Motif Name	Consensus	P-value	Log P-value	q-value (Benjamini)	# of Target Sequences with Motif(of 3824)	% of Target Sequences with Motif	# of Background Sequences with Motif(of 3973)	% of Background Sequences with Motif
Oct2(POU,Homeobox)/Bcell-Oct2-ChIP-Seq(GSE21512)/Homer	ATATGCAAAT	1e-5	-1.163e+01	0.0035	91.0	2.38%	44.9	1.13%
FOXA1(Forkhead)/MCF7-FOXA1-ChIP-Seq(GSE26831)/Homer	WAAGTAAACA	1e-3	-8.536e+00	0.0380	258.0	6.76%	194.2	4.86%
FOXA1(Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WAAGTAAACA	1e-3	-8.212e+00	0.0380	298.0	7.81%	232.6	5.83%
GABPA(ETS)/Jurkat-GABPa-ChIP-Seq(GSE17954)/Homer	RACCGGAAGT	1e-3	-7.209e+00	0.0716	98.0	2.57%	61.2	1.53%
FOXM1(Forkhead)/MCF7-FOXM1-ChIP-Seq(GSE72977)/Homer	TRTTTACTTW	1e-3	-6.919e+00	0.0765	245.0	6.42%	191.4	4.80%
Mef2c(MADS)/GM12878-Mef2c-ChIP-Seq(GSE32465)/Homer	DCYAAAAATAGM	1e-2	-6.669e+00	0.0819	129.0	3.38%	89.3	2.24%
ELT-3(Gata)/cElegans-L1-ELT3-ChIP-Seq(modEncode)/Homer	AWTGATAAGA	1e-2	-5.939e+00	0.1457	122.0	3.20%	86.2	2.16%
PAX5(Paired,Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GCAGCCAAGCRTGACH	1e-2	-5.862e+00	0.1457	41.0	1.07%	20.2	0.50%
ETV1(ETS)/GIST48-ETV1-ChIP-Seq(GSE22441)/Homer	AACCGGAAGT	1e-2	-5.755e+00	0.1457	174.0	4.56%	133.9	3.35%
PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	MGGAAGTGAAAC	1e-2	-5.720e+00	0.1457	198.0	5.19%	155.7	3.90%
Brn1(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	TATGCWAATBAV	1e-2	-5.471e+00	0.1481	80.0	2.10%	52.0	1.30%
Mef2a(MADS)/HL1-Mef2a.biotin-ChIP-Seq(GSE21529)/Homer	CYAAAAATAG	1e-2	-5.079e+00	0.2009	121.0	3.17%	89.9	2.25%
SeqBias: GA-repeat	GAGAGAGAGA	1e-2	-4.986e+00	0.2035	1270.0	33.27%	1223.7	30.65%
Unknown6/Drosophila-Promoters/Homer	AATTTTAAAA	1e-2	-4.918e+00	0.2035	278.0	7.28%	235.6	5.90%
PHA-4(Forkhead)/cElegans-Embryos-PHA4-ChIP-Seq(modEncode)/Homer	KTGTTTGC	1e-2	-4.878e+00	0.2035	699.0	18.31%	647.1	16.21%
THRa(NR)/C17.2-THRa-ChIP-Seq(GSE38347)/Homer	GGTCANYTGAGGWCA	1e-2	-4.872e+00	0.2035	57.0	1.49%	35.5	0.89%
FoxL2(Forkhead)/Ovary-FoxL2-ChIP-Seq(GSE60858)/Homer	WWTRTAAACAVG	1e-2	-4.754e+00	0.2035	212.0	5.55%	174.3	4.37%
Oct6(POU,Homeobox)/NPC-Oct6-ChIP-Seq(GSE35496)/Homer	WATGCAAATGAG	1e-1	-4.326e+00	0.2842	91.0	2.38%	66.2	1.66%
Mef2b(MADS)/HEK293-Mef2b.V5-ChIP-Seq(GSE67450)/Homer	GCTATTTTTGGM	1e-1	-4.229e+00	0.2966	207.0	5.42%	173.9	4.36%
Gata4(Zf)/Heart-Gata4-ChIP-Seq(GSE35151)/Homer	NBWGATAAGR	1e-1	-4.197e+00	0.2966	194.0	5.08%	161.6	4.05%
CLOCK(bHLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer	GHCACGTG	1e-1	-4.169e+00	0.2966	59.0	1.55%	39.9	1.00%
ZNF467(Zf)/HEK293-ZNF467.GFP-ChIP-Seq(GSE58341)/Homer	TGGGGAAGGGCM	1e-1	-4.123e+00	0.2966	82.0	2.15%	59.3	1.48%
Etv2(ETS)/ES-ER71-ChIP-Seq(GSE59402)/Homer(0.967)	NNAYTTCCTGHN	1e-1	-4.072e+00	0.2966	112.0	2.93%	86.4	2.16%
PABPC1(?)/MEL-PABC1-CLIP-Seq(GSE69755)/Homer	HAATAAAGNN	1e-1	-4.029e+00	0.2966	555.0	14.54%	514.6	12.89%
KLF5(Zf)/LoVo-KLF5-ChIP-Seq(GSE49402)/Homer	DGGGYGKGGC	1e-1	-3.986e+00	0.2966	117.0	3.07%	91.8	2.30%
Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer	GGGGGGGG	1e-1	-3.974e+00	0.2966	107.0	2.80%	82.9	2.08%
Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer	TGCGTGGGYG	1e-1	-3.615e+00	0.3859	46.0	1.21%	30.5	0.76%
Unknown4/Drosophila-Promoters/Homer	AAAAATACCRMA	1e-1	-3.587e+00	0.3859	35.0	0.92%	21.5	0.54%
Oct4(POU,Homeobox)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAW	1e-1	-3.563e+00	0.3859	110.0	2.88%	87.8	2.20%
GAGA-repeat/SacCer-Promoters/Homer	CTYTCTYTCTCTCTC	1e-1	-3.537e+00	0.3859	808.0	21.17%	775.5	19.43%
KLF14(Zf)/HEK293-KLF14.GFP-ChIP-Seq(GSE58341)/Homer	RGKGGGCGKGGC	1e-1	-3.521e+00	0.3859	157.0	4.11%	131.7	3.30%
GATA3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATAASR	1e-1	-3.515e+00	0.3859	317.0	8.30%	286.0	7.16%
HIF-1b(HLH)/T47D-HIF1b-ChIP-Seq(GSE59937)/Homer	RTACGTGC	1e-1	-3.433e+00	0.3859	107.0	2.80%	86.0	2.15%
NFAT:AP1(RHD,bZIP)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	SARTGGAAAAWRTGAGTCAB	1e-1	-3.364e+00	0.3940	28.0	0.73%	16.5	0.41%
GSC(Homeobox)/FrogEmbryos-GSC-ChIP-Seq(DRA000576)/Homer	RGGATTAR	1e-1	-3.322e+00	0.3989	318.0	8.33%	288.1	7.22%
Atf7(bZIP)/3T3L1-Atf7-ChIP-Seq(GSE56872)/Homer	NGRTGACGTCAY	1e-1	-3.284e+00	0.4031	72.0	1.89%	54.9	1.38%
FOXA1:AR(Forkhead,NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	AGTAAACAAAAAAGAACAND	1e-1	-3.275e+00	0.4031	20.0	0.52%	10.6	0.26%
c-Jun-CRE(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	ATGACGTCATCY	1e-1	-3.139e+00	0.4411	44.0	1.15%	30.2	0.76%
SeqBias: CA-repeat	CACACACACA	1e-1	-3.103e+00	0.4456	960.0	25.15%	938.0	23.50%
Sox6(HMG)/Myotubes-Sox6-ChIP-Seq(GSE32627)/Homer	CCATTGTTNY	1e-1	-3.097e+00	0.4456	287.0	7.52%	260.1	6.52%
Nr5a2(NR)/mES-Nr5a2-ChIP-Seq(GSE19019)/Homer	BTCAAGGTCA	1e-1	-3.064e+00	0.4456	39.0	1.02%	26.9	0.67%
Sox2(HMG)/mES-Sox2-ChIP-Seq(GSE11431)/Homer	BCCATTGTTC	1e-1	-3.043e+00	0.4456	148.0	3.88%	126.8	3.18%
ZNF519(Zf)/HEK293-ZNF519.GFP-ChIP-Seq(GSE58341)/Homer	GAGSCCGAGC	1e-1	-3.038e+00	0.4456	18.0	0.47%	9.3	0.23%
Gata1(Zf)/K562-GATA1-ChIP-Seq(GSE18829)/Homer	SAGATAAGRV	1e-1	-3.034e+00	0.4456	99.0	2.59%	80.5	2.02%
JunD(bZIP)/K562-JunD-ChIP-Seq/Homer	ATGACGTCATCN	1e-1	-3.005e+00	0.4456	11.0	0.29%	4.4	0.11%
Cbf1(bHLH)/Yeast-Cbf1-ChIP-Seq(GSE29506)/Homer	TCACGTGAYH	1e-1	-3.003e+00	0.4456	28.0	0.73%	17.4	0.44%
