Motif Name	Consensus	P-value	Log P-value	q-value (Benjamini)	# of Target Sequences with Motif(of 4467)	% of Target Sequences with Motif	# of Background Sequences with Motif(of 20322)	% of Background Sequences with Motif
ABF1/SacCer-Promoters/Homer	CGTRNAAARTGA	1e-226	-5.216e+02	0.0000	1564.0	35.01%	3133.7	15.42%
REB1/SacCer-Promoters/Homer	KCCGGGTAAYRR	1e-185	-4.278e+02	0.0000	985.0	22.05%	1620.5	7.98%
RLR1?/SacCer-Promoters/Homer	WTTTTCYYTTTT	1e-64	-1.476e+02	0.0000	2115.0	47.35%	7107.5	34.98%
c-Myc(bHLH)/LNCAP-cMyc-ChIP-Seq(Unpublished)/Homer	VCCACGTG	1e-57	-1.315e+02	0.0000	601.0	13.45%	1363.7	6.71%
SeqBias: CG-repeat	CGCGCGCGCG	1e-46	-1.075e+02	0.0000	799.0	17.89%	2166.5	10.66%
Cbf1(bHLH)/Yeast-Cbf1-ChIP-Seq(GSE29506)/Homer	TCACGTGAYH	1e-43	-1.002e+02	0.0000	429.0	9.60%	940.3	4.63%
bHLHE40(bHLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer	KCACGTGMCN	1e-43	-9.948e+01	0.0000	441.0	9.87%	981.1	4.83%
Usf2(bHLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer	GTCACGTGGT	1e-38	-8.811e+01	0.0000	412.0	9.22%	936.0	4.61%
DPL-1(E2F)/cElegans-Adult-ChIP-Seq(modEncode)/Homer	TAGCGCGC	1e-38	-8.786e+01	0.0000	1103.0	24.69%	3454.5	17.00%
SFP1/SacCer-Promoters/Homer	DDAAAAATTTTY	1e-37	-8.591e+01	0.0000	659.0	14.75%	1793.9	8.83%
n-Myc(bHLH)/mES-nMyc-ChIP-Seq(GSE11431)/Homer	VRCCACGTGG	1e-36	-8.426e+01	0.0000	657.0	14.71%	1796.7	8.84%
USF1(bHLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer	SGTCACGTGR	1e-34	-7.987e+01	0.0000	486.0	10.88%	1221.6	6.01%
CLOCK(bHLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer	GHCACGTG	1e-34	-7.837e+01	0.0000	571.0	12.78%	1525.6	7.51%
TATA-box/SacCer-Promoters/Homer	BBHWTATATA	1e-32	-7.433e+01	0.0000	2123.0	47.53%	7871.4	38.74%
E-box/Arabidopsis-Promoters/Homer	GCCACGTG	1e-27	-6.224e+01	0.0000	522.0	11.69%	1451.8	7.14%
Pho2(bHLH)/Yeast-Pho2-ChIP-Seq(GSE29506)/Homer	CCCACGTGCT	1e-25	-5.870e+01	0.0000	430.0	9.63%	1146.7	5.64%
Max(bHLH)/K562-Max-ChIP-Seq(GSE31477)/Homer	RCCACGTGGYYN	1e-24	-5.755e+01	0.0000	590.0	13.21%	1733.6	8.53%
E-box(bHLH)/Promoter/Homer	SSGGTCACGTGA	1e-23	-5.380e+01	0.0000	124.0	2.78%	196.8	0.97%
IBL1(bHLH)/Seedling-IBL1-ChIP-Seq(GSE51120)/Homer	CACGTGCC	1e-21	-4.989e+01	0.0000	1366.0	30.58%	4919.8	24.21%
SPCH(bHLH)/Seedling-SPCH-ChIP-Seq(GSE57497)/Homer	WNBCACGTGA	1e-21	-4.849e+01	0.0000	1113.0	24.92%	3883.4	19.11%
FHY3(FAR1)/Arabidopsis-FHY3-ChIP-Seq(GSE30711)/Homer	HHCACGCGCBTN	1e-20	-4.626e+01	0.0000	426.0	9.54%	1213.5	5.97%
PIF5ox(bHLH)/Arabidopsis-PIF5ox-ChIP-Seq(GSE35062)/Homer	BCACGTGVDN	1e-20	-4.609e+01	0.0000	876.0	19.61%	2947.2	14.50%
PIF4(bHLH)/Seedling-PIF4-ChIP-Seq(GSE35315)/Homer	NNBCACGTGN	1e-19	-4.547e+01	0.0000	974.0	21.80%	3350.4	16.49%
TOD6?/SacCer-Promoters/Homer	GCGATGAGMT	1e-18	-4.147e+01	0.0000	346.0	7.75%	958.9	4.72%
E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer	GGCGGGAAAH	1e-17	-4.080e+01	0.0000	808.0	18.09%	2733.3	13.45%
Egr2(Zf)/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer	NGCGTGGGCGGR	1e-16	-3.872e+01	0.0000	137.0	3.07%	276.3	1.36%
NPAS2(bHLH)/Liver-NPAS2-ChIP-Seq(GSE39860)/Homer	KCCACGTGAC	1e-16	-3.750e+01	0.0000	827.0	18.51%	2848.7	14.02%
KLF14(Zf)/HEK293-KLF14.GFP-ChIP-Seq(GSE58341)/Homer	RGKGGGCGKGGC	1e-12	-2.830e+01	0.0000	548.0	12.27%	1839.4	9.05%
MITF(bHLH)/MastCells-MITF-ChIP-Seq(GSE48085)/Homer	RTCATGTGAC	1e-11	-2.680e+01	0.0000	794.0	17.77%	2854.5	14.05%
