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 2244)	% of Background Sequences with Motif
Sox3(HMG)/NPC-Sox3-ChIP-Seq(GSE33059)/Homer	CCWTTGTY	1e-88	-2.045e+02	0.0000	765.0	25.50%	126.8	5.65%
Sox10(HMG)/SciaticNerve-Sox3-ChIP-Seq(GSE35132)/Homer	CCWTTGTYYB	1e-72	-1.662e+02	0.0000	655.0	21.83%	112.3	5.00%
Sox6(HMG)/Myotubes-Sox6-ChIP-Seq(GSE32627)/Homer	CCATTGTTNY	1e-63	-1.464e+02	0.0000	621.0	20.70%	116.0	5.17%
Sox2(HMG)/mES-Sox2-ChIP-Seq(GSE11431)/Homer	BCCATTGTTC	1e-60	-1.399e+02	0.0000	448.0	14.93%	53.7	2.39%
Zic(Zf)/Cerebellum-ZIC1.2-ChIP-Seq(GSE60731)/Homer	CCTGCTGAGH	1e-57	-1.326e+02	0.0000	456.0	15.20%	61.3	2.73%
Unknown-ESC-element(?)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	CACAGCAGGGGG	1e-56	-1.306e+02	0.0000	388.0	12.93%	39.5	1.76%
Nanog(Homeobox)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	RGCCATTAAC	1e-51	-1.176e+02	0.0000	1151.0	38.37%	433.0	19.28%
OCT4-SOX2-TCF-NANOG(POU,Homeobox,HMG)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAACAATG	1e-47	-1.100e+02	0.0000	267.0	8.90%	15.6	0.70%
Sox15(HMG)/CPA-Sox15-ChIP-Seq(GSE62909)/Homer	RAACAATGGN	1e-40	-9.358e+01	0.0000	433.0	14.43%	85.0	3.79%
Sox4(HMG)/proB-Sox4-ChIP-Seq(GSE50066)/Homer	YCTTTGTTCC	1e-34	-7.871e+01	0.0000	338.0	11.27%	60.3	2.69%
Sox9(HMG)/Limb-SOX9-ChIP-Seq(GSE73225)/Homer	AGGVNCCTTTGT	1e-33	-7.697e+01	0.0000	298.0	9.93%	46.5	2.07%
Isl1(Homeobox)/Neuron-Isl1-ChIP-Seq(GSE31456)/Homer	CTAATKGV	1e-30	-6.909e+01	0.0000	572.0	19.07%	182.5	8.13%
Oct4(POU,Homeobox)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAW	1e-28	-6.510e+01	0.0000	228.0	7.60%	30.2	1.35%
Oct6(POU,Homeobox)/NPC-Oct6-ChIP-Seq(GSE35496)/Homer	WATGCAAATGAG	1e-23	-5.459e+01	0.0000	188.0	6.27%	24.1	1.07%
Nkx6.1(Homeobox)/Islet-Nkx6.1-ChIP-Seq(GSE40975)/Homer	GKTAATGR	1e-18	-4.339e+01	0.0000	649.0	21.63%	274.4	12.22%
Brn1(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	TATGCWAATBAV	1e-18	-4.147e+01	0.0000	142.0	4.73%	18.7	0.83%
SCL(bHLH)/HPC7-Scl-ChIP-Seq(GSE13511)/Homer	AVCAGCTG	1e-11	-2.561e+01	0.0000	957.0	31.90%	526.5	23.45%
TEAD4(TEA)/Tropoblast-Tead4-ChIP-Seq(GSE37350)/Homer	CCWGGAATGY	1e-10	-2.438e+01	0.0000	188.0	6.27%	56.1	2.50%
Lhx3(Homeobox)/Neuron-Lhx3-ChIP-Seq(GSE31456)/Homer	ADBTAATTAR	1e-10	-2.436e+01	0.0000	413.0	13.77%	180.7	8.05%
Tcf3(HMG)/mES-Tcf3-ChIP-Seq(GSE11724)/Homer	ASWTCAAAGG	1e-10	-2.320e+01	0.0000	110.0	3.67%	22.5	1.00%
Oct2(POU,Homeobox)/Bcell-Oct2-ChIP-Seq(GSE21512)/Homer	ATATGCAAAT	1e-9	-2.237e+01	0.0000	103.0	3.43%	20.1	0.90%
Tcf4(HMG)/Hct116-Tcf4-ChIP-Seq(SRA012054)/Homer	ASATCAAAGGVA	1e-9	-2.089e+01	0.0000	142.0	4.73%	39.5	1.76%
GABPA(ETS)/Jurkat-GABPa-ChIP-Seq(GSE17954)/Homer	RACCGGAAGT	1e-9	-2.073e+01	0.0000	122.0	4.07%	30.5	1.36%
Lhx2(Homeobox)/HFSC-Lhx2-ChIP-Seq(GSE48068)/Homer	TAATTAGN	1e-8	-2.071e+01	0.0000	275.0	9.17%	109.5	4.88%
FOXA1(Forkhead)/MCF7-FOXA1-ChIP-Seq(GSE26831)/Homer	WAAGTAAACA	1e-8	-1.880e+01	0.0000	154.0	5.13%	48.3	2.15%
FOXA1(Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WAAGTAAACA	1e-8	-1.846e+01	0.0000	184.0	6.13%	64.3	2.86%
Foxa2(Forkhead)/Liver-Foxa2-ChIP-Seq(GSE25694)/Homer	CYTGTTTACWYW	1e-7	-1.825e+01	0.0000	136.0	4.53%	40.7	1.81%
TEAD2(TEA)/Py2T-Tead2-ChIP-Seq(GSE55709)/Homer	CCWGGAATGY	1e-7	-1.770e+01	0.0000	126.0	4.20%	36.6	1.63%
Tcf12(bHLH)/GM12878-Tcf12-ChIP-Seq(GSE32465)/Homer	VCAGCTGYTG	1e-7	-1.728e+01	0.0000	202.0	6.73%	76.5	3.41%
CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	AYAGTGCCMYCTRGTGGCCA	1e-7	-1.629e+01	0.0000	38.0	1.27%	2.8	0.12%
Lhx1(Homeobox)/EmbryoCarcinoma-Lhx1-ChIP-Seq(GSE70957)/Homer	NNYTAATTAR	1e-7	-1.620e+01	0.0000	280.0	9.33%	123.4	5.50%
TEAD(TEA)/Fibroblast-PU.1-ChIP-Seq(Unpublished)/Homer	YCWGGAATGY	1e-6	-1.608e+01	0.0000	139.0	4.63%	45.7	2.03%
FOXM1(Forkhead)/MCF7-FOXM1-ChIP-Seq(GSE72977)/Homer	TRTTTACTTW	1e-6	-1.568e+01	0.0000	155.0	5.17%	54.6	2.43%
Fox:Ebox(Forkhead,bHLH)/Panc1-Foxa2-ChIP-Seq(GSE47459)/Homer	NNNVCTGWGYAAACASN	1e-6	-1.526e+01	0.0000	142.0	4.73%	48.3	2.15%
ETV1(ETS)/GIST48-ETV1-ChIP-Seq(GSE22441)/Homer	AACCGGAAGT	1e-6	-1.461e+01	0.0000	186.0	6.20%	73.2	3.26%
Ap4(bHLH)/AML-Tfap4-ChIP-Seq(GSE45738)/Homer	NAHCAGCTGD	1e-5	-1.378e+01	0.0000	209.0	6.97%	88.5	3.94%
Etv2(ETS)/ES-ER71-ChIP-Seq(GSE59402)/Homer(0.967)	NNAYTTCCTGHN	1e-5	-1.368e+01	0.0000	121.0	4.03%	40.7	1.81%
BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer	CNNBRGCGCCCCCTGSTGGC	1e-5	-1.314e+01	0.0000	67.0	2.23%	15.7	0.70%
ERG(ETS)/VCaP-ERG-ChIP-Seq(GSE14097)/Homer	ACAGGAAGTG	1e-5	-1.297e+01	0.0000	214.0	7.13%	93.2	4.15%
ETS1(ETS)/Jurkat-ETS1-ChIP-Seq(GSE17954)/Homer	ACAGGAAGTG	1e-5	-1.254e+01	0.0000	134.0	4.47%	49.0	2.18%
ETS(ETS)/Promoter/Homer	AACCGGAAGT	1e-5	-1.248e+01	0.0000	40.0	1.33%	5.7	0.26%
FoxL2(Forkhead)/Ovary-FoxL2-ChIP-Seq(GSE60858)/Homer	WWTRTAAACAVG	1e-5	-1.191e+01	0.0001	109.0	3.63%	37.1	1.65%
E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer	GGCGGGAARN	1e-5	-1.170e+01	0.0001	74.0	2.47%	20.9	0.93%
RUNX1(Runt)/Jurkat-RUNX1-ChIP-Seq(GSE29180)/Homer	AAACCACARM	1e-4	-1.086e+01	0.0002	122.0	4.07%	46.0	2.05%
Nkx2.5(Homeobox)/HL1-Nkx2.5.biotin-ChIP-Seq(GSE21529)/Homer	RRSCACTYAA	1e-4	-1.086e+01	0.0002	386.0	12.87%	207.6	9.25%
Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer	TGCGTGGGYG	1e-4	-1.063e+01	0.0002	79.0	2.63%	25.0	1.11%