c-Myc(bHLH)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	VVCCACGTGG	1e-1	-2.972e+00	0.4456	49.0	1.28%	35.8	0.90%
IBL1(bHLH)/Seedling-IBL1-ChIP-Seq(GSE51120)/Homer	CACGTGCC	1e-1	-2.917e+00	0.4456	171.0	4.48%	149.2	3.74%
EHF(ETS)/LoVo-EHF-ChIP-Seq(GSE49402)/Homer	AVCAGGAAGT	1e-1	-2.908e+00	0.4456	173.0	4.53%	151.7	3.80%
Pax8(Paired,Homeobox)/Thyroid-Pax8-ChIP-Seq(GSE26938)/Homer	GTCATGCHTGRCTGS	1e-1	-2.889e+00	0.4456	30.0	0.79%	19.5	0.49%
ZNF41(Zf)/HEK293-ZNF41.GFP-ChIP-Seq(GSE58341)/Homer	CCTCATGGTGYCYTWYTCCCTTGTG	1e-1	-2.864e+00	0.4456	4.0	0.10%	0.8	0.02%
Atf2(bZIP)/3T3L1-Atf2-ChIP-Seq(GSE56872)/Homer	NRRTGACGTCAT	1e-1	-2.827e+00	0.4456	38.0	1.00%	26.9	0.67%
Pax7(Paired,Homeobox),long/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCHGATTAC	1e-1	-2.818e+00	0.4456	12.0	0.31%	5.8	0.15%
Bcl6(Zf)/Liver-Bcl6-ChIP-Seq(GSE31578)/Homer	NNNCTTTCCAGGAAA	1e-1	-2.804e+00	0.4456	201.0	5.27%	179.7	4.50%
ERG(ETS)/VCaP-ERG-ChIP-Seq(GSE14097)/Homer	ACAGGAAGTG	1e-1	-2.784e+00	0.4456	208.0	5.45%	186.6	4.68%
Gata2(Zf)/K562-GATA2-ChIP-Seq(GSE18829)/Homer	BBCTTATCTS	1e-1	-2.763e+00	0.4456	111.0	2.91%	93.8	2.35%
PQM-1(?)/cElegans-L3-ChIP-Seq(modEncode)/Homer	ACTGATAAGA	1e-1	-2.743e+00	0.4456	82.0	2.15%	66.1	1.66%
Unknown5/Drosophila-Promoters/Homer	GCTGATAASV	1e-1	-2.731e+00	0.4456	83.0	2.17%	67.9	1.70%
Sox3(HMG)/NPC-Sox3-ChIP-Seq(GSE33059)/Homer	CCWTTGTY	1e-1	-2.717e+00	0.4456	306.0	8.02%	283.4	7.10%
SeqBias: G/A bias	RRRRRRRRRR	1e-1	-2.669e+00	0.4472	3737.0	97.90%	3886.8	97.36%
OCT4-SOX2-TCF-NANOG(POU,Homeobox,HMG)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAACAATG	1e-1	-2.665e+00	0.4472	43.0	1.13%	31.3	0.78%
CRX(Homeobox)/Retina-Crx-ChIP-Seq(GSE20012)/Homer	GCTAATCC	1e-1	-2.656e+00	0.4472	539.0	14.12%	517.1	12.95%
Fli1(ETS)/CD8-FLI-ChIP-Seq(GSE20898)/Homer	NRYTTCCGGH	1e-1	-2.594e+00	0.4588	115.0	3.01%	98.4	2.46%
Pax7(Paired,Homeobox),longest/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	NTAATTDGCYAATTANNWWD	1e-1	-2.567e+00	0.4640	10.0	0.26%	4.6	0.12%
Cdx2(Homeobox)/mES-Cdx2-ChIP-Seq(GSE14586)/Homer	GYMATAAAAH	1e-1	-2.544e+00	0.4677	182.0	4.77%	163.1	4.09%
bZIP:IRF(bZIP,IRF)/Th17-BatF-ChIP-Seq(GSE39756)/Homer	NAGTTTCABTHTGACTNW	1e-1	-2.467e+00	0.4975	94.0	2.46%	79.7	2.00%
caudal(Homeobox)/Drosophila-Embryos-ChIP-Chip(modEncode)/Homer	GGYCATAAAW	1e-1	-2.428e+00	0.5096	188.0	4.93%	170.9	4.28%
Bapx1(Homeobox)/VertebralCol-Bapx1-ChIP-Seq(GSE36672)/Homer	TTRAGTGSYK	1e-1	-2.325e+00	0.5564	380.0	9.96%	362.1	9.07%
ZNF136(Zf)/HEK293-ZNF136.GFP-ChIP-Seq(GSE58341)/Homer	YTKGATAHAGTATTCTWGGTNGGCA	1e0	-2.295e+00	0.5570	23.0	0.60%	15.3	0.38%
bHLHE40(bHLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer	KCACGTGMCN	1e0	-2.295e+00	0.5570	23.0	0.60%	15.1	0.38%
Sox4(HMG)/proB-Sox4-ChIP-Seq(GSE50066)/Homer	YCTTTGTTCC	1e0	-2.290e+00	0.5570	125.0	3.27%	110.3	2.76%
Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo_et_al.)/Homer	TBGCACGCAA	1e0	-2.280e+00	0.5570	51.0	1.34%	40.0	1.00%
Brn2(POU,Homeobox)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATATTC	1e0	-2.251e+00	0.5582	24.0	0.63%	16.5	0.41%
Sox10(HMG)/SciaticNerve-Sox3-ChIP-Seq(GSE35132)/Homer	CCWTTGTYYB	1e0	-2.251e+00	0.5582	271.0	7.10%	254.2	6.37%
Foxo1(Forkhead)/RAW-Foxo1-ChIP-Seq(Fan_et_al.)/Homer	CTGTTTAC	1e0	-2.247e+00	0.5582	288.0	7.55%	271.7	6.81%
Unknown1/Arabidopsis-Promoters/Homer	RGGGTAWWWTHGTAA	1e0	-2.227e+00	0.5582	18.0	0.47%	11.9	0.30%
Pit1+1bp(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGCATAATTCA	1e0	-2.226e+00	0.5582	88.0	2.31%	75.1	1.88%
MITF(bHLH)/MastCells-MITF-ChIP-Seq(GSE48085)/Homer	RTCATGTGAC	1e0	-2.196e+00	0.5582	119.0	3.12%	105.7	2.65%
SeqBias: TA-repeat	TATATATATA	1e0	-2.182e+00	0.5582	1135.0	29.74%	1136.7	28.47%
GATA(Zf),IR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NAGATWNBNATCTNN	1e0	-2.117e+00	0.5821	14.0	0.37%	8.2	0.20%
RBPJ:Ebox(?,bHLH)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	GGGRAARRGRMCAGMTG	1e0	-2.082e+00	0.5959	29.0	0.76%	21.7	0.54%
PRDM1(Zf)/Hela-PRDM1-ChIP-Seq(GSE31477)/Homer	ACTTTCACTTTC	1e0	-2.064e+00	0.5991	93.0	2.44%	81.1	2.03%
PAX6(Paired,Homeobox)/Forebrain-Pax6-ChIP-Seq(GSE66961)/Homer	NGTGTTCAVTSAAGCGKAAA	1e0	-2.050e+00	0.6003	15.0	0.39%	9.6	0.24%
CHR(?)/Hela-CellCycle-Expression/Homer	SRGTTTCAAA	1e0	-2.035e+00	0.6019	136.0	3.56%	124.0	3.11%
p53(p53)/Saos-p53-ChIP-Seq(GSE15780)/Homer	RRCATGYCYRGRCATGYYYN	1e0	-2.032e+00	0.6019	10.0	0.26%	5.5	0.14%
p53(p53)/Saos-p53-ChIP-Seq/Homer	RRCATGYCYRGRCATGYYYN	1e0	-2.032e+00	0.6019	10.0	0.26%	5.5	0.14%
LHY(Myb)/Seedling-LHY-ChIP-Seq(GSE52175)/Homer	ADAAATATCT	1e0	-2.026e+00	0.6019	236.0	6.18%	222.3	5.57%
ZNF415(Zf)/HEK293-ZNF415.GFP-ChIP-Seq(GSE58341)/Homer	GRTGMTRGAGCC	1e0	-2.019e+00	0.6019	43.0	1.13%	34.9	0.87%
HIF2a(bHLH)/785_O-HIF2a-ChIP-Seq(GSE34871)/Homer	GCACGTACCC	1e0	-1.987e+00	0.6019	33.0	0.86%	25.3	0.63%
Sox15(HMG)/CPA-Sox15-ChIP-Seq(GSE62909)/Homer	RAACAATGGN	1e0	-1.958e+00	0.6068	201.0	5.27%	188.4	4.72%
ZNF416(Zf)/HEK293-ZNF416.GFP-ChIP-Seq(GSE58341)/Homer	WDNCTGGGCA	1e0	-1.893e+00	0.6407	169.0	4.43%	157.3	3.94%
EWS:ERG-fusion(ETS)/CADO_ES1-EWS:ERG-ChIP-Seq(SRA014231)/Homer	ATTTCCTGTN	1e0	-1.892e+00	0.6407	107.0	2.80%	96.3	2.41%
X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	GGTTGCCATGGCAA	1e0	-1.866e+00	0.6441	12.0	0.31%	7.4	0.18%