Pho4(bHLH)/Yeast-Pho4-ChIP-Seq(GSE29506)/Homer	AAGCACGTGBGD	1e-10	-2.520e+01	0.0000	150.0	3.36%	376.9	1.85%
Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo_et_al.)/Homer	TBGCACGCAA	1e-10	-2.486e+01	0.0000	1056.0	23.64%	3981.8	19.60%
HIF-1b(HLH)/T47D-HIF1b-ChIP-Seq(GSE59937)/Homer	RTACGTGC	1e-10	-2.455e+01	0.0000	1689.0	37.81%	6727.1	33.11%
BMAL1(bHLH)/Liver-Bmal1-ChIP-Seq(GSE39860)/Homer	GNCACGTG	1e-10	-2.432e+01	0.0000	1427.0	31.95%	5585.4	27.49%
KLF10(Zf)/HEK293-KLF10.GFP-ChIP-Seq(GSE58341)/Homer	GGGGGTGTGTCC	1e-10	-2.411e+01	0.0000	242.0	5.42%	707.9	3.48%
Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer	TGCGTGGGYG	1e-10	-2.347e+01	0.0000	317.0	7.10%	992.4	4.88%
Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer	GCCACACCCA	1e-10	-2.322e+01	0.0000	157.0	3.51%	411.9	2.03%
c-Myc(bHLH)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	VVCCACGTGG	1e-10	-2.320e+01	0.0000	330.0	7.39%	1044.2	5.14%
SUT1?/SacCer-Promoters/Homer	CCCCGCGC	1e-9	-2.251e+01	0.0000	3023.0	67.67%	12835.2	63.17%
Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer	GGGGGGGG	1e-8	-2.069e+01	0.0000	289.0	6.47%	912.8	4.49%
ZNF467(Zf)/HEK293-ZNF467.GFP-ChIP-Seq(GSE58341)/Homer	TGGGGAAGGGCM	1e-8	-2.063e+01	0.0000	315.0	7.05%	1012.7	4.98%
GAGA-repeat/Arabidopsis-Promoters/Homer	CTCTCTCTCY	1e-8	-1.893e+01	0.0000	534.0	11.95%	1903.3	9.37%
SeqBias: TA-repeat	TATATATATA	1e-8	-1.848e+01	0.0000	3975.0	88.99%	17505.2	86.15%
Klf9(Zf)/GBM-Klf9-ChIP-Seq(GSE62211)/Homer	GCCACRCCCACY	1e-7	-1.786e+01	0.0000	127.0	2.84%	340.5	1.68%
EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer	NWGGGTGTGGCY	1e-7	-1.668e+01	0.0000	104.0	2.33%	268.5	1.32%
KLF5(Zf)/LoVo-KLF5-ChIP-Seq(GSE49402)/Homer	DGGGYGKGGC	1e-7	-1.624e+01	0.0000	456.0	10.21%	1625.6	8.00%
HIF-1a(bHLH)/MCF7-HIF1a-ChIP-Seq(GSE28352)/Homer	TACGTGCV	1e-6	-1.559e+01	0.0000	493.0	11.04%	1786.1	8.79%
HIF2a(bHLH)/785_O-HIF2a-ChIP-Seq(GSE34871)/Homer	GCACGTACCC	1e-6	-1.547e+01	0.0000	744.0	16.66%	2834.3	13.95%
RFX(HTH)/K562-RFX3-ChIP-Seq(SRA012198)/Homer	CGGTTGCCATGGCAAC	1e-6	-1.507e+01	0.0000	96.0	2.15%	250.4	1.23%
E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer	VDTTTCCCGCCA	1e-5	-1.376e+01	0.0000	130.0	2.91%	379.9	1.87%
NRF1(NRF)/MCF7-NRF1-ChIP-Seq(Unpublished)/Homer	CTGCGCATGCGC	1e-5	-1.299e+01	0.0000	45.0	1.01%	94.9	0.47%
PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	MGGAAGTGAAAC	1e-5	-1.243e+01	0.0000	1457.0	32.62%	6000.7	29.53%
TATA-box/Drosophila-Promoters/Homer	CTATAAAAGCSV	1e-5	-1.222e+01	0.0000	232.0	5.19%	782.3	3.85%
E2F1(E2F)/Hela-E2F1-ChIP-Seq(GSE22478)/Homer	CWGGCGGGAA	1e-5	-1.221e+01	0.0000	194.0	4.34%	634.1	3.12%
BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer	DATGASTCAT	1e-5	-1.191e+01	0.0000	607.0	13.59%	2327.7	11.46%
Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer	GTTGCCATGGCAACM	1e-5	-1.188e+01	0.0000	97.0	2.17%	274.8	1.35%
NRF(NRF)/Promoter/Homer	STGCGCATGCGC	1e-4	-1.144e+01	0.0001	95.0	2.13%	270.2	1.33%
SpiB(ETS)/OCILY3-SPIB-ChIP-Seq(GSE56857)/Homer	AAAGRGGAAGTG	1e-4	-1.133e+01	0.0001	300.0	6.72%	1065.6	5.24%
E2F(E2F)/Hela-CellCycle-Expression/Homer	TTSGCGCGAAAA	1e-4	-9.700e+00	0.0004	132.0	2.96%	422.1	2.08%
p53(p53)/Saos-p53-ChIP-Seq(GSE15780)/Homer	RRCATGYCYRGRCATGYYYN	1e-3	-8.953e+00	0.0008	73.0	1.63%	209.6	1.03%
p53(p53)/Saos-p53-ChIP-Seq/Homer	RRCATGYCYRGRCATGYYYN	1e-3	-8.953e+00	0.0008	73.0	1.63%	209.6	1.03%
FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer	NYYTGTTTACHN	1e-3	-8.498e+00	0.0013	775.0	17.35%	3129.1	15.40%
