000	68.0	2.27%	72.2	2.65%
SeqBias: CG bias	SSSSSSSSSS	1e0	-1.694e-01	1.0000	975.0	32.50%	918.7	33.74%
FXR(NR),IR1/Liver-FXR-ChIP-Seq(Chong_et_al.)/Homer	AGGTCANTGACCTB	1e0	-1.505e-01	1.0000	20.0	0.67%	24.9	0.91%
Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq(GSE22178)/Homer	MAATCACTGC	1e0	-1.473e-01	1.0000	63.0	2.10%	68.5	2.52%
STAT6(Stat)/CD4-Stat6-ChIP-Seq(GSE22104)/Homer	ABTTCYYRRGAA	1e0	-1.470e-01	1.0000	49.0	1.63%	54.8	2.01%
Pit1(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGMATATDC	1e0	-1.431e-01	1.0000	152.0	5.07%	155.0	5.69%
TR4(NR),DR1/Hela-TR4-ChIP-Seq(GSE24685)/Homer	GAGGTCAAAGGTCA	1e0	-1.377e-01	1.0000	8.0	0.27%	11.4	0.42%
Reverb(NR),DR2/RAW-Reverba.biotin-ChIP-Seq(GSE45914)/Homer	GTRGGTCASTGGGTCA	1e0	-1.281e-01	1.0000	7.0	0.23%	10.2	0.37%
Pbx3(Homeobox)/GM12878-PBX3-ChIP-Seq(GSE32465)/Homer	SCTGTCAMTCAN	1e0	-1.259e-01	1.0000	13.0	0.43%	17.3	0.63%
Gata2(Zf)/K562-GATA2-ChIP-Seq(GSE18829)/Homer	BBCTTATCTS	1e0	-1.253e-01	1.0000	55.0	1.83%	61.6	2.26%
KLF10(Zf)/HEK293-KLF10.GFP-ChIP-Seq(GSE58341)/Homer	GGGGGTGTGTCC	1e0	-1.250e-01	1.0000	54.0	1.80%	60.1	2.21%
Pknox1(Homeobox)/ES-Prep1-ChIP-Seq(GSE63282)/Homer	SCTGTCAVTCAV	1e0	-1.208e-01	1.0000	12.0	0.40%	16.5	0.61%
Erra(NR)/HepG2-Erra-ChIP-Seq(GSE31477)/Homer	CAAAGGTCAG	1e0	-1.190e-01	1.0000	173.0	5.77%	177.8	6.53%
LXRE(NR),DR4/RAW-LXRb.biotin-ChIP-Seq(GSE21512)/Homer	RGGTTACTANAGGTCA	1e0	-1.169e-01	1.0000	6.0	0.20%	9.1	0.33%
Pit1+1bp(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGCATAATTCA	1e0	-1.146e-01	1.0000	35.0	1.17%	42.0	1.54%
THRa(NR)/C17.2-THRa-ChIP-Seq(GSE38347)/Homer	GGTCANYTGAGGWCA	1e0	-1.135e-01	1.0000	34.0	1.13%	40.1	1.47%
GATA3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATAASR	1e0	-1.094e-01	1.0000	168.0	5.60%	173.2	6.36%
Sox15(HMG)/CPA-Sox15-ChIP-Seq(GSE62909)/Homer	RAACAATGGN	1e0	-1.066e-01	1.0000	95.0	3.17%	102.8	3.78%
Zic(Zf)/Cerebellum-ZIC1.2-ChIP-Seq(GSE60731)/Homer	CCTGCTGAGH	1e0	-1.043e-01	1.0000	51.0	1.70%	58.0	2.13%
Oct4:Sox17(POU,Homeobox,HMG)/F9-Sox17-ChIP-Seq(GSE44553)/Homer	CCATTGTATGCAAAT	1e0	-9.436e-02	1.0000	8.0	0.27%	12.7	0.47%
Nanog(Homeobox)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	RGCCATTAAC	1e0	-8.862e-02	1.0000	518.0	17.27%	507.6	18.65%
Zelda(Zf)/Embryo-zld-ChIP-Seq(GSE65441)/Homer	KBCTACCTGW	1e0	-8.530e-02	1.0000	29.0	0.97%	36.9	1.35%