FXR(NR),IR1/Liver-FXR-ChIP-Seq(Chong_et_al.)/Homer	AGGTCANTGACCTB	1e0	-1.845e+00	0.6508	42.0	1.10%	34.3	0.86%
GRHL2(CP2)/HBE-GRHL2-ChIP-Seq(GSE46194)/Homer	AAACYKGTTWDACMRGTTTB	1e0	-1.833e+00	0.6516	43.0	1.13%	35.6	0.89%
Pknox1(Homeobox)/ES-Prep1-ChIP-Seq(GSE63282)/Homer	SCTGTCAVTCAV	1e0	-1.826e+00	0.6516	30.0	0.79%	23.8	0.60%
Pit1(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGMATATDC	1e0	-1.815e+00	0.6516	275.0	7.20%	264.9	6.64%
Zelda(Zf)/Embryo-zld-ChIP-Seq(GSE65441)/Homer	KBCTACCTGW	1e0	-1.782e+00	0.6646	48.0	1.26%	40.0	1.00%
EFL-1(E2F)/cElegans-L1-EFL1-ChIP-Seq(modEncode)/Homer	TGCAARYGCGCTCYA	1e0	-1.750e+00	0.6726	4.0	0.10%	1.3	0.03%
p53(p53)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	ACATGCCCGGGCAT	1e0	-1.750e+00	0.6726	4.0	0.10%	1.3	0.03%
NPAS2(bHLH)/Liver-NPAS2-ChIP-Seq(GSE39860)/Homer	KCCACGTGAC	1e0	-1.736e+00	0.6753	141.0	3.69%	131.1	3.28%
AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	VTGACTCATC	1e0	-1.700e+00	0.6931	95.0	2.49%	86.6	2.17%
Mouse_Recombination_Hotspot(Zf)/Testis-DMC1-ChIP-Seq(GSE24438)/Homer	ACTYKNATTCGTGNTACTTC	1e0	-1.674e+00	0.7047	16.0	0.42%	11.6	0.29%
E2F1(E2F)/Hela-E2F1-ChIP-Seq(GSE22478)/Homer	CWGGCGGGAA	1e0	-1.671e+00	0.7047	9.0	0.24%	5.5	0.14%
SPDEF(ETS)/VCaP-SPDEF-ChIP-Seq(SRA014231)/Homer	ASWTCCTGBT	1e0	-1.650e+00	0.7077	134.0	3.51%	125.2	3.14%
ERE(NR),IR3/MCF7-ERa-ChIP-Seq(Unpublished)/Homer	VAGGTCACNSTGACC	1e0	-1.641e+00	0.7077	17.0	0.45%	12.8	0.32%
Pitx1(Homeobox)/Chicken-Pitx1-ChIP-Seq(GSE38910)/Homer	TAATCCCN	1e0	-1.640e+00	0.7077	957.0	25.07%	966.9	24.22%
ELF5(ETS)/T47D-ELF5-ChIP-Seq(GSE30407)/Homer	ACVAGGAAGT	1e0	-1.637e+00	0.7077	75.0	1.96%	67.8	1.70%
SUT1?/SacCer-Promoters/Homer	CCCCGCGC	1e0	-1.616e+00	0.7077	646.0	16.92%	646.6	16.20%
MafK(bZIP)/C2C12-MafK-ChIP-Seq(GSE36030)/Homer	GCTGASTCAGCA	1e0	-1.588e+00	0.7192	19.0	0.50%	14.7	0.37%
Hoxc9(Homeobox)/Ainv15-Hoxc9-ChIP-Seq(GSE21812)/Homer	GGCCATAAATCA	1e0	-1.587e+00	0.7192	99.0	2.59%	92.0	2.30%
Ets1-distal(ETS)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	MACAGGAAGT	1e0	-1.561e+00	0.7253	35.0	0.92%	29.5	0.74%
EWS:FLI1-fusion(ETS)/SK_N_MC-EWS:FLI1-ChIP-Seq(SRA014231)/Homer	VACAGGAAAT	1e0	-1.551e+00	0.7261	63.0	1.65%	56.4	1.41%
Esrrb(NR)/mES-Esrrb-ChIP-Seq(GSE11431)/Homer	KTGACCTTGA	1e0	-1.548e+00	0.7261	64.0	1.68%	57.7	1.44%
IRF1(IRF)/PBMC-IRF1-ChIP-Seq(GSE43036)/Homer	GAAAGTGAAAGT	1e0	-1.545e+00	0.7261	21.0	0.55%	16.8	0.42%
Nkx3.1(Homeobox)/LNCaP-Nkx3.1-ChIP-Seq(GSE28264)/Homer	AAGCACTTAA	1e0	-1.543e+00	0.7261	375.0	9.82%	370.2	9.27%
AP-2alpha(AP2)/Hela-AP2alpha-ChIP-Seq(GSE31477)/Homer	ATGCCCTGAGGC	1e0	-1.539e+00	0.7261	67.0	1.76%	60.9	1.53%
Fra1(bZIP)/BT549-Fra1-ChIP-Seq(GSE46166)/Homer	NNATGASTCATH	1e0	-1.525e+00	0.7261	72.0	1.89%	65.9	1.65%
GRE(NR),IR3/RAW264.7-GRE-ChIP-Seq(Unpublished)/Homer	VAGRACAKWCTGTYC	1e0	-1.495e+00	0.7261	24.0	0.63%	19.4	0.49%
Klf9(Zf)/GBM-Klf9-ChIP-Seq(GSE62211)/Homer	GCCACRCCCACY	1e0	-1.495e+00	0.7261	24.0	0.63%	19.6	0.49%
Atf3(bZIP)/GBM-ATF3-ChIP-Seq(GSE33912)/Homer	DATGASTCATHN	1e0	-1.495e+00	0.7261	90.0	2.36%	83.9	2.10%
ETS1(ETS)/Jurkat-ETS1-ChIP-Seq(GSE17954)/Homer	ACAGGAAGTG	1e0	-1.479e+00	0.7261	115.0	3.01%	108.5	2.72%
Reverb(NR),DR2/RAW-Reverba.biotin-ChIP-Seq(GSE45914)/Homer	GTRGGTCASTGGGTCA	1e0	-1.477e+00	0.7261	13.0	0.34%	9.1	0.23%
Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer	SCCTAGCAACAG	1e0	-1.469e+00	0.7261	26.0	0.68%	21.5	0.54%
ZNF669(Zf)/HEK293-ZNF669.GFP-ChIP-Seq(GSE58341)/Homer	GARTGGTCATCGCCC	1e0	-1.460e+00	0.7261	6.0	0.16%	3.2	0.08%
Pbx3(Homeobox)/GM12878-PBX3-ChIP-Seq(GSE32465)/Homer	SCTGTCAMTCAN	1e0	-1.458e+00	0.7261	27.0	0.71%	22.7	0.57%
RLR1?/SacCer-Promoters/Homer	WTTTTCYYTTTT	1e0	-1.431e+00	0.7286	194.0	5.08%	188.5	4.72%
ELF1(ETS)/Jurkat-ELF1-ChIP-Seq(SRA014231)/Homer	AVCCGGAAGT	1e0	-1.428e+00	0.7286	30.0	0.79%	25.6	0.64%
Brachyury(T-box)/Mesoendoderm-Brachyury-ChIP-exo(GSE54963)/Homer	ANTTMRCASBNNNGTGYKAAN	1e0	-1.420e+00	0.7286	31.0	0.81%	26.4	0.66%
SpiB(ETS)/OCILY3-SPIB-ChIP-Seq(GSE56857)/Homer	AAAGRGGAAGTG	1e0	-1.405e+00	0.7305	33.0	0.86%	28.7	0.72%
Sp1(Zf)/Promoter/Homer	GGCCCCGCCCCC	1e0	-1.388e+00	0.7377	7.0	0.18%	4.4	0.11%
ZNF317(Zf)/HEK293-ZNF317.GFP-ChIP-Seq(GSE58341)/Homer	GTCWGCTGTYYCTCT	1e0	-1.336e+00	0.7710	8.0	0.21%	5.7	0.14%
BMYB(HTH)/Hela-BMYB-ChIP-Seq(GSE27030)/Homer	NHAACBGYYV	1e0	-1.309e+00	0.7857	203.0	5.32%	199.9	5.01%
Atf1(bZIP)/K562-ATF1-ChIP-Seq(GSE31477)/Homer	GATGACGTCA	1e0	-1.300e+00	0.7867	100.0	2.62%	95.5	2.39%
AP-2gamma(AP2)/MCF7-TFAP2C-ChIP-Seq(GSE21234)/Homer	SCCTSAGGSCAW	1e0	-1.300e+00	0.7867	81.0	2.12%	76.1	1.91%
ZNF165(Zf)/WHIM12-ZNF165-ChIP-Seq(GSE65937)/Homer	AAGGKGRCGCAGGCA	1e0	-1.296e+00	0.7867	9.0	0.24%	6.3	0.16%
PGR(NR)/EndoStromal-PGR-ChIP-Seq(GSE69539)/Homer	AAGAACATWHTGTTC	1e0	-1.248e+00	0.8106	32.0	0.84%	28.2	0.71%
PCF/Arabidopsis-Promoters/Homer	NNWWWTGGGCYTDDN	1e0	-1.244e+00	0.8106	33.0	0.86%	29.7	0.74%
Rbpj1(?)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	HTTTCCCASG	1e0	-1.225e+00	0.8177	183.0	4.79%	180.9	4.53%
Pho4(bHLH)/Yeast-Pho4-ChIP-Seq(GSE29506)/Homer	AAGCACGTGBGD	1e0	-1.221e+00	0.8177	12.0	0.31%	9.6	0.24%
KLF10(Zf)/HEK293-KLF10.GFP-ChIP-Seq(GSE58341)/Homer	GGGGGTGTGTCC	1e0	-1.212e+00	0.8177	47.0	1.23%	43.1	1.08%
n-Myc(bHLH)/mES-nMyc-ChIP-Seq(GSE11431)/Homer	VRCCACGTGG	1e0	-1.203e+00	0.8185	58.0	1.52%	54.2	1.36%