X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	GGTTGCCATGGCAA	1e-3	-8.420e+00	0.0014	136.0	3.04%	451.6	2.22%
Pax8(Paired,Homeobox)/Thyroid-Pax8-ChIP-Seq(GSE26938)/Homer	GTCATGCHTGRCTGS	1e-3	-8.351e+00	0.0015	134.0	3.00%	444.7	2.19%
Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer	SCCTAGCAACAG	1e-3	-8.100e+00	0.0018	288.0	6.45%	1068.1	5.26%
Trl(Zf)/S2-GAGAfactor-ChIP-Seq(GSE40646)/Homer	RGAGAGAG	1e-3	-8.069e+00	0.0019	1708.0	38.24%	7266.5	35.76%
CRE(bZIP)/Promoter/Homer	CSGTGACGTCAC	1e-3	-7.578e+00	0.0030	185.0	4.14%	656.0	3.23%
ZBTB33(Zf)/GM12878-ZBTB33-ChIP-Seq(GSE32465)/Homer	GGVTCTCGCGAGAAC	1e-3	-7.531e+00	0.0031	52.0	1.16%	144.5	0.71%
PAX5(Paired,Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GCAGCCAAGCRTGACH	1e-2	-6.143e+00	0.0122	209.0	4.68%	777.5	3.83%
CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	AYAGTGCCMYCTRGTGGCCA	1e-2	-6.135e+00	0.0122	44.0	0.99%	125.7	0.62%
Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer	NRYTTCCGGY	1e-2	-6.037e+00	0.0132	1017.0	22.77%	4271.9	21.02%
BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer	CNNBRGCGCCCCCTGSTGGC	1e-2	-5.884e+00	0.0152	41.0	0.92%	116.3	0.57%
RXR(NR),DR1/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer	TAGGGCAAAGGTCA	1e-2	-5.651e+00	0.0189	516.0	11.55%	2092.8	10.30%
PAX5(Paired,Homeobox),condensed/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GTCACGCTCSCTGM	1e-2	-5.438e+00	0.0231	77.0	1.72%	255.0	1.26%
Dorsal(RHD)/Embryo-dl-ChIP-Seq(GSE65441)/Homer	GGGAAAAMCCCG	1e-2	-5.168e+00	0.0298	212.0	4.75%	808.1	3.98%
PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer	GSCTGTCACTCA	1e-2	-5.062e+00	0.0327	33.0	0.74%	93.7	0.46%
Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer	HACTTCCGGY	1e-2	-5.001e+00	0.0343	832.0	18.63%	3496.3	17.21%
ZNF692(Zf)/HEK293-ZNF692.GFP-ChIP-Seq(GSE58341)/Homer	GTGGGCCCCA	1e-2	-4.988e+00	0.0343	55.0	1.23%	175.4	0.86%
Unknown-ESC-element(?)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	CACAGCAGGGGG	1e-2	-4.985e+00	0.0343	178.0	3.98%	670.7	3.30%
ZNF519(Zf)/HEK293-ZNF519.GFP-ChIP-Seq(GSE58341)/Homer	GAGSCCGAGC	1e-2	-4.800e+00	0.0403	49.0	1.10%	154.2	0.76%
GEI-11(Myb?)/cElegans-L4-GEI11-ChIP-Seq(modEncode)/Homer	CCGACAYYTYACGGG	1e-2	-4.771e+00	0.0410	42.0	0.94%	128.4	0.63%
Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer	BAACAGCTGT	1e-2	-4.687e+00	0.0440	350.0	7.84%	1405.3	6.92%
E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer	GGCGGGAARN	1e-1	-4.347e+00	0.0611	267.0	5.98%	1059.7	5.22%
Fra1(bZIP)/BT549-Fra1-ChIP-Seq(GSE46166)/Homer	NNATGASTCATH	1e-1	-4.304e+00	0.0630	507.0	11.35%	2097.5	10.32%
Zic(Zf)/Cerebellum-ZIC1.2-ChIP-Seq(GSE60731)/Homer	CCTGCTGAGH	1e-1	-4.282e+00	0.0636	407.0	9.11%	1663.2	8.19%
AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	VTGACTCATC	1e-1	-4.114e+00	0.0744	610.0	13.66%	2555.6	12.58%
Fli1(ETS)/CD8-FLI-ChIP-Seq(GSE20898)/Homer	NRYTTCCGGH	1e-1	-4.105e+00	0.0744	1328.0	29.73%	5745.2	28.27%
DMRT1(DM)/Testis-DMRT1-ChIP-Seq(GSE64892)/Homer	TWGHWACAWTGTWDC	1e-1	-4.086e+00	0.0747	391.0	8.75%	1600.1	7.88%
ARE(NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	RGRACASNSTGTYCYB	1e-1	-4.015e+00	0.0793	130.0	2.91%	489.1	2.41%
ETS(ETS)/Promoter/Homer	AACCGGAAGT	1e-1	-3.933e+00	0.0851	327.0	7.32%	1328.5	6.54%
GATA:SCL(Zf,bHLH)/Ter119-SCL-ChIP-Seq(GSE18720)/Homer	CRGCTGBNGNSNNSAGATAA	1e-1	-3.924e+00	0.0851	110.0	2.46%	408.3	2.01%