Fli1(ETS)/CD8-FLI-ChIP-Seq(GSE20898)/Homer	NRYTTCCGGH	1e-4	-1.062e+01	0.0002	155.0	5.17%	65.4	2.91%
Oct4:Sox17(POU,Homeobox,HMG)/F9-Sox17-ChIP-Seq(GSE44553)/Homer	CCATTGTATGCAAAT	1e-4	-1.040e+01	0.0002	38.0	1.27%	6.7	0.30%
Tcf21(bHLH)/ArterySmoothMuscle-Tcf21-ChIP-Seq(GSE61369)/Homer	NAACAGCTGG	1e-4	-9.970e+00	0.0004	159.0	5.30%	69.8	3.11%
HEB(bHLH)/mES-Heb-ChIP-Seq(GSE53233)/Homer	VCAGCTGBNN	1e-4	-9.879e+00	0.0004	341.0	11.37%	182.8	8.14%
ELF1(ETS)/Jurkat-ELF1-ChIP-Seq(SRA014231)/Homer	AVCCGGAAGT	1e-3	-9.112e+00	0.0008	68.0	2.27%	21.9	0.98%
MyoG(bHLH)/C2C12-MyoG-ChIP-Seq(GSE36024)/Homer	AACAGCTG	1e-3	-9.015e+00	0.0009	178.0	5.93%	83.4	3.71%
EBF(EBF)/proBcell-EBF-ChIP-Seq(GSE21978)/Homer	DGTCCCYRGGGA	1e-3	-8.830e+00	0.0011	29.0	0.97%	4.1	0.18%
SeqBias: CG-repeat	CGCGCGCGCG	1e-3	-8.805e+00	0.0011	375.0	12.50%	209.1	9.31%
Nkx3.1(Homeobox)/LNCaP-Nkx3.1-ChIP-Seq(GSE28264)/Homer	AAGCACTTAA	1e-3	-8.315e+00	0.0017	391.0	13.03%	222.4	9.90%
Pit1(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGMATATDC	1e-3	-8.292e+00	0.0017	115.0	3.83%	48.9	2.18%
Rfx1(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	KGTTGCCATGGCAA	1e-3	-8.277e+00	0.0017	22.0	0.73%	2.1	0.09%
FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer	NYYTGTTTACHN	1e-3	-8.221e+00	0.0018	67.0	2.23%	22.6	1.01%
RUNX2(Runt)/PCa-RUNX2-ChIP-Seq(GSE33889)/Homer	NWAACCACADNN	1e-3	-8.198e+00	0.0018	104.0	3.47%	42.3	1.88%
E2A(bHLH)/proBcell-E2A-ChIP-Seq(GSE21978)/Homer	DNRCAGCTGY	1e-3	-7.931e+00	0.0023	277.0	9.23%	149.3	6.65%
SPDEF(ETS)/VCaP-SPDEF-ChIP-Seq(SRA014231)/Homer	ASWTCCTGBT	1e-3	-7.913e+00	0.0023	139.0	4.63%	63.1	2.81%
EHF(ETS)/LoVo-EHF-ChIP-Seq(GSE49402)/Homer	AVCAGGAAGT	1e-3	-7.709e+00	0.0028	153.0	5.10%	72.5	3.23%
Eomes(T-box)/H9-Eomes-ChIP-Seq(GSE26097)/Homer	ATTAACACCT	1e-3	-7.480e+00	0.0035	300.0	10.00%	167.0	7.44%
RUNX(Runt)/HPC7-Runx1-ChIP-Seq(GSE22178)/Homer	SAAACCACAG	1e-3	-7.463e+00	0.0035	83.0	2.77%	32.4	1.44%
RUNX-AML(Runt)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	GCTGTGGTTW	1e-3	-7.225e+00	0.0043	91.0	3.03%	38.0	1.69%
EWS:FLI1-fusion(ETS)/SK_N_MC-EWS:FLI1-ChIP-Seq(SRA014231)/Homer	VACAGGAAAT	1e-3	-7.018e+00	0.0053	83.0	2.77%	33.4	1.49%
ZBTB18(Zf)/HEK293-ZBTB18.GFP-ChIP-Seq(GSE58341)/Homer	AACATCTGGA	1e-3	-6.991e+00	0.0053	90.0	3.00%	37.2	1.65%
X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	GGTTGCCATGGCAA	1e-2	-6.893e+00	0.0058	16.0	0.53%	1.0	0.05%
SeqBias: polyA-repeat	AAAAAAAAAA	1e-2	-6.292e+00	0.0104	2640.0	88.00%	1913.5	85.21%
PHA-4(Forkhead)/cElegans-Embryos-PHA4-ChIP-Seq(modEncode)/Homer	KTGTTTGC	1e-2	-6.189e+00	0.0113	384.0	12.80%	229.4	10.22%
Nkx2.1(Homeobox)/LungAC-Nkx2.1-ChIP-Seq(GSE43252)/Homer	RSCACTYRAG	1e-2	-6.143e+00	0.0117	490.0	16.33%	302.3	13.46%
ZNF143|STAF(Zf)/CUTLL-ZNF143-ChIP-Seq(GSE29600)/Homer	ATTTCCCAGVAKSCY	1e-2	-6.068e+00	0.0124	38.0	1.27%	11.5	0.51%
DPL-1(E2F)/cElegans-Adult-ChIP-Seq(modEncode)/Homer	TAGCGCGC	1e-2	-6.014e+00	0.0130	134.0	4.47%	66.0	2.94%
RFX(HTH)/K562-RFX3-ChIP-Seq(SRA012198)/Homer	CGGTTGCCATGGCAAC	1e-2	-5.593e+00	0.0192	10.0	0.33%	0.5	0.02%
Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer	GTTGCCATGGCAACM	1e-2	-5.593e+00	0.0192	10.0	0.33%	0.5	0.02%
SeqBias: G/A bias	RRRRRRRRRR	1e-2	-5.574e+00	0.0193	2938.0	97.93%	2171.3	96.69%
EBF1(EBF)/Near-E2A-ChIP-Seq(GSE21512)/Homer	GTCCCCWGGGGA	1e-2	-5.541e+00	0.0197	152.0	5.07%	79.8	3.55%
c-Myc(bHLH)/LNCAP-cMyc-ChIP-Seq(Unpublished)/Homer	VCCACGTG	1e-2	-5.517e+00	0.0199	46.0	1.53%	16.2	0.72%
ETS:E-box(ETS,bHLH)/HPC7-Scl-ChIP-Seq(GSE22178)/Homer	AGGAARCAGCTG	1e-2	-5.390e+00	0.0223	13.0	0.43%	1.7	0.08%
Otx2(Homeobox)/EpiLC-Otx2-ChIP-Seq(GSE56098)/Homer	NYTAATCCYB	1e-2	-5.288e+00	0.0244	125.0	4.17%	63.2	2.81%
n-Myc(bHLH)/mES-nMyc-ChIP-Seq(GSE11431)/Homer	VRCCACGTGG	1e-2	-5.219e+00	0.0259	70.0	2.33%	31.0	1.38%
NFkB-p65(RHD)/GM12787-p65-ChIP-Seq(GSE19485)/Homer	WGGGGATTTCCC	1e-2	-5.189e+00	0.0263	54.0	1.80%	21.6	0.96%
Pbx3(Homeobox)/GM12878-PBX3-ChIP-Seq(GSE32465)/Homer	SCTGTCAMTCAN	1e-2	-5.141e+00	0.0273	29.0	0.97%	8.9	0.40%
NeuroD1(bHLH)/Islet-NeuroD1-ChIP-Seq(GSE30298)/Homer	GCCATCTGTT	1e-2	-5.122e+00	0.0275	116.0	3.87%	58.4	2.60%
Ascl1(bHLH)/NeuralTubes-Ascl1-ChIP-Seq(GSE55840)/Homer	NNVVCAGCTGBN	1e-2	-4.703e+00	0.0413	263.0	8.77%	156.2	6.96%
Ptf1a(bHLH)/Panc1-Ptf1a-ChIP-Seq(GSE47459)/Homer	ACAGCTGTTN	1e-2	-4.689e+00	0.0414	436.0	14.53%	275.8	12.28%
Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer	HACTTCCGGY	1e-2	-4.622e+00	0.0437	74.0	2.47%	34.0	1.51%
TATA-Box(TBP)/Promoter/Homer	CCTTTTAWAGSC	1e-1	-4.605e+00	0.0440	149.0	4.97%	81.8	3.64%
SeqBias: A/T bias	WWWWWWWWWW	1e-1	-4.541e+00	0.0464	1825.0	60.83%	1294.7	57.66%
TCFL2(HMG)/K562-TCF7L2-ChIP-Seq(GSE29196)/Homer	ACWTCAAAGG	1e-1	-4.498e+00	0.0478	31.0	1.03%	10.2	0.46%
PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer	GSCTGTCACTCA	1e-1	-4.473e+00	0.0485	8.0	0.27%	1.0	0.04%
ETS:RUNX(ETS,Runt)/Jurkat-RUNX1-ChIP-Seq(GSE17954)/Homer	RCAGGATGTGGT	1e-1	-4.410e+00	0.0512	11.0	0.37%	2.0	0.09%
ZNF264(Zf)/HEK293-ZNF264.GFP-ChIP-Seq(GSE58341)/Homer	RGGGCACTAACY	1e-1	-4.346e+00	0.0539	89.0	2.97%	44.8	1.99%
Stat3(Stat)/mES-Stat3-ChIP-Seq(GSE11431)/Homer	CTTCCGGGAA	1e-1	-4.308e+00	0.0554	59.0	1.97%	26.1	1.16%
ZNF467(Zf)/HEK293-ZNF467.GFP-ChIP-Seq(GSE58341)/Homer	TGGGGAAGGGCM	1e-1	-4.287e+00	0.0560	111.0	3.70%	58.7	2.61%
Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer	SCCTAGCAACAG	1e-1	-4.284e+00	0.0560	45.0	1.50%	18.4	0.82%
Foxh1(Forkhead)/hESC-FOXH1-ChIP-Seq(GSE29422)/Homer	NNTGTGGATTSS	1e-1	-4.236e+00	0.0577	77.0	2.57%	37.6	1.68%
Pknox1(Homeobox)/ES-Prep1-ChIP-Seq(GSE63282)/Homer	SCTGTCAVTCAV	1e-1	-4.162e+00	0.0615	26.0	0.87%	8.4	0.37%
Pho2(bHLH)/Yeast-Pho2-ChIP-Seq(GSE29506)/Homer	CCCACGTGCT	1e-1	-4.125e+00	0.0632	39.0	1.30%	15.8	0.70%
Gata4(Zf)/Heart-Gata4-ChIP-Seq(GSE35151)/Homer	NBWGATAAGR	1e-1	-4.087e+00	0.0649	116.0	3.87%	62.3	2.77%
NFY(CCAAT)/Promoter/Homer	RGCCAATSRG	1e-1	-4.020e+00	0.0688	114.0	3.80%	61.3	2.73%
Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo_et_al.)/Homer	TBGCACGCAA	1e-1	-3.962e+00	0.0722	82.0	2.73%	41.0	1.83%
ELF5(ETS)/T47D-ELF5-ChIP-Seq(GSE30407)/Homer	ACVAGGAAGT	1e-1	-3.961e+00	0.0722	69.0	2.30%	33.0	1.47%
NFkB-p65-Rel(RHD)/ThioMac-LPS-Expression(GSE23622)/Homer	GGAAATTCCC	1e-1	-3.914e+00	0.0743	7.0	0.23%	0.1	0.00%
SeqBias: CG bias	SSSSSSSSSS	1e-1	-3.900e+00	0.0746	1812.0	60.40%	1292.5	57.56%
Foxo1(Forkhead)/RAW-Foxo1-ChIP-Seq(Fan_et_al.)/Homer	CTGTTTAC	1e-1	-3.873e+00	0.0759	248.0	8.27%	151.1	6.73%
Brn2(POU,Homeobox)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATATTC	1e-1	-3.849e+00	0.0771	19.0	0.63%	5.9	0.26%
Bcl6(Zf)/Liver-Bcl6-ChIP-Seq(GSE31578)/Homer	NNNCTTTCCAGGAAA	1e-1	-3.817e+00	0.0788	125.0	4.17%	69.9	3.11%
Ets1-distal(ETS)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	MACAGGAAGT	1e-1	-3.740e+00	0.0843	41.0	1.37%	17.7	0.79%
bHLHE40(bHLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer	KCACGTGMCN	1e-1	-3.620e+00	0.0942	28.0	0.93%	10.8	0.48%
Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer	GCCACACCCA	1e-1	-3.376e+00	0.1191	36.0	1.20%	15.3	0.68%
Pit1+1bp(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGCATAATTCA	1e-1	-3.294e+00	0.1283	25.0	0.83%	9.2	0.41%
SeqBias: C/A-bias	MMMMMMMMMM	1e-1	-3.280e+00	0.1289	2858.0	95.27%	2113.6	94.12%
RBPJ:Ebox(?,bHLH)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	GGGRAARRGRMCAGMTG	1e-1	-3.251e+00	0.1315	32.0	1.07%	13.7	0.61%
E-box(bHLH)/Promoter/Homer	SSGGTCACGTGA	1e-1	-3.192e+00	0.1383	13.0	0.43%	3.0	0.14%
ZNF165(Zf)/WHIM12-ZNF165-ChIP-Seq(GSE65937)/Homer	AAGGKGRCGCAGGCA	1e-1	-3.182e+00	0.1385	19.0	0.63%	6.7	0.30%
GLI3(Zf)/Limb-GLI3-ChIP-Chip(GSE11077)/Homer	CGTGGGTGGTCC	1e-1	-3.164e+00	0.1386	15.0	0.50%	4.3	0.19%
HOXA2(Homeobox)/mES-Hoxa2-ChIP-Seq(Donaldson_et_al.)/Homer	GYCATCMATCAT	1e-1	-3.164e+00	0.1386	15.0	0.50%	4.8	0.21%
Nkx2.2(Homeobox)/NPC-Nkx2.2-ChIP-Seq(GSE61673)/Homer	BTBRAGTGSN	1e-1	-3.121e+00	0.1435	332.0	11.07%	215.3	9.59%
HLH-1(bHLH)/cElegans-Embryo-HLH1-ChIP-Seq(modEncode)/Homer	RACAGCTGTTBH	1e-1	-3.090e+00	0.1467	106.0	3.53%	61.0	2.72%
BMYB(HTH)/Hela-BMYB-ChIP-Seq(GSE27030)/Homer	NHAACBGYYV	1e-1	-3.085e+00	0.1467	211.0	7.03%	131.4	5.85%
CArG(MADS)/PUER-Srf-ChIP-Seq(Sullivan_et_al.)/Homer	CCATATATGGNM	1e-1	-3.051e+00	0.1501	38.0	1.27%	17.7	0.79%
GRE(NR),IR3/A549-GR-ChIP-Seq(GSE32465)/Homer	NRGVACABNVTGTYCY	1e-1	-2.985e+00	0.1577	8.0	0.27%	1.5	0.07%
FOXA1:AR(Forkhead,NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	AGTAAACAAAAAAGAACAND	1e-1	-2.985e+00	0.1577	8.0	0.27%	1.9	0.08%
Hoxb4(Homeobox)/ES-Hoxb4-ChIP-Seq(GSE34014)/Homer	TGATTRATGGCY	1e-1	-2.978e+00	0.1577	41.0	1.37%	19.3	0.86%
Atf3(bZIP)/GBM-ATF3-ChIP-Seq(GSE33912)/Homer	DATGASTCATHN	1e-1	-2.966e+00	0.1582	76.0	2.53%	41.4	1.84%
Tgif1(Homeobox)/mES-Tgif1-ChIP-Seq(GSE55404)/Homer	YTGWCADY	1e-1	-2.943e+00	0.1605	420.0	14.00%	279.4	12.44%
AMYB(HTH)/Testes-AMYB-ChIP-Seq(GSE44588)/Homer	TGGCAGTTGG	1e-1	-2.915e+00	0.1638	202.0	6.73%	126.1	5.61%
USF1(bHLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer	SGTCACGTGR	1e-1	-2.906e+00	0.1641	39.0	1.30%	18.5	0.82%
Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer	BAACAGCTGT	1e-1	-2.888e+00	0.1657	112.0	3.73%	65.4	2.91%
Egr2(Zf)/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer	NGCGTGGGCGGR	1e-1	-2.816e+00	0.1768	14.0	0.47%	4.4	0.20%
ZBTB33(Zf)/GM12878-ZBTB33-ChIP-Seq(GSE32465)/Homer	GGVTCTCGCGAGAAC	1e-1	-2.795e+00	0.1792	5.0	0.17%	0.0	0.00%
Pdx1(Homeobox)/Islet-Pdx1-ChIP-Seq(SRA008281)/Homer	YCATYAATCA	1e-1	-2.662e+00	0.2032	125.0	4.17%	75.2	3.35%
Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer	GGGGGGGG	1e-1	-2.634e+00	0.2072	242.0	8.07%	156.4	6.97%
PRDM14(Zf)/H1-PRDM14-ChIP-Seq(GSE22767)/Homer	RGGTCTCTAACY	1e-1	-2.613e+00	0.2101	31.0	1.03%	15.0	0.67%
Zelda(Zf)/Embryo-zld-ChIP-Seq(GSE65441)/Homer	KBCTACCTGW	1e-1	-2.606e+00	0.2101	44.0	1.47%	22.4	1.00%
Fra1(bZIP)/BT549-Fra1-ChIP-Seq(GSE46166)/Homer	NNATGASTCATH	1e-1	-2.575e+00	0.2151	58.0	1.93%	32.0	1.42%
Bach2(bZIP)/OCILy7-Bach2-ChIP-Seq(GSE44420)/Homer	TGCTGAGTCA	1e-1	-2.556e+00	0.2176	24.0	0.80%	10.4	0.46%
Cbf1(bHLH)/Yeast-Cbf1-ChIP-Seq(GSE29506)/Homer	TCACGTGAYH	1e-1	-2.539e+00	0.2199	29.0	0.97%	13.3	0.59%
PAX6(Paired,Homeobox)/Forebrain-Pax6-ChIP-Seq(GSE66961)/Homer	NGTGTTCAVTSAAGCGKAAA	1e-1	-2.527e+00	0.2199	7.0	0.23%	1.5	0.07%
IRF:BATF(IRF:bZIP)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	CTTTCANTATGACTV	1e-1	-2.527e+00	0.2199	7.0	0.23%	1.6	0.07%
MYB(HTH)/ERMYB-Myb-ChIPSeq(GSE22095)/Homer	GGCVGTTR	1e-1	-2.480e+00	0.2281	260.0	8.67%	170.6	7.60%