RUNX(Runt)/HPC7-Runx1-ChIP-Seq(GSE22178)/Homer	SAAACCACAG	1e0	-1.202e+00	0.8185	74.0	1.94%	70.9	1.78%
Srebp2(bHLH)/HepG2-Srebp2-ChIP-Seq(GSE31477)/Homer	CGGTCACSCCAC	1e0	-1.178e+00	0.8277	15.0	0.39%	13.0	0.32%
Phox2a(Homeobox)/Neuron-Phox2a-ChIP-Seq(GSE31456)/Homer	YTAATYNRATTA	1e0	-1.141e+00	0.8528	108.0	2.83%	105.2	2.63%
PU.1(ETS)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	AGAGGAAGTG	1e0	-1.094e+00	0.8880	52.0	1.36%	49.6	1.24%
USF1(bHLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer	SGTCACGTGR	1e0	-1.093e+00	0.8880	43.0	1.13%	40.9	1.02%
ZFX(Zf)/mES-Zfx-ChIP-Seq(GSE11431)/Homer	AGGCCTRG	1e0	-1.086e+00	0.8880	123.0	3.22%	122.0	3.06%
PAX5(Paired,Homeobox),condensed/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GTCACGCTCSCTGM	1e0	-1.081e+00	0.8880	5.0	0.13%	3.3	0.08%
Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer	GTTGCCATGGCAACM	1e0	-1.050e+00	0.9024	6.0	0.16%	4.4	0.11%
Foxa2(Forkhead)/Liver-Foxa2-ChIP-Seq(GSE25694)/Homer	CYTGTTTACWYW	1e0	-1.045e+00	0.9024	141.0	3.69%	140.9	3.53%
PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer	GSCTGTCACTCA	1e0	-1.029e+00	0.9097	7.0	0.18%	6.0	0.15%
Egr2(Zf)/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer	NGCGTGGGCGGR	1e0	-1.014e+00	0.9178	8.0	0.21%	7.0	0.18%
RBFox2(?)/Heart-RBFox2-CLIP-Seq(GSE57926)/Homer	TGCATGCA	1e0	-1.012e+00	0.9178	293.0	7.68%	297.2	7.45%
Max(bHLH)/K562-Max-ChIP-Seq(GSE31477)/Homer	RCCACGTGGYYN	1e0	-1.002e+00	0.9178	62.0	1.62%	60.7	1.52%
Nr5a2(NR)/Pancreas-LRH1-ChIP-Seq(GSE34295)/Homer	BTCAAGGTCA	1e0	-1.001e+00	0.9178	61.0	1.60%	59.4	1.49%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	AGGTCAAGGTCA	1e0	-9.862e-01	0.9194	11.0	0.29%	9.6	0.24%
Tal1	CATCTG	1e0	-9.853e-01	0.9194	178.0	4.66%	179.9	4.51%
Unknown2/Drosophila-Promoters/Homer	CATCMCTA	1e0	-9.815e-01	0.9194	140.0	3.67%	140.7	3.52%
Fox:Ebox(Forkhead,bHLH)/Panc1-Foxa2-ChIP-Seq(GSE47459)/Homer	NNNVCTGWGYAAACASN	1e0	-9.815e-01	0.9194	140.0	3.67%	140.1	3.51%
Trl(Zf)/S2-GAGAfactor-ChIP-Seq(GSE40646)/Homer	RGAGAGAG	1e0	-9.676e-01	0.9194	321.0	8.41%	327.5	8.20%
Fosl2(bZIP)/3T3L1-Fosl2-ChIP-Seq(GSE56872)/Homer	NATGASTCABNN	1e0	-9.672e-01	0.9194	33.0	0.86%	31.9	0.80%
ZNF143|STAF(Zf)/CUTLL-ZNF143-ChIP-Seq(GSE29600)/Homer	ATTTCCCAGVAKSCY	1e0	-9.655e-01	0.9194	31.0	0.81%	29.2	0.73%
Rfx1(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	KGTTGCCATGGCAA	1e0	-9.647e-01	0.9194	18.0	0.47%	16.7	0.42%
HIF-1a(bHLH)/MCF7-HIF1a-ChIP-Seq(GSE28352)/Homer	TACGTGCV	1e0	-9.637e-01	0.9194	19.0	0.50%	17.4	0.44%
p63(p53)/Keratinocyte-p63-ChIP-Seq(GSE17611)/Homer	NNDRCATGYCYNRRCATGYH	1e0	-9.636e-01	0.9194	28.0	0.73%	26.6	0.67%
RORgt(NR)/EL4-RORgt.Flag-ChIP-Seq(GSE56019)/Homer	AAYTAGGTCA	1e0	-9.630e-01	0.9194	20.0	0.52%	18.3	0.46%
LXRE(NR),DR4/RAW-LXRb.biotin-ChIP-Seq(GSE21512)/Homer	RGGTTACTANAGGTCA	1e0	-9.630e-01	0.9194	20.0	0.52%	18.1	0.45%
IRF:BATF(IRF:bZIP)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	CTTTCANTATGACTV	1e0	-9.626e-01	0.9194	26.0	0.68%	24.2	0.61%
c-Myc(bHLH)/LNCAP-cMyc-ChIP-Seq(Unpublished)/Homer	VCCACGTG	1e0	-9.626e-01	0.9194	26.0	0.68%	24.3	0.61%
PIF5ox(bHLH)/Arabidopsis-PIF5ox-ChIP-Seq(GSE35062)/Homer	BCACGTGVDN	1e0	-9.389e-01	0.9194	115.0	3.01%	115.7	2.90%
ZNF711(Zf)/SHSY5Y-ZNF711-ChIP-Seq(GSE20673)/Homer	AGGCCTAG	1e0	-9.255e-01	0.9194	174.0	4.56%	176.8	4.43%
SeqBias: CG-repeat	CGCGCGCGCG	1e0	-8.836e-01	0.9245	48.0	1.26%	47.8	1.20%
Tgif2(Homeobox)/mES-Tgif2-ChIP-Seq(GSE55404)/Homer	TGTCANYT	1e0	-8.704e-01	0.9315	536.0	14.04%	553.4	13.86%
Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq(GSE22178)/Homer	MAATCACTGC	1e0	-8.617e-01	0.9342	108.0	2.83%	109.8	2.75%
Usf2(bHLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer	GTCACGTGGT	1e0	-8.558e-01	0.9343	36.0	0.94%	35.3	0.89%
GAGA-repeat/Arabidopsis-Promoters/Homer	CTCTCTCTCY	1e0	-8.511e-01	0.9343	161.0	4.22%	164.4	4.12%
E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer	GGCGGGAARN	1e0	-8.483e-01	0.9343	33.0	0.86%	32.1	0.80%
SeqBias: C/A-bias	MMMMMMMMMM	1e0	-8.451e-01	0.9343	3649.0	95.60%	3811.1	95.47%
PIF4(bHLH)/Seedling-PIF4-ChIP-Seq(GSE35315)/Homer	NNBCACGTGN	1e0	-8.419e-01	0.9343	156.0	4.09%	159.0	3.98%
HOXA9(Homeobox)/HSC-Hoxa9-ChIP-Seq(GSE33509)/Homer	GGCCATAAATCA	1e0	-8.241e-01	0.9379	119.0	3.12%	121.5	3.04%
Dorsal(RHD)/Embryo-dl-ChIP-Seq(GSE65441)/Homer	GGGAAAAMCCCG	1e0	-8.178e-01	0.9386	22.0	0.58%	21.4	0.54%
MafF(bZIP)/HepG2-MafF-ChIP-Seq(GSE31477)/Homer	HWWGTCAGCAWWTTT	1e0	-8.138e-01	0.9386	56.0	1.47%	56.3	1.41%
ETS(ETS)/Promoter/Homer	AACCGGAAGT	1e0	-8.051e-01	0.9403	18.0	0.47%	17.1	0.43%
ZNF675(Zf)/HEK293-ZNF675.GFP-ChIP-Seq(GSE58341)/Homer	ARGAGGMCAAAATGW	1e0	-7.982e-01	0.9416	16.0	0.42%	15.2	0.38%
STAT5(Stat)/mCD4+-Stat5-ChIP-Seq(GSE12346)/Homer	RTTTCTNAGAAA	1e0	-7.915e-01	0.9429	48.0	1.26%	48.0	1.20%
TATA-box/Drosophila-Promoters/Homer	CTATAAAAGCSV	1e0	-7.833e-01	0.9456	12.0	0.31%	11.6	0.29%
Zfp809(Zf)/ES-Zfp809-ChIP-Seq(GSE70799)/Homer	GGGGCTYGKCTGGGA	1e0	-7.792e-01	0.9456	11.0	0.29%	10.5	0.26%
Erra(NR)/HepG2-Erra-ChIP-Seq(GSE31477)/Homer	CAAAGGTCAG	1e0	-7.777e-01	0.9456	223.0	5.84%	230.3	5.77%
GRE(NR),IR3/A549-GR-ChIP-Seq(GSE32465)/Homer	NRGVACABNVTGTYCY	1e0	-7.749e-01	0.9456	10.0	0.26%	9.9	0.25%
ZSCAN22(Zf)/HEK293-ZSCAN22.GFP-ChIP-Seq(GSE58341)/Homer	SMCAGTCWGAKGGAGGAGGC	1e0	-7.607e-01	0.9469	7.0	0.18%	6.1	0.15%