Srebp2(bHLH)/HepG2-Srebp2-ChIP-Seq(GSE31477)/Homer	CGGTCACSCCAC	1e-1	-3.883e+00	0.0876	69.0	1.54%	242.5	1.19%
GABPA(ETS)/Jurkat-GABPa-ChIP-Seq(GSE17954)/Homer	RACCGGAAGT	1e-1	-3.838e+00	0.0906	769.0	17.22%	3268.7	16.09%
Atf3(bZIP)/GBM-ATF3-ChIP-Seq(GSE33912)/Homer	DATGASTCATHN	1e-1	-3.661e+00	0.1069	548.0	12.27%	2301.2	11.33%
Tbox:Smad(T-box,MAD)/ESCd5-Smad2_3-ChIP-Seq(GSE29422)/Homer	AGGTGHCAGACA	1e-1	-3.576e+00	0.1153	102.0	2.28%	381.9	1.88%
p63(p53)/Keratinocyte-p63-ChIP-Seq(GSE17611)/Homer	NNDRCATGYCYNRRCATGYH	1e-1	-3.550e+00	0.1170	201.0	4.50%	798.4	3.93%
PPARE(NR),DR1/3T3L1-Pparg-ChIP-Seq(GSE13511)/Homer	TGACCTTTGCCCCA	1e-1	-3.539e+00	0.1171	489.0	10.95%	2048.0	10.08%
GAGA-repeat/SacCer-Promoters/Homer	CTYTCTYTCTCTCTC	1e-1	-3.452e+00	0.1264	3515.0	78.69%	15751.4	77.52%
GRE(NR),IR3/RAW264.7-GRE-ChIP-Seq(Unpublished)/Homer	VAGRACAKWCTGTYC	1e-1	-3.419e+00	0.1293	196.0	4.39%	780.0	3.84%
Etv2(ETS)/ES-ER71-ChIP-Seq(GSE59402)/Homer(0.967)	NNAYTTCCTGHN	1e-1	-3.409e+00	0.1293	717.0	16.05%	3058.2	15.05%
ELF1(ETS)/Jurkat-ELF1-ChIP-Seq(SRA014231)/Homer	AVCCGGAAGT	1e-1	-3.315e+00	0.1406	544.0	12.18%	2298.9	11.31%
EBNA1(EBV-virus)/Raji-EBNA1-ChIP-Seq(GSE30709)/Homer	GGYAGCAYDTGCTDCCCNNN	1e-1	-3.094e+00	0.1737	12.0	0.27%	31.1	0.15%
Rfx1(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	KGTTGCCATGGCAA	1e-1	-3.023e+00	0.1847	173.0	3.87%	692.3	3.41%
FOXA1:AR(Forkhead,NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	AGTAAACAAAAAAGAACAND	1e-1	-2.991e+00	0.1888	113.0	2.53%	438.8	2.16%
GLI3(Zf)/Limb-GLI3-ChIP-Chip(GSE11077)/Homer	CGTGGGTGGTCC	1e-1	-2.805e+00	0.2252	50.0	1.12%	180.2	0.89%
AP-2alpha(AP2)/Hela-AP2alpha-ChIP-Seq(GSE31477)/Homer	ATGCCCTGAGGC	1e-1	-2.759e+00	0.2334	152.0	3.40%	609.7	3.00%
Stat3(Stat)/mES-Stat3-ChIP-Seq(GSE11431)/Homer	CTTCCGGGAA	1e-1	-2.716e+00	0.2415	464.0	10.39%	1972.8	9.71%
NFkB-p50,p52(RHD)/Monocyte-p50-ChIP-Chip(Schreiber_et_al.)/Homer	GGGGGAATCCCC	1e-1	-2.715e+00	0.2415	32.0	0.72%	109.5	0.54%
TR4(NR),DR1/Hela-TR4-ChIP-Seq(GSE24685)/Homer	GAGGTCAAAGGTCA	1e-1	-2.710e+00	0.2415	44.0	0.99%	157.2	0.77%
Tbet(T-box)/CD8-Tbet-ChIP-Seq(GSE33802)/Homer	AGGTGTGAAM	1e-1	-2.697e+00	0.2415	1126.0	25.21%	4925.0	24.24%
Fosl2(bZIP)/3T3L1-Fosl2-ChIP-Seq(GSE56872)/Homer	NATGASTCABNN	1e-1	-2.674e+00	0.2427	178.0	3.98%	723.5	3.56%
ERG(ETS)/VCaP-ERG-ChIP-Seq(GSE14097)/Homer	ACAGGAAGTG	1e-1	-2.360e+00	0.3293	1155.0	25.86%	5078.4	24.99%
Unknown3/Arabidopsis-Promoters/Homer	AYTAAACCGG	1e-1	-2.348e+00	0.3302	497.0	11.13%	2136.5	10.51%
Ets1-distal(ETS)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	MACAGGAAGT	1e-1	-2.306e+00	0.3413	195.0	4.37%	808.5	3.98%
Unknown1/Arabidopsis-Promoters/Homer	RGGGTAWWWTHGTAA	1e0	-2.264e+00	0.3527	162.0	3.63%	666.5	3.28%
EFL-1(E2F)/cElegans-L1-EFL1-ChIP-Seq(modEncode)/Homer	TGCAARYGCGCTCYA	1e0	-2.217e+00	0.3665	19.0	0.43%	63.9	0.31%
GRE(NR),IR3/A549-GR-ChIP-Seq(GSE32465)/Homer	NRGVACABNVTGTYCY	1e0	-2.058e+00	0.4260	82.0	1.84%	327.6	1.61%
OCT:OCT(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	ATGAATATTCATGAG	1e0	-2.031e+00	0.4341	16.0	0.36%	53.7	0.26%
HEB(bHLH)/mES-Heb-ChIP-Seq(GSE53233)/Homer	VCAGCTGBNN	1e0	-1.989e+00	0.4488	893.0	19.99%	3928.1	19.33%
NFkB-p65-Rel(RHD)/ThioMac-LPS-Expression(GSE23622)/Homer	GGAAATTCCC	1e0	-1.979e+00	0.4493	55.0	1.23%	214.6	1.06%
ZNF143|STAF(Zf)/CUTLL-ZNF143-ChIP-Seq(GSE29600)/Homer	ATTTCCCAGVAKSCY	1e0	-1.952e+00	0.4578	113.0	2.53%	463.7	2.28%