PAX5(Paired,Homeobox),condensed/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GTCACGCTCSCTGM	1e-1	-2.458e+00	0.2316	9.0	0.30%	2.6	0.11%
E2F1(E2F)/Hela-E2F1-ChIP-Seq(GSE22478)/Homer	CWGGCGGGAA	1e-1	-2.395e+00	0.2451	30.0	1.00%	14.8	0.66%
ZNF415(Zf)/HEK293-ZNF415.GFP-ChIP-Seq(GSE58341)/Homer	GRTGMTRGAGCC	1e-1	-2.374e+00	0.2484	49.0	1.63%	27.0	1.20%
MafA(bZIP)/Islet-MafA-ChIP-Seq(GSE30298)/Homer	TGCTGACTCA	1e-1	-2.365e+00	0.2490	115.0	3.83%	70.3	3.13%
GRE(NR),IR3/RAW264.7-GRE-ChIP-Seq(Unpublished)/Homer	VAGRACAKWCTGTYC	1e-1	-2.347e+00	0.2518	18.0	0.60%	7.1	0.32%
c-Myc(bHLH)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	VVCCACGTGG	1e-1	-2.346e+00	0.2518	41.0	1.37%	21.8	0.97%
E-box/Arabidopsis-Promoters/Homer	GCCACGTG	1e-1	-2.342e+00	0.2518	33.0	1.10%	16.7	0.74%
PU.1:IRF8(ETS:IRF)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	GGAAGTGAAAST	1e0	-2.280e+00	0.2639	16.0	0.53%	6.9	0.31%
Fosl2(bZIP)/3T3L1-Fosl2-ChIP-Seq(GSE56872)/Homer	NATGASTCABNN	1e0	-2.264e+00	0.2664	31.0	1.03%	15.7	0.70%
Klf9(Zf)/GBM-Klf9-ChIP-Seq(GSE62211)/Homer	GCCACRCCCACY	1e0	-2.189e+00	0.2854	54.0	1.80%	30.9	1.38%
SeqBias: polyC-repeat	CCCCCCCCCC	1e0	-2.156e+00	0.2928	2768.0	92.27%	2050.4	91.31%
Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer	NRYTTCCGGY	1e0	-2.124e+00	0.3005	82.0	2.73%	49.0	2.18%
EWS:ERG-fusion(ETS)/CADO_ES1-EWS:ERG-ChIP-Seq(SRA014231)/Homer	ATTTCCTGTN	1e0	-2.066e+00	0.3162	83.0	2.77%	50.2	2.23%
EGL-5(Homeobox)/cElegans-L3-EGL5-ChIP-Seq(modEncode)/Homer	ATTTAATGGG	1e0	-2.063e+00	0.3162	222.0	7.40%	147.4	6.57%
BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer	DATGASTCAT	1e0	-2.045e+00	0.3190	71.0	2.37%	42.1	1.87%
Unknown(Homeobox)/Limb-p300-ChIP-Seq/Homer	SSCMATWAAA	1e0	-2.027e+00	0.3226	90.0	3.00%	55.8	2.49%
Jun-AP1(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	GATGASTCATCN	1e0	-1.939e+00	0.3502	23.0	0.77%	11.9	0.53%
KLF10(Zf)/HEK293-KLF10.GFP-ChIP-Seq(GSE58341)/Homer	GGGGGTGTGTCC	1e0	-1.901e+00	0.3615	43.0	1.43%	24.0	1.07%
ZFX(Zf)/mES-Zfx-ChIP-Seq(GSE11431)/Homer	AGGCCTRG	1e0	-1.866e+00	0.3720	194.0	6.47%	130.0	5.79%
Pho4(bHLH)/Yeast-Pho4-ChIP-Seq(GSE29506)/Homer	AAGCACGTGBGD	1e0	-1.846e+00	0.3772	11.0	0.37%	5.0	0.22%
Hoxc9(Homeobox)/Ainv15-Hoxc9-ChIP-Seq(GSE21812)/Homer	GGCCATAAATCA	1e0	-1.840e+00	0.3772	62.0	2.07%	37.3	1.66%
FXR(NR),IR1/Liver-FXR-ChIP-Seq(Chong_et_al.)/Homer	AGGTCANTGACCTB	1e0	-1.839e+00	0.3772	35.0	1.17%	19.2	0.86%
IRF4(IRF)/GM12878-IRF4-ChIP-Seq(GSE32465)/Homer	ACTGAAACCA	1e0	-1.831e+00	0.3772	38.0	1.27%	21.7	0.97%
PIF5ox(bHLH)/Arabidopsis-PIF5ox-ChIP-Seq(GSE35062)/Homer	BCACGTGVDN	1e0	-1.797e+00	0.3866	98.0	3.27%	62.1	2.76%
SPCH(bHLH)/Seedling-SPCH-ChIP-Seq(GSE57497)/Homer	WNBCACGTGA	1e0	-1.773e+00	0.3937	92.0	3.07%	58.3	2.60%
ARE(NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	RGRACASNSTGTYCYB	1e0	-1.766e+00	0.3939	19.0	0.63%	9.2	0.41%
Bach1(bZIP)/K562-Bach1-ChIP-Seq(GSE31477)/Homer	AWWNTGCTGAGTCAT	1e0	-1.701e+00	0.4156	7.0	0.23%	2.5	0.11%
ZNF669(Zf)/HEK293-ZNF669.GFP-ChIP-Seq(GSE58341)/Homer	GARTGGTCATCGCCC	1e0	-1.701e+00	0.4156	7.0	0.23%	2.5	0.11%
REST-NRSF(Zf)/Jurkat-NRSF-ChIP-Seq/Homer	GGMGCTGTCCATGGTGCTGA	1e0	-1.676e+00	0.4233	3.0	0.10%	0.0	0.00%
ZSCAN22(Zf)/HEK293-ZSCAN22.GFP-ChIP-Seq(GSE58341)/Homer	SMCAGTCWGAKGGAGGAGGC	1e0	-1.650e+00	0.4322	5.0	0.17%	1.2	0.05%
Max(bHLH)/K562-Max-ChIP-Seq(GSE31477)/Homer	RCCACGTGGYYN	1e0	-1.622e+00	0.4419	50.0	1.67%	30.3	1.35%
MyoD(bHLH)/Myotube-MyoD-ChIP-Seq(GSE21614)/Homer	RRCAGCTGYTSY	1e0	-1.612e+00	0.4439	116.0	3.87%	76.3	3.40%
Bapx1(Homeobox)/VertebralCol-Bapx1-ChIP-Seq(GSE36672)/Homer	TTRAGTGSYK	1e0	-1.606e+00	0.4439	355.0	11.83%	248.5	11.07%
PCF/Arabidopsis-Promoters/Homer	NNWWWTGGGCYTDDN	1e0	-1.594e+00	0.4465	32.0	1.07%	18.7	0.83%
PGR(NR)/EndoStromal-PGR-ChIP-Seq(GSE69539)/Homer	AAGAACATWHTGTTC	1e0	-1.584e+00	0.4488	15.0	0.50%	7.8	0.35%
RXR(NR),DR1/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer	TAGGGCAAAGGTCA	1e0	-1.576e+00	0.4496	117.0	3.90%	77.5	3.45%
GATA3(Zf),DR8/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATSTNDNNDSAGATAASN	1e0	-1.552e+00	0.4579	10.0	0.33%	4.0	0.18%
Stat3+il21(Stat)/CD4-Stat3-ChIP-Seq(GSE19198)/Homer	SVYTTCCNGGAARB	1e0	-1.519e+00	0.4708	68.0	2.27%	43.4	1.93%
Pax8(Paired,Homeobox)/Thyroid-Pax8-ChIP-Seq(GSE26938)/Homer	GTCATGCHTGRCTGS	1e0	-1.516e+00	0.4708	33.0	1.10%	19.2	0.86%
GATA3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATAASR	1e0	-1.488e+00	0.4801	151.0	5.03%	102.1	4.55%
Unknown1(NR/Ini-like)/Drosophila-Promoters/Homer	MYGGTCACACTG	1e0	-1.454e+00	0.4941	16.0	0.53%	8.9	0.40%
NF-E2(bZIP)/K562-NFE2-ChIP-Seq(GSE31477)/Homer	GATGACTCAGCA	1e0	-1.453e+00	0.4941	8.0	0.27%	4.0	0.18%
NFAT:AP1(RHD,bZIP)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	SARTGGAAAAWRTGAGTCAB	1e0	-1.385e+00	0.5238	11.0	0.37%	6.0	0.27%
ZNF317(Zf)/HEK293-ZNF317.GFP-ChIP-Seq(GSE58341)/Homer	GTCWGCTGTYYCTCT	1e0	-1.349e+00	0.5370	6.0	0.20%	2.5	0.11%
GFY(?)/Promoter/Homer	ACTACAATTCCC	1e0	-1.349e+00	0.5370	6.0	0.20%	2.3	0.10%
bZIP:IRF(bZIP,IRF)/Th17-BatF-ChIP-Seq(GSE39756)/Homer	NAGTTTCABTHTGACTNW	1e0	-1.348e+00	0.5370	26.0	0.87%	15.5	0.69%
VDR(NR),DR3/GM10855-VDR+vitD-ChIP-Seq(GSE22484)/Homer	ARAGGTCANWGAGTTCANNN	1e0	-1.343e+00	0.5370	17.0	0.57%	9.1	0.41%