Mef2d(MADS)/Retina-Mef2d-ChIP-Seq(GSE61391)/Homer	GCTATTTTTAGC	1e0	-7.452e-01	0.9567	34.0	0.89%	34.2	0.86%
E-box(bHLH)/Promoter/Homer	SSGGTCACGTGA	1e0	-7.431e-01	0.9567	4.0	0.10%	3.6	0.09%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	RGGTCADNNAGAGGTCAV	1e0	-7.358e-01	0.9567	3.0	0.08%	2.4	0.06%
ZNF382(Zf)/HEK293-ZNF382.GFP-ChIP-Seq(GSE58341)/Homer	GNCTGTASTRNTGBCTCHTT	1e0	-7.271e-01	0.9567	2.0	0.05%	1.8	0.04%
OCT:OCT(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	ATGAATATTCATGAG	1e0	-7.271e-01	0.9567	2.0	0.05%	1.2	0.03%
Tcf3(HMG)/mES-Tcf3-ChIP-Seq(GSE11724)/Homer	ASWTCAAAGG	1e0	-7.251e-01	0.9567	29.0	0.76%	29.7	0.74%
E2F(E2F)/Hela-CellCycle-Expression/Homer	TTSGCGCGAAAA	1e0	-7.157e-01	0.9567	1.0	0.03%	0.0	0.00%
ZBTB33(Zf)/GM12878-ZBTB33-ChIP-Seq(GSE32465)/Homer	GGVTCTCGCGAGAAC	1e0	-7.157e-01	0.9567	1.0	0.03%	0.0	0.00%
ZFP3(Zf)/HEK293-ZFP3.GFP-ChIP-Seq(GSE58341)/Homer	GGGTTTTGAAGGATGARTAGGAGTT	1e0	-7.157e-01	0.9567	1.0	0.03%	0.0	0.00%
ZNF16(Zf)/HEK293-ZNF16.GFP-ChIP-Seq(GSE58341)/Homer	MACCTTCYATGGCTCCCTAKTGCCY	1e0	-7.157e-01	0.9567	1.0	0.03%	0.0	0.00%
GFX(?)/Promoter/Homer	ATTCTCGCGAGA	1e0	-7.157e-01	0.9567	1.0	0.03%	0.0	0.00%
LIN-15B(Zf)/cElegans-L3-LIN15B-ChIP-Seq(modEncode)/Homer	CARTGGAGCGCRYTTGCATT	1e0	-7.157e-01	0.9567	1.0	0.03%	0.0	0.00%
SPCH(bHLH)/Seedling-SPCH-ChIP-Seq(GSE57497)/Homer	WNBCACGTGA	1e0	-7.096e-01	0.9567	117.0	3.07%	121.9	3.05%
HNF4a(NR),DR1/HepG2-HNF4a-ChIP-Seq(GSE25021)/Homer	CARRGKBCAAAGTYCA	1e0	-7.034e-01	0.9567	47.0	1.23%	48.4	1.21%
Pho2(bHLH)/Yeast-Pho2-ChIP-Seq(GSE29506)/Homer	CCCACGTGCT	1e0	-6.970e-01	0.9567	23.0	0.60%	23.7	0.59%
E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer	GGCGGGAAAH	1e0	-6.917e-01	0.9567	22.0	0.58%	22.4	0.56%
Srebp1a(bHLH)/HepG2-Srebp1a-ChIP-Seq(GSE31477)/Homer	RTCACSCCAY	1e0	-6.862e-01	0.9567	21.0	0.55%	21.6	0.54%
STAT1(Stat)/HelaS3-STAT1-ChIP-Seq(GSE12782)/Homer	NATTTCCNGGAAAT	1e0	-6.766e-01	0.9567	40.0	1.05%	41.1	1.03%
ZNF322(Zf)/HEK293-ZNF322.GFP-ChIP-Seq(GSE58341)/Homer	GAGCCTGGTACTGWGCCTGR	1e0	-6.545e-01	0.9577	16.0	0.42%	16.3	0.41%
HEB(bHLH)/mES-Heb-ChIP-Seq(GSE53233)/Homer	VCAGCTGBNN	1e0	-6.442e-01	0.9631	213.0	5.58%	224.0	5.61%
SCL(bHLH)/HPC7-Scl-ChIP-Seq(GSE13511)/Homer	AVCAGCTG	1e0	-6.432e-01	0.9631	548.0	14.36%	574.8	14.40%
GLI3(Zf)/Limb-GLI3-ChIP-Chip(GSE11077)/Homer	CGTGGGTGGTCC	1e0	-6.392e-01	0.9631	14.0	0.37%	14.1	0.35%
Olig2(bHLH)/Neuron-Olig2-ChIP-Seq(GSE30882)/Homer	RCCATMTGTT	1e0	-6.338e-01	0.9631	248.0	6.50%	260.4	6.52%
SeqBias: CG bias	SSSSSSSSSS	1e0	-6.254e-01	0.9631	1063.0	27.85%	1115.0	27.93%
Foxh1(Forkhead)/hESC-FOXH1-ChIP-Seq(GSE29422)/Homer	NNTGTGGATTSS	1e0	-6.238e-01	0.9631	103.0	2.70%	108.5	2.72%
STAT4(Stat)/CD4-Stat4-ChIP-Seq(GSE22104)/Homer	NYTTCCWGGAAR	1e0	-6.194e-01	0.9631	140.0	3.67%	148.0	3.71%
E2A(bHLH)/proBcell-E2A-ChIP-Seq(GSE21978)/Homer	DNRCAGCTGY	1e0	-6.181e-01	0.9631	159.0	4.17%	167.9	4.21%
CRE(bZIP)/Promoter/Homer	CSGTGACGTCAC	1e0	-6.115e-01	0.9631	11.0	0.29%	11.3	0.28%
E-box/Arabidopsis-Promoters/Homer	GCCACGTG	1e0	-6.079e-01	0.9631	26.0	0.68%	27.8	0.70%
RUNX-AML(Runt)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	GCTGTGGTTW	1e0	-6.063e-01	0.9631	78.0	2.04%	82.2	2.06%
Tcf4(HMG)/Hct116-Tcf4-ChIP-Seq(SRA012054)/Homer	ASATCAAAGGVA	1e0	-5.954e-01	0.9631	57.0	1.49%	61.0	1.53%
Sox9(HMG)/Limb-SOX9-ChIP-Seq(GSE73225)/Homer	AGGVNCCTTTGT	1e0	-5.932e-01	0.9631	110.0	2.88%	116.0	2.91%
CES-1(Homeobox)/cElegans-L1-CES1-ChIP-Seq(modEncode)/Homer	AAATTSAATTTN	1e0	-5.927e-01	0.9631	147.0	3.85%	155.6	3.90%
Jun-AP1(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	GATGASTCATCN	1e0	-5.749e-01	0.9679	21.0	0.55%	22.4	0.56%
BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer	DATGASTCAT	1e0	-5.705e-01	0.9680	84.0	2.20%	89.0	2.23%
CEBP:AP1(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	DRTGTTGCAA	1e0	-5.704e-01	0.9680	119.0	3.12%	126.5	3.17%
EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer	NWGGGTGTGGCY	1e0	-5.674e-01	0.9680	20.0	0.52%	21.1	0.53%
NF-E2(bZIP)/K562-NFE2-ChIP-Seq(GSE31477)/Homer	GATGACTCAGCA	1e0	-5.406e-01	0.9715	6.0	0.16%	6.3	0.16%
TCFL2(HMG)/K562-TCF7L2-ChIP-Seq(GSE29196)/Homer	ACWTCAAAGG	1e0	-5.406e-01	0.9715	6.0	0.16%	6.4	0.16%
GATA:SCL(Zf,bHLH)/Ter119-SCL-ChIP-Seq(GSE18720)/Homer	CRGCTGBNGNSNNSAGATAA	1e0	-5.406e-01	0.9715	6.0	0.16%	7.0	0.18%
TR4(NR),DR1/Hela-TR4-ChIP-Seq(GSE24685)/Homer	GAGGTCAAAGGTCA	1e0	-5.406e-01	0.9715	6.0	0.16%	7.0	0.17%
TEAD2(TEA)/Py2T-Tead2-ChIP-Seq(GSE55709)/Homer	CCWGGAATGY	1e0	-5.251e-01	0.9825	70.0	1.83%	75.5	1.89%
Tgif1(Homeobox)/mES-Tgif1-ChIP-Seq(GSE55404)/Homer	YTGWCADY	1e0	-5.240e-01	0.9825	502.0	13.15%	531.8	13.32%
SeqBias: polyC-repeat	CCCCCCCCCC	1e0	-5.218e-01	0.9825	2846.0	74.56%	2985.0	74.77%
RFX(HTH)/K562-RFX3-ChIP-Seq(SRA012198)/Homer	CGGTTGCCATGGCAAC	1e0	-5.185e-01	0.9825	5.0	0.13%	5.8	0.14%
YY1(Zf)/Promoter/Homer	CAAGATGGCGGC	1e0	-5.185e-01	0.9825	5.0	0.13%	6.0	0.15%
ARE(NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	RGRACASNSTGTYCYB	1e0	-5.131e-01	0.9825	14.0	0.37%	15.0	0.38%
AMYB(HTH)/Testes-AMYB-ChIP-Seq(GSE44588)/Homer	TGGCAGTTGG	1e0	-4.995e-01	0.9826	190.0	4.98%	203.6	5.10%
SFP1/SacCer-Promoters/Homer	DDAAAAATTTTY	1e0	-4.894e-01	0.9885	34.0	0.89%	37.6	0.94%
AR-halfsite(NR)/LNCaP-AR-ChIP-Seq(GSE27824)/Homer	CCAGGAACAG	1e0	-4.662e-01	1.0000	450.0	11.79%	480.0	12.02%