RBPJ:Ebox(?,bHLH)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	GGGRAARRGRMCAGMTG	1e0	-1.877e+00	0.4893	130.0	2.91%	539.7	2.66%
Six1(Homeobox)/Myoblast-Six1-ChIP-Chip(GSE20150)/Homer	GKVTCADRTTWC	1e0	-1.759e+00	0.5461	311.0	6.96%	1341.9	6.60%
Bach1(bZIP)/K562-Bach1-ChIP-Seq(GSE31477)/Homer	AWWNTGCTGAGTCAT	1e0	-1.754e+00	0.5461	30.0	0.67%	113.2	0.56%
Mef2d(MADS)/Retina-Mef2d-ChIP-Seq(GSE61391)/Homer	GCTATTTTTAGC	1e0	-1.710e+00	0.5643	403.0	9.02%	1753.1	8.63%
ZNF675(Zf)/HEK293-ZNF675.GFP-ChIP-Seq(GSE58341)/Homer	ARGAGGMCAAAATGW	1e0	-1.661e+00	0.5884	148.0	3.31%	625.6	3.08%
ZNF41(Zf)/HEK293-ZNF41.GFP-ChIP-Seq(GSE58341)/Homer	CCTCATGGTGYCYTWYTCCCTTGTG	1e0	-1.648e+00	0.5909	19.0	0.43%	69.5	0.34%
Reverb(NR),DR2/RAW-Reverba.biotin-ChIP-Seq(GSE45914)/Homer	GTRGGTCASTGGGTCA	1e0	-1.648e+00	0.5909	32.0	0.72%	123.3	0.61%
Sox2(HMG)/mES-Sox2-ChIP-Seq(GSE11431)/Homer	BCCATTGTTC	1e0	-1.635e+00	0.5909	1377.0	30.83%	6141.1	30.22%
Atoh1(bHLH)/Cerebellum-Atoh1-ChIP-Seq(GSE22111)/Homer	VNRVCAGCTGGY	1e0	-1.609e+00	0.6001	596.0	13.34%	2623.7	12.91%
ZBTB18(Zf)/HEK293-ZBTB18.GFP-ChIP-Seq(GSE58341)/Homer	AACATCTGGA	1e0	-1.576e+00	0.6159	256.0	5.73%	1106.5	5.45%
ETV1(ETS)/GIST48-ETV1-ChIP-Seq(GSE22441)/Homer	AACCGGAAGT	1e0	-1.546e+00	0.6295	1147.0	25.68%	5110.9	25.15%
AP-2gamma(AP2)/MCF7-TFAP2C-ChIP-Seq(GSE21234)/Homer	SCCTSAGGSCAW	1e0	-1.539e+00	0.6295	227.0	5.08%	979.5	4.82%
Zfp809(Zf)/ES-Zfp809-ChIP-Seq(GSE70799)/Homer	GGGGCTYGKCTGGGA	1e0	-1.521e+00	0.6359	27.0	0.60%	104.8	0.52%
MyoG(bHLH)/C2C12-MyoG-ChIP-Seq(GSE36024)/Homer	AACAGCTG	1e0	-1.511e+00	0.6372	447.0	10.01%	1962.9	9.66%
Tcfcp2l1(CP2)/mES-Tcfcp2l1-ChIP-Seq(GSE11431)/Homer	NRAACCRGTTYRAACCRGYT	1e0	-1.497e+00	0.6418	81.0	1.81%	337.5	1.66%
IRF1(IRF)/PBMC-IRF1-ChIP-Seq(GSE43036)/Homer	GAAAGTGAAAGT	1e0	-1.473e+00	0.6525	222.0	4.97%	960.6	4.73%
ZNF711(Zf)/SHSY5Y-ZNF711-ChIP-Seq(GSE20673)/Homer	AGGCCTAG	1e0	-1.454e+00	0.6603	725.0	16.23%	3215.8	15.83%
SeqBias: G/A bias	RRRRRRRRRR	1e0	-1.319e+00	0.7496	4467.0	100.00%	20312.3	99.97%
Tcf12(bHLH)/GM12878-Tcf12-ChIP-Seq(GSE32465)/Homer	VCAGCTGYTG	1e0	-1.302e+00	0.7573	405.0	9.07%	1788.1	8.80%
GFY-Staf(?,Zf)/Promoter/Homer	RACTACAATTCCCAGAAKGC	1e0	-1.281e+00	0.7681	15.0	0.34%	57.3	0.28%
Pbx3(Homeobox)/GM12878-PBX3-ChIP-Seq(GSE32465)/Homer	SCTGTCAMTCAN	1e0	-1.241e+00	0.7939	119.0	2.66%	513.4	2.53%
ETS1(ETS)/Jurkat-ETS1-ChIP-Seq(GSE17954)/Homer	ACAGGAAGTG	1e0	-1.219e+00	0.8054	820.0	18.36%	3665.7	18.04%
Foxa2(Forkhead)/Liver-Foxa2-ChIP-Seq(GSE25694)/Homer	CYTGTTTACWYW	1e0	-1.200e+00	0.8149	1158.0	25.92%	5196.7	25.58%
Brachyury(T-box)/Mesoendoderm-Brachyury-ChIP-exo(GSE54963)/Homer	ANTTMRCASBNNNGTGYKAAN	1e0	-1.162e+00	0.8410	238.0	5.33%	1048.8	5.16%
E2A(bHLH)/proBcell-E2A-ChIP-Seq(GSE21978)/Homer	DNRCAGCTGY	1e0	-1.156e+00	0.8410	630.0	14.10%	2813.3	13.85%
Jun-AP1(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	GATGASTCATCN	1e0	-1.131e+00	0.8552	82.0	1.84%	353.8	1.74%
DMRT6(DM)/Testis-DMRT6-ChIP-Seq(GSE60440)/Homer	YDGHTACAWTGTADC	1e0	-1.091e+00	0.8839	274.0	6.13%	1214.3	5.98%
EWS:FLI1-fusion(ETS)/SK_N_MC-EWS:FLI1-ChIP-Seq(SRA014231)/Homer	VACAGGAAAT	1e0	-1.088e+00	0.8839	464.0	10.39%	2070.6	10.19%
OCT:OCT(POU,Homeobox,IR1)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATWATTCATGA	1e0	-1.052e+00	0.9069	41.0	0.92%	174.1	0.86%
ZFX(Zf)/mES-Zfx-ChIP-Seq(GSE11431)/Homer	AGGCCTRG	1e0	-1.043e+00	0.9090	439.0	9.83%	1961.4	9.65%