ZNF692(Zf)/HEK293-ZNF692.GFP-ChIP-Seq(GSE58341)/Homer	GTGGGCCCCA	1e0	-1.342e+00	0.5370	23.0	0.77%	13.8	0.62%
AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	VTGACTCATC	1e0	-1.334e+00	0.5370	86.0	2.87%	57.7	2.57%
MafF(bZIP)/HepG2-MafF-ChIP-Seq(GSE31477)/Homer	HWWGTCAGCAWWTTT	1e0	-1.313e+00	0.5420	36.0	1.20%	22.1	0.98%
Gata2(Zf)/K562-GATA2-ChIP-Seq(GSE18829)/Homer	BBCTTATCTS	1e0	-1.277e+00	0.5593	60.0	2.00%	39.3	1.75%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	AGGTCAAGGTCA	1e0	-1.276e+00	0.5593	9.0	0.30%	4.8	0.21%
ZNF675(Zf)/HEK293-ZNF675.GFP-ChIP-Seq(GSE58341)/Homer	ARGAGGMCAAAATGW	1e0	-1.276e+00	0.5593	9.0	0.30%	4.6	0.20%
CLOCK(bHLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer	GHCACGTG	1e0	-1.271e+00	0.5593	40.0	1.33%	25.1	1.12%
AP-2alpha(AP2)/Hela-AP2alpha-ChIP-Seq(GSE31477)/Homer	ATGCCCTGAGGC	1e0	-1.256e+00	0.5593	113.0	3.77%	77.6	3.46%
TOD6?/SacCer-Promoters/Homer	GCGATGAGMT	1e0	-1.251e+00	0.5593	12.0	0.40%	7.0	0.31%
PR(NR)/T47D-PR-ChIP-Seq(GSE31130)/Homer	VAGRACAKNCTGTBC	1e0	-1.219e+00	0.5746	187.0	6.23%	131.8	5.87%
GATA(Zf),IR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NAGATWNBNATCTNN	1e0	-1.140e+00	0.6186	10.0	0.33%	5.7	0.25%
E-box/Drosophila-Promoters/Homer	AACAGCTGTTHN	1e0	-1.126e+00	0.6243	26.0	0.87%	16.5	0.74%
Atoh1(bHLH)/Cerebellum-Atoh1-ChIP-Seq(GSE22111)/Homer	VNRVCAGCTGGY	1e0	-1.120e+00	0.6249	151.0	5.03%	106.5	4.74%
ZNF382(Zf)/HEK293-ZNF382.GFP-ChIP-Seq(GSE58341)/Homer	GNCTGTASTRNTGBCTCHTT	1e0	-1.117e+00	0.6249	2.0	0.07%	0.0	0.00%
OCT:OCT(POU,Homeobox,IR1)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATWATTCATGA	1e0	-1.117e+00	0.6249	2.0	0.07%	0.0	0.00%
Pax7(Paired,Homeobox),longest/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	NTAATTDGCYAATTANNWWD	1e0	-1.117e+00	0.6249	2.0	0.07%	1.0	0.04%
Pax7(Paired,Homeobox),long/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCHGATTAC	1e0	-1.117e+00	0.6249	2.0	0.07%	0.6	0.03%
GFX(?)/Promoter/Homer	ATTCTCGCGAGA	1e0	-1.117e+00	0.6249	2.0	0.07%	0.7	0.03%
PPARE(NR),DR1/3T3L1-Pparg-ChIP-Seq(GSE13511)/Homer	TGACCTTTGCCCCA	1e0	-1.101e+00	0.6249	86.0	2.87%	59.6	2.65%
Olig2(bHLH)/Neuron-Olig2-ChIP-Seq(GSE30882)/Homer	RCCATMTGTT	1e0	-1.052e+00	0.6468	252.0	8.40%	181.6	8.09%
RORgt(NR)/EL4-RORgt.Flag-ChIP-Seq(GSE56019)/Homer	AAYTAGGTCA	1e0	-1.050e+00	0.6468	14.0	0.47%	8.2	0.36%
NFAT(RHD)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	ATTTTCCATT	1e0	-1.038e+00	0.6498	70.0	2.33%	48.9	2.18%
Nrf2(bZIP)/Lymphoblast-Nrf2-ChIP-Seq(GSE37589)/Homer	HTGCTGAGTCAT	1e0	-1.020e+00	0.6585	8.0	0.27%	4.1	0.18%
GAGA-repeat/SacCer-Promoters/Homer	CTYTCTYTCTCTCTC	1e0	-1.010e+00	0.6618	408.0	13.60%	297.2	13.23%
CEBP:CEBP(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	NTNATGCAAYMNNHTGMAAY	1e0	-9.970e-01	0.6673	18.0	0.60%	11.3	0.50%
E2A(bHLH),near_PU.1/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	NVCACCTGBN	1e0	-9.353e-01	0.7065	202.0	6.73%	146.1	6.50%
HIF-1a(bHLH)/MCF7-HIF1a-ChIP-Seq(GSE28352)/Homer	TACGTGCV	1e0	-9.335e-01	0.7065	19.0	0.63%	12.0	0.54%
EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer	NWGGGTGTGGCY	1e0	-9.152e-01	0.7141	9.0	0.30%	5.4	0.24%
AP-2gamma(AP2)/MCF7-TFAP2C-ChIP-Seq(GSE21234)/Homer	SCCTSAGGSCAW	1e0	-9.029e-01	0.7197	158.0	5.27%	114.8	5.11%
Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq(GSE22178)/Homer	MAATCACTGC	1e0	-8.891e-01	0.7263	94.0	3.13%	67.3	3.00%
AR-halfsite(NR)/LNCaP-AR-ChIP-Seq(GSE27824)/Homer	CCAGGAACAG	1e0	-8.884e-01	0.7263	426.0	14.20%	313.7	13.97%
PRDM1(Zf)/Hela-PRDM1-ChIP-Seq(GSE31477)/Homer	ACTTTCACTTTC	1e0	-8.594e-01	0.7415	35.0	1.17%	24.8	1.11%
HOXA9(Homeobox)/HSC-Hoxa9-ChIP-Seq(GSE33509)/Homer	GGCCATAAATCA	1e0	-8.521e-01	0.7435	69.0	2.30%	49.5	2.20%
RARg(NR)/ES-RARg-ChIP-Seq(GSE30538)/Homer	AGGTCAAGGTCA	1e0	-8.501e-01	0.7435	3.0	0.10%	1.9	0.08%
NF1:FOXA1(CTF,Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WNTGTTTRYTTTGGCA	1e0	-8.501e-01	0.7435	3.0	0.10%	1.7	0.08%
PU.1(ETS)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	AGAGGAAGTG	1e0	-8.318e-01	0.7487	32.0	1.07%	22.4	1.00%
HNF6(Homeobox)/Liver-Hnf6-ChIP-Seq(ERP000394)/Homer	NTATYGATCH	1e0	-8.014e-01	0.7684	71.0	2.37%	51.2	2.28%
GRHL2(CP2)/HBE-GRHL2-ChIP-Seq(GSE46194)/Homer	AAACYKGTTWDACMRGTTTB	1e0	-7.944e-01	0.7704	33.0	1.10%	23.4	1.04%
HRE(HSF)/HepG2-HSF1-ChIP-Seq(GSE31477)/Homer	BSTTCTRGAABVTTCYAGAA	1e0	-7.857e-01	0.7704	7.0	0.23%	4.6	0.21%
Mouse_Recombination_Hotspot(Zf)/Testis-DMC1-ChIP-Seq(GSE24438)/Homer	ACTYKNATTCGTGNTACTTC	1e0	-7.857e-01	0.7704	7.0	0.23%	4.7	0.21%
JunD(bZIP)/K562-JunD-ChIP-Seq/Homer	ATGACGTCATCN	1e0	-7.857e-01	0.7704	7.0	0.23%	5.0	0.22%
Reverb(NR),DR2/RAW-Reverba.biotin-ChIP-Seq(GSE45914)/Homer	GTRGGTCASTGGGTCA	1e0	-7.857e-01	0.7704	7.0	0.23%	4.8	0.21%
Usf2(bHLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer	GTCACGTGGT	1e0	-7.714e-01	0.7712	26.0	0.87%	18.4	0.82%
HIF-1b(HLH)/T47D-HIF1b-ChIP-Seq(GSE59937)/Homer	RTACGTGC	1e0	-7.670e-01	0.7713	88.0	2.93%	64.7	2.88%
SeqBias: GCW-triplet	GCWGCWGCWGCW	1e0	-7.427e-01	0.7869	2947.0	98.23%	2204.3	98.16%
GEI-11(Myb?)/cElegans-L4-GEI11-ChIP-Seq(modEncode)/Homer	CCGACAYYTYACGGG	1e0	-7.209e-01	0.7941	4.0	0.13%	2.5	0.11%
GFY-Staf(?,Zf)/Promoter/Homer	RACTACAATTCCCAGAAKGC	1e0	-7.209e-01	0.7941	4.0	0.13%	2.9	0.13%
EFL-1(E2F)/cElegans-L1-EFL1-ChIP-Seq(modEncode)/Homer	TGCAARYGCGCTCYA	1e0	-7.209e-01	0.7941	4.0	0.13%	3.0	0.13%