EGL-5(Homeobox)/cElegans-L3-EGL5-ChIP-Seq(modEncode)/Homer	ATTTAATGGG	1e0	-4.601e-01	1.0000	355.0	9.30%	379.2	9.50%
RUNX1(Runt)/Jurkat-RUNX1-ChIP-Seq(GSE29180)/Homer	AAACCACARM	1e0	-4.595e-01	1.0000	123.0	3.22%	133.7	3.35%
ZNF189(Zf)/HEK293-ZNF189.GFP-ChIP-Seq(GSE58341)/Homer	TGGAACAGMA	1e0	-4.574e-01	1.0000	79.0	2.07%	86.6	2.17%
LIN-39(Homeobox)/cElegans.L3-LIN39-ChIP-Seq(modEncode)/Homer	ATGATTRATG	1e0	-4.566e-01	1.0000	283.0	7.41%	303.6	7.61%
Pax7(Paired,Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCAATTA	1e0	-4.522e-01	1.0000	18.0	0.47%	20.1	0.50%
Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer	GCCACACCCA	1e0	-4.514e-01	1.0000	28.0	0.73%	31.9	0.80%
MyoD(bHLH)/Myotube-MyoD-ChIP-Seq(GSE21614)/Homer	RRCAGCTGYTSY	1e0	-4.415e-01	1.0000	49.0	1.28%	54.8	1.37%
HOXA2(Homeobox)/mES-Hoxa2-ChIP-Seq(Donaldson_et_al.)/Homer	GYCATCMATCAT	1e0	-4.318e-01	1.0000	16.0	0.42%	18.3	0.46%
Unknown4/Arabidopsis-Promoters/Homer	CKTCKTCTTY	1e0	-4.266e-01	1.0000	110.0	2.88%	120.6	3.02%
E2A(bHLH),near_PU.1/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	NVCACCTGBN	1e0	-4.161e-01	1.0000	163.0	4.27%	177.6	4.45%
Znf263(Zf)/K562-Znf263-ChIP-Seq(GSE31477)/Homer	CVGTSCTCCC	1e0	-4.141e-01	1.0000	162.0	4.24%	176.4	4.42%
Tbx5(T-box)/HL1-Tbx5.biotin-ChIP-Seq(GSE21529)/Homer	AGGTGTCA	1e0	-4.086e-01	1.0000	486.0	12.73%	521.0	13.05%
Unknown-ESC-element(?)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	CACAGCAGGGGG	1e0	-4.021e-01	1.0000	41.0	1.07%	46.8	1.17%
BMAL1(bHLH)/Liver-Bmal1-ChIP-Seq(GSE39860)/Homer	GNCACGTG	1e0	-4.014e-01	1.0000	246.0	6.44%	266.1	6.67%
PR(NR)/T47D-PR-ChIP-Seq(GSE31130)/Homer	VAGRACAKNCTGTBC	1e0	-3.973e-01	1.0000	259.0	6.79%	280.5	7.03%
Unknown1(NR/Ini-like)/Drosophila-Promoters/Homer	MYGGTCACACTG	1e0	-3.969e-01	1.0000	21.0	0.55%	24.9	0.62%
Unknown3/Arabidopsis-Promoters/Homer	AYTAAACCGG	1e0	-3.842e-01	1.0000	6.0	0.16%	7.1	0.18%
Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer	HACTTCCGGY	1e0	-3.826e-01	1.0000	28.0	0.73%	32.7	0.82%
Meis1(Homeobox)/MastCells-Meis1-ChIP-Seq(GSE48085)/Homer	VGCTGWCAVB	1e0	-3.748e-01	1.0000	185.0	4.85%	202.4	5.07%
FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer	NYYTGTTTACHN	1e0	-3.685e-01	1.0000	66.0	1.73%	75.0	1.88%
Stat3(Stat)/mES-Stat3-ChIP-Seq(GSE11431)/Homer	CTTCCGGGAA	1e0	-3.551e-01	1.0000	52.0	1.36%	59.5	1.49%
GATA3(Zf),DR8/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATSTNDNNDSAGATAASN	1e0	-3.523e-01	1.0000	10.0	0.26%	12.8	0.32%
Ascl1(bHLH)/NeuralTubes-Ascl1-ChIP-Seq(GSE55840)/Homer	NNVVCAGCTGBN	1e0	-3.412e-01	1.0000	128.0	3.35%	142.8	3.58%
HOXD13(Homeobox)/Chicken-Hoxd13-ChIP-Seq(GSE38910)/Homer	NCYAATAAAA	1e0	-3.404e-01	1.0000	265.0	6.94%	289.2	7.24%
RUNX2(Runt)/PCa-RUNX2-ChIP-Seq(GSE33889)/Homer	NWAACCACADNN	1e0	-3.331e-01	1.0000	89.0	2.33%	100.2	2.51%
RXR(NR),DR1/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer	TAGGGCAAAGGTCA	1e0	-3.119e-01	1.0000	82.0	2.15%	93.0	2.33%
Oct4:Sox17(POU,Homeobox,HMG)/F9-Sox17-ChIP-Seq(GSE44553)/Homer	CCATTGTATGCAAAT	1e0	-3.004e-01	1.0000	25.0	0.65%	30.2	0.76%
VDR(NR),DR3/GM10855-VDR+vitD-ChIP-Seq(GSE22484)/Homer	ARAGGTCANWGAGTTCANNN	1e0	-2.982e-01	1.0000	18.0	0.47%	22.0	0.55%
TOD6?/SacCer-Promoters/Homer	GCGATGAGMT	1e0	-2.821e-01	1.0000	11.0	0.29%	14.8	0.37%
Tbox:Smad(T-box,MAD)/ESCd5-Smad2_3-ChIP-Seq(GSE29422)/Homer	AGGTGHCAGACA	1e0	-2.821e-01	1.0000	11.0	0.29%	14.6	0.37%
GEI-11(Myb?)/cElegans-L4-GEI11-ChIP-Seq(modEncode)/Homer	CCGACAYYTYACGGG	1e0	-2.812e-01	1.0000	3.0	0.08%	4.1	0.10%
OCT:OCT(POU,Homeobox,IR1)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATWATTCATGA	1e0	-2.812e-01	1.0000	3.0	0.08%	4.8	0.12%
Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer	NRYTTCCGGY	1e0	-2.775e-01	1.0000	29.0	0.76%	35.4	0.89%
Bach2(bZIP)/OCILy7-Bach2-ChIP-Seq(GSE44420)/Homer	TGCTGAGTCA	1e0	-2.771e-01	1.0000	16.0	0.42%	20.5	0.51%
ZBTB18(Zf)/HEK293-ZBTB18.GFP-ChIP-Seq(GSE58341)/Homer	AACATCTGGA	1e0	-2.754e-01	1.0000	44.0	1.15%	52.5	1.31%
NF1(CTF)/LNCAP-NF1-ChIP-Seq(Unpublished)/Homer	CYTGGCABNSTGCCAR	1e0	-2.692e-01	1.0000	35.0	0.92%	42.9	1.07%
Hoxb4(Homeobox)/ES-Hoxb4-ChIP-Seq(GSE34014)/Homer	TGATTRATGGCY	1e0	-2.674e-01	1.0000	21.0	0.55%	26.3	0.66%
Six1(Homeobox)/Myoblast-Six1-ChIP-Chip(GSE20150)/Homer	GKVTCADRTTWC	1e0	-2.564e-01	1.0000	26.0	0.68%	32.6	0.82%
Tbx20(T-box)/Heart-Tbx20-ChIP-Seq(GSE29636)/Homer	GGTGYTGACAGS	1e0	-2.539e-01	1.0000	14.0	0.37%	18.7	0.47%
MYB(HTH)/ERMYB-Myb-ChIPSeq(GSE22095)/Homer	GGCVGTTR	1e0	-2.522e-01	1.0000	216.0	5.66%	241.4	6.05%
ABF1/SacCer-Promoters/Homer	CGTRNAAARTGA	1e0	-2.494e-01	1.0000	9.0	0.24%	12.7	0.32%
TEAD(TEA)/Fibroblast-PU.1-ChIP-Seq(Unpublished)/Homer	YCWGGAATGY	1e0	-2.449e-01	1.0000	99.0	2.59%	114.4	2.87%
Nrf2(bZIP)/Lymphoblast-Nrf2-ChIP-Seq(GSE37589)/Homer	HTGCTGAGTCAT	1e0	-2.433e-01	1.0000	5.0	0.13%	7.4	0.19%
Zic(Zf)/Cerebellum-ZIC1.2-ChIP-Seq(GSE60731)/Homer	CCTGCTGAGH	1e0	-2.329e-01	1.0000	67.0	1.76%	79.6	1.99%
Nkx2.5(Homeobox)/HL1-Nkx2.5.biotin-ChIP-Seq(GSE21529)/Homer	RRSCACTYAA	1e0	-2.325e-01	1.0000	330.0	8.65%	365.1	9.15%
CTCF-SatelliteElement(Zf?)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	TGCAGTTCCMVNWRTGGCCA	1e0	-2.252e-01	1.0000	2.0	0.05%	3.7	0.09%
GATA(Zf),IR3/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NNNNNBAGATAWYATCTVHN	1e0	-2.191e-01	1.0000	27.0	0.71%	34.8	0.87%
PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer	ADGGYAGYAGCATCT	1e0	-2.174e-01	1.0000	33.0	0.86%	41.3	1.04%
EBF1(EBF)/Near-E2A-ChIP-Seq(GSE21512)/Homer	GTCCCCWGGGGA	1e0	-2.164e-01	1.0000	79.0	2.07%	93.2	2.33%
IRF2(IRF)/Erythroblas-IRF2-ChIP-Seq(GSE36985)/Homer	GAAASYGAAASY	1e0	-2.108e-01	1.0000	7.0	0.18%	10.9	0.27%
DPL-1(E2F)/cElegans-Adult-ChIP-Seq(modEncode)/Homer	TAGCGCGC	1e0	-2.088e-01	1.0000	15.0	0.39%	21.0	0.53%
DMRT1(DM)/Testis-DMRT1-ChIP-Seq(GSE64892)/Homer	TWGHWACAWTGTWDC	1e0	-2.087e-01	1.0000	38.0	1.00%	47.4	1.19%
Stat3+il21(Stat)/CD4-Stat3-ChIP-Seq(GSE19198)/Homer	SVYTTCCNGGAARB	1e0	-1.932e-01	1.0000	71.0	1.86%	85.3	2.14%
CEBP:CEBP(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	NTNATGCAAYMNNHTGMAAY	1e0	-1.913e-01	1.0000	18.0	0.47%	25.0	0.63%
EBF(EBF)/proBcell-EBF-ChIP-Seq(GSE21978)/Homer	DGTCCCYRGGGA	1e0	-1.739e-01	1.0000	12.0	0.31%	17.8	0.45%
GFY-Staf(?,Zf)/Promoter/Homer	RACTACAATTCCCAGAAKGC	1e0	-1.738e-01	1.0000	3.0	0.08%	5.6	0.14%
ZNF692(Zf)/HEK293-ZNF692.GFP-ChIP-Seq(GSE58341)/Homer	GTGGGCCCCA	1e0	-1.671e-01	1.0000	8.0	0.21%	12.2	0.31%
FHY3(FAR1)/Arabidopsis-FHY3-ChIP-Seq(GSE30711)/Homer	HHCACGCGCBTN	1e0	-1.493e-01	1.0000	7.0	0.18%	11.5	0.29%
ETS:RUNX(ETS,Runt)/Jurkat-RUNX1-ChIP-Seq(GSE17954)/Homer	RCAGGATGTGGT	1e0	-1.493e-01	1.0000	7.0	0.18%	11.2	0.28%
HLH-1(bHLH)/cElegans-Embryo-HLH1-ChIP-Seq(modEncode)/Homer	RACAGCTGTTBH	1e0	-1.390e-01	1.0000	74.0	1.94%	91.5	2.29%
PU.1:IRF8(ETS:IRF)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	GGAAGTGAAAST	1e0	-1.345e-01	1.0000	16.0	0.42%	23.4	0.59%
GATA3(Zf),DR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATGKDGAGATAAG	1e0	-1.345e-01	1.0000	16.0	0.42%	23.8	0.60%
Nur77(NR)/K562-NR4A1-ChIP-Seq(GSE31363)/Homer	TGACCTTTNCNT	1e0	-1.338e-01	1.0000	20.0	0.52%	28.2	0.71%
IRF4(IRF)/GM12878-IRF4-ChIP-Seq(GSE32465)/Homer	ACTGAAACCA	1e0	-1.308e-01	1.0000	51.0	1.34%	65.8	1.65%
E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer	VDTTTCCCGCCA	1e0	-1.279e-01	1.0000	2.0	0.05%	4.7	0.12%
Tcf21(bHLH)/ArterySmoothMuscle-Tcf21-ChIP-Seq(GSE61369)/Homer	NAACAGCTGG	1e0	-1.243e-01	1.0000	75.0	1.96%	93.0	2.33%
PPARE(NR),DR1/3T3L1-Pparg-ChIP-Seq(GSE13511)/Homer	TGACCTTTGCCCCA	1e0	-1.243e-01	1.0000	75.0	1.96%	93.3	2.34%
HOXB13(Homeobox)/ProstateTumor-HOXB13-ChIP-Seq(GSE56288)/Homer	TTTTATKRGG	1e0	-1.223e-01	1.0000	201.0	5.27%	234.6	5.88%
STAT6(Stat)/CD4-Stat6-ChIP-Seq(GSE22104)/Homer	ABTTCYYRRGAA	1e0	-1.220e-01	1.0000	74.0	1.94%	92.6	2.32%
HRE(HSF)/HepG2-HSF1-ChIP-Seq(GSE31477)/Homer	BSTTCTRGAABVTTCYAGAA	1e0	-1.197e-01	1.0000	8.0	0.21%	13.4	0.34%
REB1/SacCer-Promoters/Homer	KCCGGGTAAYRR	1e0	-1.192e-01	1.0000	18.0	0.47%	26.6	0.67%
Atf4(bZIP)/MEF-Atf4-ChIP-Seq(GSE35681)/Homer	MTGATGCAAT	1e0	-1.175e-01	1.0000	36.0	0.94%	48.8	1.22%
ZBTB12(Zf)/HEK293-ZBTB12.GFP-ChIP-Seq(GSE58341)/Homer	NGNTCTAGAACCNGV	1e0	-1.175e-01	1.0000	36.0	0.94%	48.2	1.21%
SOC1(MADS)/Seedling-SOC1-ChIP-Seq(GSE45846)/Homer	TWCCAWWTWTGG	1e0	-1.149e-01	1.0000	52.0	1.36%	67.6	1.69%
Atoh1(bHLH)/Cerebellum-Atoh1-ChIP-Seq(GSE22111)/Homer	VNRVCAGCTGGY	1e0	-1.133e-01	1.0000	84.0	2.20%	104.2	2.61%
Unknown(Homeobox)/Limb-p300-ChIP-Seq/Homer	SSCMATWAAA	1e0	-1.130e-01	1.0000	130.0	3.41%	156.6	3.92%
Hnf1(Homeobox)/Liver-Foxa2-Chip-Seq(GSE25694)/Homer	GGTTAAWCATTAA	1e0	-1.130e-01	1.0000	30.0	0.79%	41.3	1.04%
PRDM14(Zf)/H1-PRDM14-ChIP-Seq(GSE22767)/Homer	RGGTCTCTAACY	1e0	-1.083e-01	1.0000	29.0	0.76%	40.1	1.00%
Tlx?(NR)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	CTGGCAGSCTGCCA	1e0	-1.083e-01	1.0000	29.0	0.76%	41.0	1.03%
Nkx2.1(Homeobox)/LungAC-Nkx2.1-ChIP-Seq(GSE43252)/Homer	RSCACTYRAG	1e0	-1.037e-01	1.0000	417.0	10.92%	472.6	11.84%
DMRT6(DM)/Testis-DMRT6-ChIP-Seq(GSE60440)/Homer	YDGHTACAWTGTADC	1e0	-1.035e-01	1.0000	28.0	0.73%	39.3	0.98%
NFY(CCAAT)/Promoter/Homer	RGCCAATSRG	1e0	-9.965e-02	1.0000	98.0	2.57%	121.8	3.05%
Lhx1(Homeobox)/EmbryoCarcinoma-Lhx1-ChIP-Seq(GSE70957)/Homer	NNYTAATTAR	1e0	-9.918e-02	1.0000	255.0	6.68%	296.1	7.42%
Otx2(Homeobox)/EpiLC-Otx2-ChIP-Seq(GSE56098)/Homer	NYTAATCCYB	1e0	-9.525e-02	1.0000	133.0	3.48%	161.6	4.05%
E-box/Drosophila-Promoters/Homer	AACAGCTGTTHN	1e0	-9.297e-02	1.0000	18.0	0.47%	27.5	0.69%
Tcf12(bHLH)/GM12878-Tcf12-ChIP-Seq(GSE32465)/Homer	VCAGCTGYTG	1e0	-9.162e-02	1.0000	67.0	1.76%	86.4	2.16%
NeuroD1(bHLH)/Islet-NeuroD1-ChIP-Seq(GSE30298)/Homer	GCCATCTGTT	1e0	-8.915e-02	1.0000	72.0	1.89%	92.5	2.32%
NF1:FOXA1(CTF,Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WNTGTTTRYTTTGGCA	1e0	-8.798e-02	1.0000	4.0	0.10%	8.0	0.20%
Tcfcp2l1(CP2)/mES-Tcfcp2l1-ChIP-Seq(GSE11431)/Homer	NRAACCRGTTYRAACCRGYT	1e0	-8.798e-02	1.0000	4.0	0.10%	8.3	0.21%
NFkB-p50,p52(RHD)/Monocyte-p50-ChIP-Chip(Schreiber_et_al.)/Homer	GGGGGAATCCCC	1e0	-8.798e-02	1.0000	4.0	0.10%	8.1	0.20%
Bach1(bZIP)/K562-Bach1-ChIP-Seq(GSE31477)/Homer	AWWNTGCTGAGTCAT	1e0	-8.798e-02	1.0000	4.0	0.10%	8.7	0.22%
Pdx1(Homeobox)/Islet-Pdx1-ChIP-Seq(SRA008281)/Homer	YCATYAATCA	1e0	-8.672e-02	1.0000	175.0	4.58%	209.5	5.25%
KANADI1(Myb)/Seedling-KAN1-ChIP-Seq(GSE48081)/Homer	ARGAATAWWN	1e0	-8.532e-02	1.0000	276.0	7.23%	321.8	8.06%
NF1-halfsite(CTF)/LNCaP-NF1-ChIP-Seq(Unpublished)/Homer	YTGCCAAG	1e0	-8.333e-02	1.0000	180.0	4.72%	215.2	5.39%