ERE(NR),IR3/MCF7-ERa-ChIP-Seq(Unpublished)/Homer	VAGGTCACNSTGACC	1e0	-1.041e+00	0.9090	103.0	2.31%	450.0	2.21%
NF1:FOXA1(CTF,Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WNTGTTTRYTTTGGCA	1e0	-1.034e+00	0.9090	72.0	1.61%	312.3	1.54%
Smad2(MAD)/ES-SMAD2-ChIP-Seq(GSE29422)/Homer	CTGTCTGG	1e0	-1.022e+00	0.9100	945.0	21.16%	4252.3	20.93%
Hnf1(Homeobox)/Liver-Foxa2-Chip-Seq(GSE25694)/Homer	GGTTAAWCATTAA	1e0	-1.017e+00	0.9100	272.0	6.09%	1210.7	5.96%
Sp1(Zf)/Promoter/Homer	GGCCCCGCCCCC	1e0	-1.004e+00	0.9147	45.0	1.01%	193.8	0.95%
YY1(Zf)/Promoter/Homer	CAAGATGGCGGC	1e0	-1.003e+00	0.9147	54.0	1.21%	233.8	1.15%
Rbpj1(?)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	HTTTCCCASG	1e0	-9.808e-01	0.9244	990.0	22.16%	4461.3	21.96%
ETS:RUNX(ETS,Runt)/Jurkat-RUNX1-ChIP-Seq(GSE17954)/Homer	RCAGGATGTGGT	1e0	-9.658e-01	0.9324	31.0	0.69%	132.0	0.65%
SeqBias: A/T bias	WWWWWWWWWW	1e0	-9.333e-01	0.9572	4463.0	99.91%	20294.0	99.88%
EBF(EBF)/proBcell-EBF-ChIP-Seq(GSE21978)/Homer	DGTCCCYRGGGA	1e0	-8.710e-01	1.0000	45.0	1.01%	197.3	0.97%
Pknox1(Homeobox)/ES-Prep1-ChIP-Seq(GSE63282)/Homer	SCTGTCAVTCAV	1e0	-8.466e-01	1.0000	119.0	2.66%	531.3	2.61%
PGR(NR)/EndoStromal-PGR-ChIP-Seq(GSE69539)/Homer	AAGAACATWHTGTTC	1e0	-8.433e-01	1.0000	217.0	4.86%	974.1	4.79%
MafK(bZIP)/C2C12-MafK-ChIP-Seq(GSE36030)/Homer	GCTGASTCAGCA	1e0	-8.408e-01	1.0000	91.0	2.04%	405.3	1.99%
GFY(?)/Promoter/Homer	ACTACAATTCCC	1e0	-8.299e-01	1.0000	30.0	0.67%	131.2	0.65%
IRF:BATF(IRF:bZIP)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	CTTTCANTATGACTV	1e0	-8.005e-01	1.0000	179.0	4.01%	805.8	3.97%
Tcf21(bHLH)/ArterySmoothMuscle-Tcf21-ChIP-Seq(GSE61369)/Homer	NAACAGCTGG	1e0	-7.996e-01	1.0000	421.0	9.42%	1902.7	9.36%
p53(p53)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	ACATGCCCGGGCAT	1e0	-7.871e-01	1.0000	2.0	0.04%	7.2	0.04%
OCT4-SOX2-TCF-NANOG(POU,Homeobox,HMG)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAACAATG	1e0	-7.626e-01	1.0000	351.0	7.86%	1589.0	7.82%
Unknown2/Arabidopsis-Promoters/Homer	AAACGACGTCGTTTT	1e0	-7.299e-01	1.0000	36.0	0.81%	161.5	0.79%
Brn2(POU,Homeobox)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATATTC	1e0	-7.230e-01	1.0000	193.0	4.32%	874.1	4.30%
Smad4(MAD)/ESC-SMAD4-ChIP-Seq(GSE29422)/Homer	VBSYGTCTGG	1e0	-7.137e-01	1.0000	928.0	20.77%	4216.9	20.75%
LIN-15B(Zf)/cElegans-L3-LIN15B-ChIP-Seq(modEncode)/Homer	CARTGGAGCGCRYTTGCATT	1e0	-6.661e-01	1.0000	4.0	0.09%	17.9	0.09%
SeqBias: polyA-repeat	AAAAAAAAAA	1e0	-6.596e-01	1.0000	4467.0	100.00%	20315.4	99.98%
PAX3:FKHR-fusion(Paired,Homeobox)/Rh4-PAX3:FKHR-ChIP-Seq(GSE19063)/Homer	ACCRTGACTAATTNN	1e0	-6.342e-01	1.0000	349.0	7.81%	1592.5	7.84%
ZNF165(Zf)/WHIM12-ZNF165-ChIP-Seq(GSE65937)/Homer	AAGGKGRCGCAGGCA	1e0	-5.870e-01	1.0000	26.0	0.58%	120.9	0.60%
ZNF189(Zf)/HEK293-ZNF189.GFP-ChIP-Seq(GSE58341)/Homer	TGGAACAGMA	1e0	-5.409e-01	1.0000	657.0	14.71%	3009.8	14.81%
ZNF317(Zf)/HEK293-ZNF317.GFP-ChIP-Seq(GSE58341)/Homer	GTCWGCTGTYYCTCT	1e0	-5.244e-01	1.0000	51.0	1.14%	238.0	1.17%
Unknown1(NR/Ini-like)/Drosophila-Promoters/Homer	MYGGTCACACTG	1e0	-5.104e-01	1.0000	127.0	2.84%	589.7	2.90%
EBF1(EBF)/Near-E2A-ChIP-Seq(GSE21512)/Homer	GTCCCCWGGGGA	1e0	-5.075e-01	1.0000	230.0	5.15%	1062.4	5.23%
PAX6(Paired,Homeobox)/Forebrain-Pax6-ChIP-Seq(GSE66961)/Homer	NGTGTTCAVTSAAGCGKAAA	1e0	-4.837e-01	1.0000	81.0	1.81%	379.2	1.87%