NFY(CCAAT)/Promoter/Homer	RGCCAATSRG	1e0	-7.766e-02	1.0000	64.0	2.13%	73.7	2.71%
Brachyury(T-box)/Mesoendoderm-Brachyury-ChIP-exo(GSE54963)/Homer	ANTTMRCASBNNNGTGYKAAN	1e0	-7.758e-02	1.0000	16.0	0.53%	22.1	0.81%
HNF4a(NR),DR1/HepG2-HNF4a-ChIP-Seq(GSE25021)/Homer	CARRGKBCAAAGTYCA	1e0	-7.672e-02	1.0000	24.0	0.80%	31.5	1.16%
Otx2(Homeobox)/EpiLC-Otx2-ChIP-Seq(GSE56098)/Homer	NYTAATCCYB	1e0	-7.604e-02	1.0000	59.0	1.97%	68.9	2.53%
Pitx1(Homeobox)/Chicken-Pitx1-ChIP-Seq(GSE38910)/Homer	TAATCCCN	1e0	-7.406e-02	1.0000	543.0	18.10%	533.7	19.60%
ZNF415(Zf)/HEK293-ZNF415.GFP-ChIP-Seq(GSE58341)/Homer	GRTGMTRGAGCC	1e0	-7.036e-02	1.0000	21.0	0.70%	28.0	1.03%
GAGA-repeat/Arabidopsis-Promoters/Homer	CTCTCTCTCY	1e0	-7.016e-02	1.0000	107.0	3.57%	118.0	4.33%
Unknown5/Drosophila-Promoters/Homer	GCTGATAASV	1e0	-6.652e-02	1.0000	42.0	1.40%	51.2	1.88%
Smad4(MAD)/ESC-SMAD4-ChIP-Seq(GSE29422)/Homer	VBSYGTCTGG	1e0	-6.105e-02	1.0000	103.0	3.43%	114.4	4.20%
GRHL2(CP2)/HBE-GRHL2-ChIP-Seq(GSE46194)/Homer	AAACYKGTTWDACMRGTTTB	1e0	-5.666e-02	1.0000	32.0	1.07%	41.3	1.52%
Gata1(Zf)/K562-GATA1-ChIP-Seq(GSE18829)/Homer	SAGATAAGRV	1e0	-5.620e-02	1.0000	45.0	1.50%	55.6	2.04%
GATA(Zf),IR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NAGATWNBNATCTNN	1e0	-5.346e-02	1.0000	4.0	0.13%	8.7	0.32%
NF1:FOXA1(CTF,Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WNTGTTTRYTTTGGCA	1e0	-5.251e-02	1.0000	1.0	0.03%	3.5	0.13%
HNF6(Homeobox)/Liver-Hnf6-ChIP-Seq(ERP000394)/Homer	NTATYGATCH	1e0	-5.238e-02	1.0000	40.0	1.33%	50.3	1.85%
YY1(Zf)/Promoter/Homer	CAAGATGGCGGC	1e0	-4.913e-02	1.0000	2.0	0.07%	5.0	0.18%
FOXM1(Forkhead)/MCF7-FOXM1-ChIP-Seq(GSE72977)/Homer	TRTTTACTTW	1e0	-4.634e-02	1.0000	117.0	3.90%	130.8	4.80%
Pax7(Paired,Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCAATTA	1e0	-3.692e-02	1.0000	7.0	0.23%	13.5	0.50%
PABPC1(?)/MEL-PABC1-CLIP-Seq(GSE69755)/Homer	HAATAAAGNN	1e0	-3.344e-02	1.0000	307.0	10.23%	319.1	11.72%
Unknown(Homeobox)/Limb-p300-ChIP-Seq/Homer	SSCMATWAAA	1e0	-3.272e-02	1.0000	94.0	3.13%	109.8	4.03%
ELT-3(Gata)/cElegans-L1-ELT3-ChIP-Seq(modEncode)/Homer	AWTGATAAGA	1e0	-2.912e-02	1.0000	44.0	1.47%	57.6	2.11%
GFY(?)/Promoter/Homer	ACTACAATTCCC	1e0	-2.600e-02	1.0000	2.0	0.07%	6.4	0.24%
Brn2(POU,Homeobox)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATATTC	1e0	-2.113e-02	1.0000	12.0	0.40%	21.7	0.80%
Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer	GCCACACCCA	1e0	-2.079e-02	1.0000	20.0	0.67%	31.8	1.17%
CES-1(Homeobox)/cElegans-L1-CES1-ChIP-Seq(modEncode)/Homer	AAATTSAATTTN	1e0	-1.960e-02	1.0000	72.0	2.40%	89.8	3.30%
ZNF264(Zf)/HEK293-ZNF264.GFP-ChIP-Seq(GSE58341)/Homer	RGGGCACTAACY	1e0	-1.746e-02	1.0000	42.0	1.40%	57.6	2.11%
Fox:Ebox(Forkhead,bHLH)/Panc1-Foxa2-ChIP-Seq(GSE47459)/Homer	NNNVCTGWGYAAACASN	1e0	-1.502e-02	1.0000	82.0	2.73%	101.0	3.71%
CRX(Homeobox)/Retina-Crx-ChIP-Seq(GSE20012)/Homer	GCTAATCC	1e0	-1.474e-02	1.0000	256.0	8.53%	277.2	10.18%
NF1-halfsite(CTF)/LNCaP-NF1-ChIP-Seq(Unpublished)/Homer	YTGCCAAG	1e0	-1.448e-02	1.0000	127.0	4.23%	148.7	5.46%
Gata4(Zf)/Heart-Gata4-ChIP-Seq(GSE35151)/Homer	NBWGATAAGR	1e0	-1.417e-02	1.0000	95.0	3.17%	115.7	4.25%
NF1(CTF)/LNCAP-NF1-ChIP-Seq(Unpublished)/Homer	CYTGGCABNSTGCCAR	1e0	-1.293e-02	1.0000	18.0	0.60%	30.9	1.13%
EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer	NWGGGTGTGGCY	1e0	-1.172e-02	1.0000	8.0	0.27%	17.2	0.63%
Unknown2/Drosophila-Promoters/Homer	CATCMCTA	1e0	-1.092e-02	1.0000	87.0	2.90%	108.2	3.97%
SeqBias: G/A bias	RRRRRRRRRR	1e0	-1.060e-02	1.0000	2920.0	97.33%	2673.5	98.20%
SFP1/SacCer-Promoters/Homer	DDAAAAATTTTY	1e0	-9.735e-03	1.0000	12.0	0.40%	23.5	0.86%
Trl(Zf)/S2-GAGAfactor-ChIP-Seq(GSE40646)/Homer	RGAGAGAG	1e0	-9.250e-03	1.0000	242.0	8.07%	267.6	9.83%
GSC(Homeobox)/FrogEmbryos-GSC-ChIP-Seq(DRA000576)/Homer	RGGATTAR	1e0	-8.202e-03	1.0000	114.0	3.80%	138.2	5.08%
Tbx5(T-box)/HL1-Tbx5.biotin-ChIP-Seq(GSE21529)/Homer	AGGTGTCA	1e0	-7.484e-03	1.0000	418.0	13.93%	441.3	16.21%
Foxh1(Forkhead)/hESC-FOXH1-ChIP-Seq(GSE29422)/Homer	NNTGTGGATTSS	1e0	-5.324e-03	1.0000	44.0	1.47%	64.7	2.38%
Lhx1(Homeobox)/EmbryoCarcinoma-Lhx1-ChIP-Seq(GSE70957)/Homer	NNYTAATTAR	1e0	-4.335e-03	1.0000	144.0	4.80%	173.8	6.38%
ZNF519(Zf)/HEK293-ZNF519.GFP-ChIP-Seq(GSE58341)/Homer	GAGSCCGAGC	1e0	-3.599e-03	1.0000	7.0	0.23%	18.2	0.67%
Lhx3(Homeobox)/Neuron-Lhx3-ChIP-Seq(GSE31456)/Homer	ADBTAATTAR	1e0	-3.067e-03	1.0000	214.0	7.13%	247.6	9.09%
Pax7(Paired,Homeobox),long/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCHGATTAC	1e0	-2.612e-03	1.0000	1.0	0.03%	7.2	0.27%
Rbpj1(?)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	HTTTCCCASG	1e0	-2.106e-03	1.0000	123.0	4.10%	155.4	5.71%