REB1/SacCer-Promoters/Homer	KCCGGGTAAYRR	1e0	-7.033e-01	0.8048	16.0	0.53%	11.0	0.49%
CRE(bZIP)/Promoter/Homer	CSGTGACGTCAC	1e0	-7.012e-01	0.8048	20.0	0.67%	14.7	0.65%
CRX(Homeobox)/Retina-Crx-ChIP-Seq(GSE20012)/Homer	GCTAATCC	1e0	-6.745e-01	0.8214	336.0	11.20%	251.5	11.20%
E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer	GGCGGGAAAH	1e0	-6.692e-01	0.8224	57.0	1.90%	42.2	1.88%
NFkB-p50,p52(RHD)/Monocyte-p50-ChIP-Chip(Schreiber_et_al.)/Homer	GGGGGAATCCCC	1e0	-6.509e-01	0.8341	9.0	0.30%	6.0	0.27%
PIF4(bHLH)/Seedling-PIF4-ChIP-Seq(GSE35315)/Homer	NNBCACGTGN	1e0	-6.365e-01	0.8427	103.0	3.43%	77.1	3.43%
Zfp809(Zf)/ES-Zfp809-ChIP-Seq(GSE70799)/Homer	GGGGCTYGKCTGGGA	1e0	-6.276e-01	0.8467	22.0	0.73%	16.5	0.73%
STAT5(Stat)/mCD4+-Stat5-ChIP-Seq(GSE12346)/Homer	RTTTCTNAGAAA	1e0	-6.219e-01	0.8481	18.0	0.60%	13.1	0.58%
HOXD13(Homeobox)/Chicken-Hoxd13-ChIP-Seq(GSE38910)/Homer	NCYAATAAAA	1e0	-6.185e-01	0.8481	96.0	3.20%	72.8	3.24%
Tbox:Smad(T-box,MAD)/ESCd5-Smad2_3-ChIP-Seq(GSE29422)/Homer	AGGTGHCAGACA	1e0	-6.012e-01	0.8589	10.0	0.33%	7.3	0.33%
THRa(NR)/C17.2-THRa-ChIP-Seq(GSE38347)/Homer	GGTCANYTGAGGWCA	1e0	-5.857e-01	0.8687	36.0	1.20%	27.7	1.23%
Unknown2/Drosophila-Promoters/Homer	CATCMCTA	1e0	-5.793e-01	0.8708	119.0	3.97%	90.5	4.03%
EBNA1(EBV-virus)/Raji-EBNA1-ChIP-Seq(GSE30709)/Homer	GGYAGCAYDTGCTDCCCNNN	1e0	-5.587e-01	0.8708	1.0	0.03%	0.0	0.00%
T1ISRE(IRF)/ThioMac-Ifnb-Expression/Homer	ACTTTCGTTTCT	1e0	-5.587e-01	0.8708	1.0	0.03%	0.9	0.04%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	RGGTCADNNAGAGGTCAV	1e0	-5.587e-01	0.8708	1.0	0.03%	0.6	0.03%
ZNF41(Zf)/HEK293-ZNF41.GFP-ChIP-Seq(GSE58341)/Homer	CCTCATGGTGYCYTWYTCCCTTGTG	1e0	-5.587e-01	0.8708	1.0	0.03%	0.7	0.03%
Unknown2/Arabidopsis-Promoters/Homer	AAACGACGTCGTTTT	1e0	-5.587e-01	0.8708	1.0	0.03%	0.0	0.00%
ZNF16(Zf)/HEK293-ZNF16.GFP-ChIP-Seq(GSE58341)/Homer	MACCTTCYATGGCTCCCTAKTGCCY	1e0	-5.587e-01	0.8708	1.0	0.03%	0.8	0.04%
OCT:OCT(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	ATGAATATTCATGAG	1e0	-5.587e-01	0.8708	1.0	0.03%	0.2	0.01%
FHY3(FAR1)/Arabidopsis-FHY3-ChIP-Seq(GSE30711)/Homer	HHCACGCGCBTN	1e0	-5.324e-01	0.8843	34.0	1.13%	26.6	1.19%
AARE(HLH)/mES-cMyc-ChIP-Seq/Homer	GATTGCATCA	1e0	-5.295e-01	0.8843	7.0	0.23%	5.5	0.25%
Chop(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	ATTGCATCAT	1e0	-5.119e-01	0.8955	17.0	0.57%	13.1	0.58%
Meis1(Homeobox)/MastCells-Meis1-ChIP-Seq(GSE48085)/Homer	VGCTGWCAVB	1e0	-4.681e-01	0.9321	170.0	5.67%	131.1	5.84%
Unknown5/Drosophila-Promoters/Homer	GCTGATAASV	1e0	-4.455e-01	0.9497	74.0	2.47%	58.6	2.61%
RBFox2(?)/Heart-RBFox2-CLIP-Seq(GSE57926)/Homer	TGCATGCA	1e0	-4.402e-01	0.9511	265.0	8.83%	204.3	9.10%
Gata1(Zf)/K562-GATA1-ChIP-Seq(GSE18829)/Homer	SAGATAAGRV	1e0	-4.365e-01	0.9511	48.0	1.60%	38.5	1.72%
ZBTB12(Zf)/HEK293-ZBTB12.GFP-ChIP-Seq(GSE58341)/Homer	NGNTCTAGAACCNGV	1e0	-4.336e-01	0.9511	25.0	0.83%	20.6	0.92%
Rbpj1(?)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	HTTTCCCASG	1e0	-4.279e-01	0.9520	136.0	4.53%	106.4	4.74%
Pitx1(Homeobox)/Chicken-Pitx1-ChIP-Seq(GSE38910)/Homer	TAATCCCN	1e0	-4.123e-01	0.9633	627.0	20.90%	479.4	21.35%
TR4(NR),DR1/Hela-TR4-ChIP-Seq(GSE24685)/Homer	GAGGTCAAAGGTCA	1e0	-3.968e-01	0.9710	5.0	0.17%	4.9	0.22%
YY1(Zf)/Promoter/Homer	CAAGATGGCGGC	1e0	-3.968e-01	0.9710	5.0	0.17%	4.6	0.21%
SpiB(ETS)/OCILY3-SPIB-ChIP-Seq(GSE56857)/Homer	AAAGRGGAAGTG	1e0	-3.963e-01	0.9710	22.0	0.73%	18.8	0.84%
HIF2a(bHLH)/785_O-HIF2a-ChIP-Seq(GSE34871)/Homer	GCACGTACCC	1e0	-3.928e-01	0.9710	17.0	0.57%	14.5	0.65%
SeqBias: CA-repeat	CACACACACA	1e0	-3.866e-01	0.9710	632.0	21.07%	484.7	21.58%
STAT1(Stat)/HelaS3-STAT1-ChIP-Seq(GSE12782)/Homer	NATTTCCNGGAAAT	1e0	-3.821e-01	0.9710	12.0	0.40%	10.1	0.45%
Trl(Zf)/S2-GAGAfactor-ChIP-Seq(GSE40646)/Homer	RGAGAGAG	1e0	-3.758e-01	0.9735	295.0	9.83%	229.8	10.24%
ZNF322(Zf)/HEK293-ZNF322.GFP-ChIP-Seq(GSE58341)/Homer	GAGCCTGGTACTGWGCCTGR	1e0	-3.736e-01	0.9735	18.0	0.60%	15.8	0.70%
Unknown6/Drosophila-Promoters/Homer	AATTTTAAAA	1e0	-3.702e-01	0.9735	62.0	2.07%	50.9	2.27%
Tcfcp2l1(CP2)/mES-Tcfcp2l1-ChIP-Seq(GSE11431)/Homer	NRAACCRGTTYRAACCRGYT	1e0	-3.527e-01	0.9819	7.0	0.23%	6.8	0.30%
Unknown3/Arabidopsis-Promoters/Homer	AYTAAACCGG	1e0	-3.527e-01	0.9819	7.0	0.23%	6.3	0.28%
Initiator/Drosophila-Promoters/Homer	NTCAGTYG	1e0	-3.339e-01	0.9969	225.0	7.50%	177.7	7.91%
HNF4a(NR),DR1/HepG2-HNF4a-ChIP-Seq(GSE25021)/Homer	CARRGKBCAAAGTYCA	1e0	-3.233e-01	1.0000	37.0	1.23%	31.8	1.42%
CEBP:AP1(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	DRTGTTGCAA	1e0	-3.232e-01	1.0000	71.0	2.37%	58.1	2.59%
ZNF711(Zf)/SHSY5Y-ZNF711-ChIP-Seq(GSE20673)/Homer	AGGCCTAG	1e0	-3.218e-01	1.0000	257.0	8.57%	202.2	9.01%
SeqBias: GA-repeat	GAGAGAGAGA	1e0	-3.149e-01	1.0000	840.0	28.00%	645.2	28.73%
DMRT1(DM)/Testis-DMRT1-ChIP-Seq(GSE64892)/Homer	TWGHWACAWTGTWDC	1e0	-3.122e-01	1.0000	16.0	0.53%	14.2	0.63%
Nur77(NR)/K562-NR4A1-ChIP-Seq(GSE31363)/Homer	TGACCTTTNCNT	1e0	-3.122e-01	1.0000	16.0	0.53%	14.4	0.64%
PAX5(Paired,Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GCAGCCAAGCRTGACH	1e0	-3.047e-01	1.0000	28.0	0.93%	24.7	1.10%
GATA:SCL(Zf,bHLH)/Ter119-SCL-ChIP-Seq(GSE18720)/Homer	CRGCTGBNGNSNNSAGATAA	1e0	-3.025e-01	1.0000	10.0	0.33%	9.6	0.43%