Ascl1(bHLH)/NeuralTubes-Ascl1-ChIP-Seq(GSE55840)/Homer	NNVVCAGCTGBN	1e0	-4.664e-01	1.0000	698.0	15.63%	3209.3	15.79%
ZSCAN22(Zf)/HEK293-ZSCAN22.GFP-ChIP-Seq(GSE58341)/Homer	SMCAGTCWGAKGGAGGAGGC	1e0	-4.431e-01	1.0000	5.0	0.11%	25.4	0.12%
E-box/Drosophila-Promoters/Homer	AACAGCTGTTHN	1e0	-4.379e-01	1.0000	122.0	2.73%	573.0	2.82%
ZNF264(Zf)/HEK293-ZNF264.GFP-ChIP-Seq(GSE58341)/Homer	RGGGCACTAACY	1e0	-4.061e-01	1.0000	531.0	11.89%	2456.1	12.09%
PRDM1(Zf)/Hela-PRDM1-ChIP-Seq(GSE31477)/Homer	ACTTTCACTTTC	1e0	-3.995e-01	1.0000	646.0	14.46%	2984.6	14.69%
STAT5(Stat)/mCD4+-Stat5-ChIP-Seq(GSE12346)/Homer	RTTTCTNAGAAA	1e0	-3.819e-01	1.0000	346.0	7.75%	1611.7	7.93%
NeuroD1(bHLH)/Islet-NeuroD1-ChIP-Seq(GSE30298)/Homer	GCCATCTGTT	1e0	-3.667e-01	1.0000	407.0	9.11%	1894.6	9.32%
T1ISRE(IRF)/ThioMac-Ifnb-Expression/Homer	ACTTTCGTTTCT	1e0	-3.340e-01	1.0000	16.0	0.36%	82.4	0.41%
Mef2a(MADS)/HL1-Mef2a.biotin-ChIP-Seq(GSE21529)/Homer	CYAAAAATAG	1e0	-3.317e-01	1.0000	710.0	15.89%	3292.5	16.20%
SeqBias: GCW-triplet	GCWGCWGCWGCW	1e0	-3.253e-01	1.0000	4460.0	99.84%	20290.9	99.86%
CArG(MADS)/PUER-Srf-ChIP-Seq(Sullivan_et_al.)/Homer	CCATATATGGNM	1e0	-3.206e-01	1.0000	436.0	9.76%	2036.5	10.02%
Fox:Ebox(Forkhead,bHLH)/Panc1-Foxa2-ChIP-Seq(GSE47459)/Homer	NNNVCTGWGYAAACASN	1e0	-3.070e-01	1.0000	888.0	19.88%	4114.8	20.25%
PCF/Arabidopsis-Promoters/Homer	NNWWWTGGGCYTDDN	1e0	-2.994e-01	1.0000	344.0	7.70%	1616.0	7.95%
CEBP:CEBP(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	NTNATGCAAYMNNHTGMAAY	1e0	-2.961e-01	1.0000	233.0	5.22%	1103.3	5.43%
GATA3(Zf),DR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATGKDGAGATAAG	1e0	-2.946e-01	1.0000	142.0	3.18%	680.5	3.35%
RARg(NR)/ES-RARg-ChIP-Seq(GSE30538)/Homer	AGGTCAAGGTCA	1e0	-2.910e-01	1.0000	9.0	0.20%	49.9	0.25%
Tlx?(NR)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	CTGGCAGSCTGCCA	1e0	-2.881e-01	1.0000	94.0	2.10%	456.8	2.25%
THRa(NR)/C17.2-THRa-ChIP-Seq(GSE38347)/Homer	GGTCANYTGAGGWCA	1e0	-2.733e-01	1.0000	132.0	2.96%	636.4	3.13%
TCFL2(HMG)/K562-TCF7L2-ChIP-Seq(GSE29196)/Homer	ACWTCAAAGG	1e0	-2.704e-01	1.0000	104.0	2.33%	505.8	2.49%
NF-E2(bZIP)/K562-NFE2-ChIP-Seq(GSE31477)/Homer	GATGACTCAGCA	1e0	-2.673e-01	1.0000	17.0	0.38%	90.3	0.44%
Srebp1a(bHLH)/HepG2-Srebp1a-ChIP-Seq(GSE31477)/Homer	RTCACSCCAY	1e0	-2.667e-01	1.0000	122.0	2.73%	590.5	2.91%
GFX(?)/Promoter/Homer	ATTCTCGCGAGA	1e0	-2.455e-01	1.0000	11.0	0.25%	61.7	0.30%
PU.1(ETS)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	AGAGGAAGTG	1e0	-2.407e-01	1.0000	272.0	6.09%	1295.0	6.37%
PU.1:IRF8(ETS:IRF)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	GGAAGTGAAAST	1e0	-2.295e-01	1.0000	184.0	4.12%	886.3	4.36%
Pit1+1bp(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGCATAATTCA	1e0	-2.285e-01	1.0000	790.0	17.69%	3688.3	18.15%
Sox15(HMG)/CPA-Sox15-ChIP-Seq(GSE62909)/Homer	RAACAATGGN	1e0	-2.209e-01	1.0000	1548.0	34.65%	7162.2	35.25%
 Ik-1	NHTTGGGAATRCC	1e0	-2.199e-01	1.0000	4467.0	100.00%	20318.9	100.00%
RBFox2(?)/Heart-RBFox2-CLIP-Seq(GSE57926)/Homer	TGCATGCA	1e0	-2.144e-01	1.0000	1708.0	38.24%	7895.2	38.86%
SPDEF(ETS)/VCaP-SPDEF-ChIP-Seq(SRA014231)/Homer	ASWTCCTGBT	1e0	-2.071e-01	1.0000	880.0	19.70%	4109.2	20.22%
Bach2(bZIP)/OCILy7-Bach2-ChIP-Seq(GSE44420)/Homer	TGCTGAGTCA	1e0	-1.914e-01	1.0000	77.0	1.72%	387.4	1.91%
Oct4:Sox17(POU,Homeobox,HMG)/F9-Sox17-ChIP-Seq(GSE44553)/Homer	CCATTGTATGCAAAT	1e0	-1.829e-01	1.0000	232.0	5.19%	1120.2	5.51%
Unknown4/Drosophila-Promoters/Homer	AAAAATACCRMA	1e0	-1.764e-01	1.0000	382.0	8.55%	1821.3	8.96%