Phox2a(Homeobox)/Neuron-Phox2a-ChIP-Seq(GSE31456)/Homer	YTAATYNRATTA	1e0	-1.515e-03	1.0000	32.0	1.07%	54.9	2.02%
Isl1(Homeobox)/Neuron-Isl1-ChIP-Seq(GSE31456)/Homer	CTAATKGV	1e0	-7.170e-04	1.0000	204.0	6.80%	246.9	9.07%
Nkx2.5(Homeobox)/HL1-Nkx2.5.biotin-ChIP-Seq(GSE21529)/Homer	RRSCACTYAA	1e0	-5.510e-04	1.0000	216.0	7.20%	260.1	9.55%
PQM-1(?)/cElegans-L3-ChIP-Seq(modEncode)/Homer	ACTGATAAGA	1e0	-1.310e-04	1.0000	23.0	0.77%	49.3	1.81%
Nkx2.2(Homeobox)/NPC-Nkx2.2-ChIP-Seq(GSE61673)/Homer	BTBRAGTGSN	1e0	-8.400e-05	1.0000	173.0	5.77%	225.2	8.27%
HOXD13(Homeobox)/Chicken-Hoxd13-ChIP-Seq(GSE38910)/Homer	NCYAATAAAA	1e0	-4.500e-05	1.0000	140.0	4.67%	192.3	7.06%
Nkx2.1(Homeobox)/LungAC-Nkx2.1-ChIP-Seq(GSE43252)/Homer	RSCACTYRAG	1e0	-1.000e-05	1.0000	294.0	9.80%	364.7	13.39%
Bapx1(Homeobox)/VertebralCol-Bapx1-ChIP-Seq(GSE36672)/Homer	TTRAGTGSYK	1e0	-7.000e-06	1.0000	226.0	7.53%	294.3	10.81%
EGL-5(Homeobox)/cElegans-L3-EGL5-ChIP-Seq(modEncode)/Homer	ATTTAATGGG	1e0	-4.000e-06	1.0000	153.0	5.10%	217.6	7.99%
TEAD4(TEA)/Tropoblast-Tead4-ChIP-Seq(GSE37350)/Homer	CCWGGAATGY	1e0	-4.000e-06	1.0000	33.0	1.10%	72.4	2.66%
TEAD2(TEA)/Py2T-Tead2-ChIP-Seq(GSE55709)/Homer	CCWGGAATGY	1e0	-1.000e-06	1.0000	15.0	0.50%	48.9	1.80%
TEAD(TEA)/Fibroblast-PU.1-ChIP-Seq(Unpublished)/Homer	YCWGGAATGY	1e0	-0.000e+00	1.0000	23.0	0.77%	64.2	2.36%
KANADI1(Myb)/Seedling-KAN1-ChIP-Seq(GSE48081)/Homer	ARGAATAWWN	1e0	-0.000e+00	1.0000	128.0	4.27%	204.5	7.51%
OCT:OCT(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	ATGAATATTCATGAG	1e0	-0.000e+00	1.0000	0.0	0.00%	2.2	0.08%
OCT:OCT(POU,Homeobox,IR1)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATWATTCATGA	1e0	-0.000e+00	1.0000	0.0	0.00%	4.7	0.17%
EBNA1(EBV-virus)/Raji-EBNA1-ChIP-Seq(GSE30709)/Homer	GGYAGCAYDTGCTDCCCNNN	1e0	0.000e+00	1.0000	0.0	0.00%	0.9	0.03%
p53(p53)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	ACATGCCCGGGCAT	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%	2722.5	100.00%
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%
ZNF528(Zf)/HEK293-ZNF528.GFP-ChIP-Seq(GSE58341)/Homer	AGAAATGACTTCCCT	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
ZFP3(Zf)/HEK293-ZFP3.GFP-ChIP-Seq(GSE58341)/Homer	GGGTTTTGAAGGATGARTAGGAGTT	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
Unknown2/Arabidopsis-Promoters/Homer	AAACGACGTCGTTTT	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%