STAT4(Stat)/CD4-Stat4-ChIP-Seq(GSE22104)/Homer	NYTTCCWGGAAR	1e0	-3.018e-01	1.0000	78.0	2.60%	64.5	2.87%
SUT1?/SacCer-Promoters/Homer	CCCCGCGC	1e0	-2.984e-01	1.0000	1136.0	37.87%	869.0	38.70%
MafK(bZIP)/C2C12-MafK-ChIP-Seq(GSE36030)/Homer	GCTGASTCAGCA	1e0	-2.974e-01	1.0000	23.0	0.77%	21.0	0.94%
PAX3:FKHR-fusion(Paired,Homeobox)/Rh4-PAX3:FKHR-ChIP-Seq(GSE19063)/Homer	ACCRTGACTAATTNN	1e0	-2.974e-01	1.0000	23.0	0.77%	20.8	0.93%
GSC(Homeobox)/FrogEmbryos-GSC-ChIP-Seq(DRA000576)/Homer	RGGATTAR	1e0	-2.959e-01	1.0000	205.0	6.83%	163.1	7.26%
Smad2(MAD)/ES-SMAD2-ChIP-Seq(GSE29422)/Homer	CTGTCTGG	1e0	-2.923e-01	1.0000	139.0	4.63%	112.6	5.01%
Dorsal(RHD)/Embryo-dl-ChIP-Seq(GSE65441)/Homer	GGGAAAAMCCCG	1e0	-2.886e-01	1.0000	11.0	0.37%	10.6	0.47%
Six1(Homeobox)/Myoblast-Six1-ChIP-Chip(GSE20150)/Homer	GKVTCADRTTWC	1e0	-2.639e-01	1.0000	13.0	0.43%	12.5	0.56%
CHR(?)/Hela-CellCycle-Expression/Homer	SRGTTTCAAA	1e0	-2.463e-01	1.0000	55.0	1.83%	47.5	2.12%
Unknown1/Arabidopsis-Promoters/Homer	RGGGTAWWWTHGTAA	1e0	-2.442e-01	1.0000	5.0	0.17%	5.1	0.23%
p53(p53)/Saos-p53-ChIP-Seq(GSE15780)/Homer	RRCATGYCYRGRCATGYYYN	1e0	-2.442e-01	1.0000	5.0	0.17%	5.5	0.25%
p53(p53)/Saos-p53-ChIP-Seq/Homer	RRCATGYCYRGRCATGYYYN	1e0	-2.442e-01	1.0000	5.0	0.17%	5.5	0.25%
Tgif2(Homeobox)/mES-Tgif2-ChIP-Seq(GSE55404)/Homer	TGTCANYT	1e0	-2.425e-01	1.0000	423.0	14.10%	333.4	14.85%
TATA-box/Drosophila-Promoters/Homer	CTATAAAAGCSV	1e0	-2.394e-01	1.0000	2.0	0.07%	2.1	0.09%
STAT6(Stat)/CD4-Stat6-ChIP-Seq(GSE22104)/Homer	ABTTCYYRRGAA	1e0	-2.379e-01	1.0000	40.0	1.33%	35.8	1.59%
PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	MGGAAGTGAAAC	1e0	-2.319e-01	1.0000	92.0	3.07%	77.7	3.46%
Cdx2(Homeobox)/mES-Cdx2-ChIP-Seq(GSE14586)/Homer	GYMATAAAAH	1e0	-2.296e-01	1.0000	41.0	1.37%	36.5	1.63%
Unknown3/Drosophila-Promoters/Homer	ACVAKCTGGCAGCGC	1e0	-2.172e-01	1.0000	9.0	0.30%	9.1	0.40%
Smad4(MAD)/ESC-SMAD4-ChIP-Seq(GSE29422)/Homer	VBSYGTCTGG	1e0	-2.145e-01	1.0000	138.0	4.60%	114.6	5.10%
Tal1	CATCTG	1e0	-2.113e-01	1.0000	185.0	6.17%	151.3	6.74%
Atf4(bZIP)/MEF-Atf4-ChIP-Seq(GSE35681)/Homer	MTGATGCAAT	1e0	-2.069e-01	1.0000	19.0	0.63%	18.0	0.80%
Tbx20(T-box)/Heart-Tbx20-ChIP-Seq(GSE29636)/Homer	GGTGYTGACAGS	1e0	-2.063e-01	1.0000	26.0	0.87%	24.5	1.09%
MITF(bHLH)/MastCells-MITF-ChIP-Seq(GSE48085)/Homer	RTCATGTGAC	1e0	-2.061e-01	1.0000	71.0	2.37%	61.8	2.75%
PABPC1(?)/MEL-PABC1-CLIP-Seq(GSE69755)/Homer	HAATAAAGNN	1e0	-1.945e-01	1.0000	142.0	4.73%	119.0	5.30%
KLF14(Zf)/HEK293-KLF14.GFP-ChIP-Seq(GSE58341)/Homer	RGKGGGCGKGGC	1e0	-1.940e-01	1.0000	239.0	7.97%	194.3	8.65%
BMAL1(bHLH)/Liver-Bmal1-ChIP-Seq(GSE39860)/Homer	GNCACGTG	1e0	-1.887e-01	1.0000	148.0	4.93%	123.1	5.48%
ERE(NR),IR3/MCF7-ERa-ChIP-Seq(Unpublished)/Homer	VAGGTCACNSTGACC	1e0	-1.604e-01	1.0000	18.0	0.60%	18.8	0.84%
Unknown4/Arabidopsis-Promoters/Homer	CKTCKTCTTY	1e0	-1.527e-01	1.0000	59.0	1.97%	53.5	2.38%
GATA(Zf),IR3/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NNNNNBAGATAWYATCTVHN	1e0	-1.496e-01	1.0000	6.0	0.20%	7.6	0.34%
IRF2(IRF)/Erythroblas-IRF2-ChIP-Seq(GSE36985)/Homer	GAAASYGAAASY	1e0	-1.480e-01	1.0000	5.0	0.17%	6.2	0.28%
PQM-1(?)/cElegans-L3-ChIP-Seq(modEncode)/Homer	ACTGATAAGA	1e0	-1.450e-01	1.0000	29.0	0.97%	28.5	1.27%
DMRT6(DM)/Testis-DMRT6-ChIP-Seq(GSE60440)/Homer	YDGHTACAWTGTADC	1e0	-1.437e-01	1.0000	10.0	0.33%	11.5	0.51%
Unknown4/Drosophila-Promoters/Homer	AAAAATACCRMA	1e0	-1.344e-01	1.0000	3.0	0.10%	4.6	0.21%
GATA3(Zf),DR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATGKDGAGATAAG	1e0	-1.344e-01	1.0000	3.0	0.10%	4.4	0.20%
Erra(NR)/HepG2-Erra-ChIP-Seq(GSE31477)/Homer	CAAAGGTCAG	1e0	-1.273e-01	1.0000	222.0	7.40%	185.5	8.26%
TATA-box/SacCer-Promoters/Homer	BBHWTATATA	1e0	-1.214e-01	1.0000	17.0	0.57%	18.0	0.80%
GAGA-repeat/Arabidopsis-Promoters/Homer	CTCTCTCTCY	1e0	-1.191e-01	1.0000	106.0	3.53%	93.7	4.17%
Znf263(Zf)/K562-Znf263-ChIP-Seq(GSE31477)/Homer	CVGTSCTCCC	1e0	-1.164e-01	1.0000	207.0	6.90%	174.9	7.79%
caudal(Homeobox)/Drosophila-Embryos-ChIP-Chip(modEncode)/Homer	GGYCATAAAW	1e0	-9.803e-02	1.0000	55.0	1.83%	52.9	2.35%
Phox2a(Homeobox)/Neuron-Phox2a-ChIP-Seq(GSE31456)/Homer	YTAATYNRATTA	1e0	-8.678e-02	1.0000	29.0	0.97%	30.2	1.34%
HOXB13(Homeobox)/ProstateTumor-HOXB13-ChIP-Seq(GSE56288)/Homer	TTTTATKRGG	1e0	-8.554e-02	1.0000	66.0	2.20%	62.1	2.76%
IRF1(IRF)/PBMC-IRF1-ChIP-Seq(GSE43036)/Homer	GAAAGTGAAAGT	1e0	-8.170e-02	1.0000	4.0	0.13%	6.4	0.29%
SOC1(MADS)/Seedling-SOC1-ChIP-Seq(GSE45846)/Homer	TWCCAWWTWTGG	1e0	-8.048e-02	1.0000	21.0	0.70%	23.3	1.04%
c-Jun-CRE(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	ATGACGTCATCY	1e0	-7.679e-02	1.0000	23.0	0.77%	25.3	1.13%
Atf2(bZIP)/3T3L1-Atf2-ChIP-Seq(GSE56872)/Homer	NRRTGACGTCAT	1e0	-7.679e-02	1.0000	23.0	0.77%	25.9	1.15%
Srebp1a(bHLH)/HepG2-Srebp1a-ChIP-Seq(GSE31477)/Homer	RTCACSCCAY	1e0	-7.497e-02	1.0000	24.0	0.80%	26.9	1.20%
ELT-3(Gata)/cElegans-L1-ELT3-ChIP-Seq(modEncode)/Homer	AWTGATAAGA	1e0	-6.963e-02	1.0000	27.0	0.90%	29.9	1.33%
STAT6(Stat)/Macrophage-Stat6-ChIP-Seq(GSE38377)/Homer	TTCCKNAGAA	1e0	-6.926e-02	1.0000	37.0	1.23%	38.7	1.73%
CEBP(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	ATTGCGCAAC	1e0	-6.869e-02	1.0000	67.0	2.23%	64.2	2.86%
LXRE(NR),DR4/RAW-LXRb.biotin-ChIP-Seq(GSE21512)/Homer	RGGTTACTANAGGTCA	1e0	-6.409e-02	1.0000	10.0	0.33%	13.4	0.60%