HNF6(Homeobox)/Liver-Hnf6-ChIP-Seq(ERP000394)/Homer	NTATYGATCH	1e0	-7.749e-02	1.0000	91.0	2.38%	115.5	2.89%
TATA-box/SacCer-Promoters/Homer	BBHWTATATA	1e0	-7.539e-02	1.0000	155.0	4.06%	188.3	4.72%
Lhx3(Homeobox)/Neuron-Lhx3-ChIP-Seq(GSE31456)/Homer	ADBTAATTAR	1e0	-7.449e-02	1.0000	372.0	9.75%	428.9	10.74%
GFY(?)/Promoter/Homer	ACTACAATTCCC	1e0	-7.263e-02	1.0000	2.0	0.05%	5.7	0.14%
SeqBias: A/T bias	WWWWWWWWWW	1e0	-6.628e-02	1.0000	3086.0	80.85%	3279.2	82.14%
HRE(HSF)/Striatum-HSF1-ChIP-Seq(GSE38000)/Homer	TTCTAGAABNTTCTA	1e0	-6.492e-02	1.0000	20.0	0.52%	31.9	0.80%
SEP3(MADS)/Arabidoposis-Flower-Sep3-ChIP-Seq/Homer	CCAAAAAGGG	1e0	-6.197e-02	1.0000	213.0	5.58%	255.9	6.41%
TEAD4(TEA)/Tropoblast-Tead4-ChIP-Seq(GSE37350)/Homer	CCWGGAATGY	1e0	-6.162e-02	1.0000	99.0	2.59%	127.0	3.18%
Smad3(MAD)/NPC-Smad3-ChIP-Seq(GSE36673)/Homer	TWGTCTGV	1e0	-6.051e-02	1.0000	332.0	8.70%	387.1	9.70%
Lhx2(Homeobox)/HFSC-Lhx2-ChIP-Seq(GSE48068)/Homer	TAATTAGN	1e0	-5.993e-02	1.0000	236.0	6.18%	281.5	7.05%
ZNF264(Zf)/HEK293-ZNF264.GFP-ChIP-Seq(GSE58341)/Homer	RGGGCACTAACY	1e0	-5.949e-02	1.0000	47.0	1.23%	65.2	1.63%
Nkx6.1(Homeobox)/Islet-Nkx6.1-ChIP-Seq(GSE40975)/Homer	GKTAATGR	1e0	-5.714e-02	1.0000	630.0	16.51%	712.5	17.85%
Initiator/Drosophila-Promoters/Homer	NTCAGTYG	1e0	-5.266e-02	1.0000	344.0	9.01%	402.7	10.09%
Nkx2.2(Homeobox)/NPC-Nkx2.2-ChIP-Seq(GSE61673)/Homer	BTBRAGTGSN	1e0	-5.184e-02	1.0000	266.0	6.97%	316.4	7.92%
Tbet(T-box)/CD8-Tbet-ChIP-Seq(GSE33802)/Homer	AGGTGTGAAM	1e0	-5.000e-02	1.0000	156.0	4.09%	193.6	4.85%
Ptf1a(bHLH)/Panc1-Ptf1a-ChIP-Seq(GSE47459)/Homer	ACAGCTGTTN	1e0	-4.442e-02	1.0000	286.0	7.49%	340.5	8.53%
Smad4(MAD)/ESC-SMAD4-ChIP-Seq(GSE29422)/Homer	VBSYGTCTGG	1e0	-4.123e-02	1.0000	137.0	3.59%	173.5	4.35%
NRF(NRF)/Promoter/Homer	STGCGCATGCGC	1e0	-4.107e-02	1.0000	2.0	0.05%	6.7	0.17%
Chop(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	ATTGCATCAT	1e0	-3.766e-02	1.0000	26.0	0.68%	41.1	1.03%
Smad2(MAD)/ES-SMAD2-ChIP-Seq(GSE29422)/Homer	CTGTCTGG	1e0	-3.657e-02	1.0000	137.0	3.59%	174.9	4.38%
RARg(NR)/ES-RARg-ChIP-Seq(GSE30538)/Homer	AGGTCAAGGTCA	1e0	-3.547e-02	1.0000	1.0	0.03%	4.3	0.11%
TATA-Box(TBP)/Promoter/Homer	CCTTTTAWAGSC	1e0	-3.489e-02	1.0000	198.0	5.19%	244.8	6.13%
NFkB-p65(RHD)/GM12787-p65-ChIP-Seq(GSE19485)/Homer	WGGGGATTTCCC	1e0	-3.226e-02	1.0000	50.0	1.31%	72.1	1.81%
NFAT(RHD)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	ATTTTCCATT	1e0	-3.022e-02	1.0000	121.0	3.17%	157.7	3.95%
PAX3:FKHR-fusion(Paired,Homeobox)/Rh4-PAX3:FKHR-ChIP-Seq(GSE19063)/Homer	ACCRTGACTAATTNN	1e0	-2.690e-02	1.0000	28.0	0.73%	45.7	1.14%
Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer	BAACAGCTGT	1e0	-2.676e-02	1.0000	46.0	1.21%	68.9	1.73%
BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer	CNNBRGCGCCCCCTGSTGGC	1e0	-2.635e-02	1.0000	6.0	0.16%	14.6	0.37%
Isl1(Homeobox)/Neuron-Isl1-ChIP-Seq(GSE31456)/Homer	CTAATKGV	1e0	-2.523e-02	1.0000	353.0	9.25%	421.9	10.57%
MyoG(bHLH)/C2C12-MyoG-ChIP-Seq(GSE36024)/Homer	AACAGCTG	1e0	-2.471e-02	1.0000	80.0	2.10%	110.3	2.76%
ISRE(IRF)/ThioMac-LPS-Expression(GSE23622)/Homer	AGTTTCASTTTC	1e0	-2.336e-02	1.0000	3.0	0.08%	10.0	0.25%
NFkB-p65-Rel(RHD)/ThioMac-LPS-Expression(GSE23622)/Homer	GGAAATTCCC	1e0	-2.336e-02	1.0000	3.0	0.08%	9.2	0.23%
CEBP(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	ATTGCGCAAC	1e0	-2.305e-02	1.0000	115.0	3.01%	152.7	3.82%
Eomes(T-box)/H9-Eomes-ChIP-Seq(GSE26097)/Homer	ATTAACACCT	1e0	-1.872e-02	1.0000	358.0	9.38%	430.5	10.78%
CArG(MADS)/PUER-Srf-ChIP-Seq(Sullivan_et_al.)/Homer	CCATATATGGNM	1e0	-1.857e-02	1.0000	36.0	0.94%	57.7	1.45%
SeqBias: GCW-triplet	GCWGCWGCWGCW	1e0	-1.615e-02	1.0000	3530.0	92.48%	3740.0	93.69%
AARE(HLH)/mES-cMyc-ChIP-Seq/Homer	GATTGCATCA	1e0	-1.290e-02	1.0000	2.0	0.05%	8.0	0.20%
MafA(bZIP)/Islet-MafA-ChIP-Seq(GSE30298)/Homer	TGCTGACTCA	1e0	-7.463e-03	1.0000	60.0	1.57%	92.9	2.33%
SeqBias: polyA-repeat	AAAAAAAAAA	1e0	-7.435e-03	1.0000	3658.0	95.83%	3865.7	96.84%
CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	AYAGTGCCMYCTRGTGGCCA	1e0	-7.162e-03	1.0000	2.0	0.05%	9.1	0.23%
STAT6(Stat)/Macrophage-Stat6-ChIP-Seq(GSE38377)/Homer	TTCCKNAGAA	1e0	-6.297e-03	1.0000	57.0	1.49%	89.8	2.25%
Nanog(Homeobox)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	RGCCATTAAC	1e0	-5.424e-03	1.0000	754.0	19.75%	882.0	22.09%
Ap4(bHLH)/AML-Tfap4-ChIP-Seq(GSE45738)/Homer	NAHCAGCTGD	1e0	-2.132e-03	1.0000	93.0	2.44%	140.8	3.53%
Unknown3/Drosophila-Promoters/Homer	ACVAKCTGGCAGCGC	1e0	-6.460e-04	1.0000	2.0	0.05%	13.9	0.35%
ETS:E-box(ETS,bHLH)/HPC7-Scl-ChIP-Seq(GSE22178)/Homer	AGGAARCAGCTG	1e0	-8.200e-05	1.0000	1.0	0.03%	13.1	0.33%
REST-NRSF(Zf)/Jurkat-NRSF-ChIP-Seq/Homer	GGMGCTGTCCATGGTGCTGA	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
 Ik-1	NHTTGGGAATRCC	1e0	0.000e+00	1.0000	3817.0	100.00%	3992.0	100.00%
Unknown2/Arabidopsis-Promoters/Homer	AAACGACGTCGTTTT	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%	2.1	0.05%
NRF1(NRF)/MCF7-NRF1-ChIP-Seq(Unpublished)/Homer	CTGCGCATGCGC	1e0	0.000e+00	1.0000	0.0	0.00%	4.2	0.11%
DREF/Drosophila-Promoters/Homer	AVYTATCGATAD	1e0	0.000e+00	1.0000	0.0	0.00%	1.0	0.03%
T1ISRE(IRF)/ThioMac-Ifnb-Expression/Homer	ACTTTCGTTTCT	1e0	0.000e+00	1.0000	0.0	0.00%	1.0	0.03%
EBNA1(EBV-virus)/Raji-EBNA1-ChIP-Seq(GSE30709)/Homer	GGYAGCAYDTGCTDCCCNNN	1e0	0.000e+00	1.0000	0.0	0.00%	1.4	0.04%