ZNF519(Zf)/HEK293-ZNF519.GFP-ChIP-Seq(GSE58341)/Homer	GAGSCCGAGC	1e0	-6.291e-02	1.0000	31.0	1.03%	33.4	1.49%
IBL1(bHLH)/Seedling-IBL1-ChIP-Seq(GSE51120)/Homer	CACGTGCC	1e0	-6.165e-02	1.0000	179.0	5.97%	157.0	6.99%
Atf7(bZIP)/3T3L1-Atf7-ChIP-Seq(GSE56872)/Homer	NGRTGACGTCAY	1e0	-5.976e-02	1.0000	33.0	1.10%	35.9	1.60%
Brachyury(T-box)/Mesoendoderm-Brachyury-ChIP-exo(GSE54963)/Homer	ANTTMRCASBNNNGTGYKAAN	1e0	-5.674e-02	1.0000	23.0	0.77%	26.5	1.18%
Mef2d(MADS)/Retina-Mef2d-ChIP-Seq(GSE61391)/Homer	GCTATTTTTAGC	1e0	-5.597e-02	1.0000	6.0	0.20%	9.4	0.42%
ABF1/SacCer-Promoters/Homer	CGTRNAAARTGA	1e0	-5.160e-02	1.0000	5.0	0.17%	8.6	0.38%
Mef2a(MADS)/HL1-Mef2a.biotin-ChIP-Seq(GSE21529)/Homer	CYAAAAATAG	1e0	-4.783e-02	1.0000	31.0	1.03%	34.3	1.53%
E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer	VDTTTCCCGCCA	1e0	-4.040e-02	1.0000	9.0	0.30%	13.6	0.61%
ZNF136(Zf)/HEK293-ZNF136.GFP-ChIP-Seq(GSE58341)/Homer	YTKGATAHAGTATTCTWGGTNGGCA	1e0	-3.409e-02	1.0000	1.0	0.03%	3.4	0.15%
ISRE(IRF)/ThioMac-LPS-Expression(GSE23622)/Homer	AGTTTCASTTTC	1e0	-3.409e-02	1.0000	1.0	0.03%	3.2	0.14%
LIN-39(Homeobox)/cElegans.L3-LIN39-ChIP-Seq(modEncode)/Homer	ATGATTRATG	1e0	-2.603e-02	1.0000	115.0	3.83%	110.0	4.90%
p63(p53)/Keratinocyte-p63-ChIP-Seq(GSE17611)/Homer	NNDRCATGYCYNRRCATGYH	1e0	-2.084e-02	1.0000	27.0	0.90%	34.0	1.51%
ZNF189(Zf)/HEK293-ZNF189.GFP-ChIP-Seq(GSE58341)/Homer	TGGAACAGMA	1e0	-1.993e-02	1.0000	57.0	1.90%	61.8	2.75%
LHY(Myb)/Seedling-LHY-ChIP-Seq(GSE52175)/Homer	ADAAATATCT	1e0	-1.958e-02	1.0000	47.0	1.57%	52.8	2.35%
ZNF416(Zf)/HEK293-ZNF416.GFP-ChIP-Seq(GSE58341)/Homer	WDNCTGGGCA	1e0	-1.695e-02	1.0000	150.0	5.00%	142.7	6.35%
Mef2c(MADS)/GM12878-Mef2c-ChIP-Seq(GSE32465)/Homer	DCYAAAAATAGM	1e0	-1.433e-02	1.0000	17.0	0.57%	24.3	1.08%
CES-1(Homeobox)/cElegans-L1-CES1-ChIP-Seq(modEncode)/Homer	AAATTSAATTTN	1e0	-1.392e-02	1.0000	35.0	1.17%	42.1	1.88%
Srebp2(bHLH)/HepG2-Srebp2-ChIP-Seq(GSE31477)/Homer	CGGTCACSCCAC	1e0	-1.319e-02	1.0000	14.0	0.47%	21.5	0.96%
Pax7(Paired,Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCAATTA	1e0	-1.123e-02	1.0000	6.0	0.20%	13.0	0.58%
Atf1(bZIP)/K562-ATF1-ChIP-Seq(GSE31477)/Homer	GATGACGTCA	1e0	-7.233e-03	1.0000	39.0	1.30%	48.3	2.15%
NPAS2(bHLH)/Liver-NPAS2-ChIP-Seq(GSE39860)/Homer	KCCACGTGAC	1e0	-6.175e-03	1.0000	65.0	2.17%	74.0	3.29%
Smad3(MAD)/NPC-Smad3-ChIP-Seq(GSE36673)/Homer	TWGTCTGV	1e0	-5.456e-03	1.0000	281.0	9.37%	258.4	11.51%
HRE(HSF)/Striatum-HSF1-ChIP-Seq(GSE38000)/Homer	TTCTAGAABNTTCTA	1e0	-5.101e-03	1.0000	5.0	0.17%	12.8	0.57%
Mef2b(MADS)/HEK293-Mef2b.V5-ChIP-Seq(GSE67450)/Homer	GCTATTTTTGGM	1e0	-4.826e-03	1.0000	48.0	1.60%	58.5	2.61%
KLF5(Zf)/LoVo-KLF5-ChIP-Seq(GSE49402)/Homer	DGGGYGKGGC	1e0	-4.699e-03	1.0000	159.0	5.30%	158.0	7.04%
NF1-halfsite(CTF)/LNCaP-NF1-ChIP-Seq(Unpublished)/Homer	YTGCCAAG	1e0	-4.335e-03	1.0000	220.0	7.33%	209.2	9.31%
Nr5a2(NR)/Pancreas-LRH1-ChIP-Seq(GSE34295)/Homer	BTCAAGGTCA	1e0	-3.465e-03	1.0000	51.0	1.70%	62.1	2.77%
Tbet(T-box)/CD8-Tbet-ChIP-Seq(GSE33802)/Homer	AGGTGTGAAM	1e0	-3.131e-03	1.0000	85.0	2.83%	94.2	4.20%
SFP1/SacCer-Promoters/Homer	DDAAAAATTTTY	1e0	-2.621e-03	1.0000	1.0	0.03%	6.3	0.28%
Tlx?(NR)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	CTGGCAGSCTGCCA	1e0	-2.002e-03	1.0000	40.0	1.33%	53.5	2.38%
Esrrb(NR)/mES-Esrrb-ChIP-Seq(GSE11431)/Homer	KTGACCTTGA	1e0	-1.435e-03	1.0000	45.0	1.50%	59.7	2.66%
KANADI1(Myb)/Seedling-KAN1-ChIP-Seq(GSE48081)/Homer	ARGAATAWWN	1e0	-1.274e-03	1.0000	61.0	2.03%	75.2	3.35%
Hnf1(Homeobox)/Liver-Foxa2-Chip-Seq(GSE25694)/Homer	GGTTAAWCATTAA	1e0	-1.010e-03	1.0000	4.0	0.13%	13.8	0.61%
Tbx5(T-box)/HL1-Tbx5.biotin-ChIP-Seq(GSE21529)/Homer	AGGTGTCA	1e0	-7.650e-04	1.0000	394.0	13.13%	364.1	16.21%
E2F(E2F)/Hela-CellCycle-Expression/Homer	TTSGCGCGAAAA	1e0	-2.950e-04	1.0000	3.0	0.10%	13.6	0.60%
PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer	ADGGYAGYAGCATCT	1e0	-2.460e-04	1.0000	41.0	1.37%	60.6	2.70%
SEP3(MADS)/Arabidoposis-Flower-Sep3-ChIP-Seq/Homer	CCAAAAAGGG	1e0	-2.330e-04	1.0000	81.0	2.70%	100.0	4.45%
Nr5a2(NR)/mES-Nr5a2-ChIP-Seq(GSE19019)/Homer	BTCAAGGTCA	1e0	-1.990e-04	1.0000	33.0	1.10%	52.3	2.33%
Sp1(Zf)/Promoter/Homer	GGCCCCGCCCCC	1e0	-7.000e-05	1.0000	54.0	1.80%	77.6	3.45%
NF1(CTF)/LNCAP-NF1-ChIP-Seq(Unpublished)/Homer	CYTGGCABNSTGCCAR	1e0	-1.500e-05	1.0000	26.0	0.87%	50.0	2.23%
NRF1(NRF)/MCF7-NRF1-ChIP-Seq(Unpublished)/Homer	CTGCGCATGCGC	1e0	-2.000e-06	1.0000	15.0	0.50%	40.5	1.80%
NRF(NRF)/Promoter/Homer	STGCGCATGCGC	1e0	-0.000e+00	1.0000	17.0	0.57%	46.3	2.06%
RLR1?/SacCer-Promoters/Homer	WTTTTCYYTTTT	1e0	-0.000e+00	1.0000	15.0	0.50%	45.3	2.02%
SeqBias: TA-repeat	TATATATATA	1e0	-0.000e+00	1.0000	150.0	5.00%	221.9	9.88%
ZNF528(Zf)/HEK293-ZNF528.GFP-ChIP-Seq(GSE58341)/Homer	AGAAATGACTTCCCT	1e0	0.000e+00	1.0000	0.0	0.00%	0.1	0.00%
p53(p53)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	ACATGCCCGGGCAT	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%
DREF/Drosophila-Promoters/Homer	AVYTATCGATAD	1e0	0.000e+00	1.0000	0.0	0.00%	0.7	0.03%
 Ik-1	NHTTGGGAATRCC	1e0	0.000e+00	1.0000	3000.0	100.00%	2245.6	100.00%
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%
ZFP3(Zf)/HEK293-ZFP3.GFP-ChIP-Seq(GSE58341)/Homer	GGGTTTTGAAGGATGARTAGGAGTT	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%