ZNF528(Zf)/HEK293-ZNF528.GFP-ChIP-Seq(GSE58341)/Homer	AGAAATGACTTCCCT	1e0	-1.729e-01	1.0000	2.0	0.04%	15.1	0.07%
Mef2b(MADS)/HEK293-Mef2b.V5-ChIP-Seq(GSE67450)/Homer	GCTATTTTTGGM	1e0	-1.697e-01	1.0000	1414.0	31.65%	6573.0	32.35%
ZNF322(Zf)/HEK293-ZNF322.GFP-ChIP-Seq(GSE58341)/Homer	GAGCCTGGTACTGWGCCTGR	1e0	-1.658e-01	1.0000	42.0	0.94%	221.7	1.09%
Tbx20(T-box)/Heart-Tbx20-ChIP-Seq(GSE29636)/Homer	GGTGYTGACAGS	1e0	-1.462e-01	1.0000	167.0	3.74%	823.5	4.05%
TATA-Box(TBP)/Promoter/Homer	CCTTTTAWAGSC	1e0	-1.462e-01	1.0000	1796.0	40.21%	8331.8	41.01%
NFkB-p65(RHD)/GM12787-p65-ChIP-Seq(GSE19485)/Homer	WGGGGATTTCCC	1e0	-1.412e-01	1.0000	305.0	6.83%	1473.3	7.25%
RUNX2(Runt)/PCa-RUNX2-ChIP-Seq(GSE33889)/Homer	NWAACCACADNN	1e0	-1.394e-01	1.0000	660.0	14.78%	3123.1	15.37%
Sox4(HMG)/proB-Sox4-ChIP-Seq(GSE50066)/Homer	YCTTTGTTCC	1e0	-1.365e-01	1.0000	1012.0	22.66%	4747.5	23.36%
Meis1(Homeobox)/MastCells-Meis1-ChIP-Seq(GSE48085)/Homer	VGCTGWCAVB	1e0	-1.361e-01	1.0000	1104.0	24.71%	5170.9	25.45%
ZNF416(Zf)/HEK293-ZNF416.GFP-ChIP-Seq(GSE58341)/Homer	WDNCTGGGCA	1e0	-1.340e-01	1.0000	403.0	9.02%	1933.7	9.52%
Pax7(Paired,Homeobox),long/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCHGATTAC	1e0	-1.294e-01	1.0000	69.0	1.54%	358.0	1.76%
Ap4(bHLH)/AML-Tfap4-ChIP-Seq(GSE45738)/Homer	NAHCAGCTGD	1e0	-1.287e-01	1.0000	501.0	11.22%	2391.0	11.77%
NFAT:AP1(RHD,bZIP)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	SARTGGAAAAWRTGAGTCAB	1e0	-7.958e-02	1.0000	168.0	3.76%	848.3	4.17%
ETS:E-box(ETS,bHLH)/HPC7-Scl-ChIP-Seq(GSE22178)/Homer	AGGAARCAGCTG	1e0	-7.725e-02	1.0000	32.0	0.72%	184.1	0.91%
RUNX(Runt)/HPC7-Runx1-ChIP-Seq(GSE22178)/Homer	SAAACCACAG	1e0	-7.552e-02	1.0000	558.0	12.49%	2685.6	13.22%
Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq(GSE22178)/Homer	MAATCACTGC	1e0	-7.495e-02	1.0000	463.0	10.36%	2242.5	11.04%
ZNF669(Zf)/HEK293-ZNF669.GFP-ChIP-Seq(GSE58341)/Homer	GARTGGTCATCGCCC	1e0	-7.236e-02	1.0000	43.0	0.96%	241.7	1.19%
MyoD(bHLH)/Myotube-MyoD-ChIP-Seq(GSE21614)/Homer	RRCAGCTGYTSY	1e0	-7.053e-02	1.0000	346.0	7.75%	1696.8	8.35%
STAT1(Stat)/HelaS3-STAT1-ChIP-Seq(GSE12782)/Homer	NATTTCCNGGAAAT	1e0	-6.175e-02	1.0000	355.0	7.95%	1744.1	8.58%
FoxL2(Forkhead)/Ovary-FoxL2-ChIP-Seq(GSE60858)/Homer	WWTRTAAACAVG	1e0	-5.323e-02	1.0000	1523.0	34.09%	7161.1	35.24%
IRF2(IRF)/Erythroblas-IRF2-ChIP-Seq(GSE36985)/Homer	GAAASYGAAASY	1e0	-5.322e-02	1.0000	134.0	3.00%	696.9	3.43%
HOXA2(Homeobox)/mES-Hoxa2-ChIP-Seq(Donaldson_et_al.)/Homer	GYCATCMATCAT	1e0	-5.255e-02	1.0000	149.0	3.34%	769.0	3.78%
NF1(CTF)/LNCAP-NF1-ChIP-Seq(Unpublished)/Homer	CYTGGCABNSTGCCAR	1e0	-4.895e-02	1.0000	102.0	2.28%	542.5	2.67%
FOXA1(Forkhead)/MCF7-FOXA1-ChIP-Seq(GSE26831)/Homer	WAAGTAAACA	1e0	-4.831e-02	1.0000	1539.0	34.45%	7241.5	35.64%
ZNF136(Zf)/HEK293-ZNF136.GFP-ChIP-Seq(GSE58341)/Homer	YTKGATAHAGTATTCTWGGTNGGCA	1e0	-4.778e-02	1.0000	108.0	2.42%	572.7	2.82%
ELF5(ETS)/T47D-ELF5-ChIP-Seq(GSE30407)/Homer	ACVAGGAAGT	1e0	-3.945e-02	1.0000	722.0	16.16%	3483.8	17.15%
SOC1(MADS)/Seedling-SOC1-ChIP-Seq(GSE45846)/Homer	TWCCAWWTWTGG	1e0	-3.850e-02	1.0000	746.0	16.70%	3597.0	17.70%
HRE(HSF)/HepG2-HSF1-ChIP-Seq(GSE31477)/Homer	BSTTCTRGAABVTTCYAGAA	1e0	-3.752e-02	1.0000	81.0	1.81%	444.8	2.19%
RUNX-AML(Runt)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	GCTGTGGTTW	1e0	-3.559e-02	1.0000	470.0	10.52%	2309.9	11.37%
Mef2c(MADS)/GM12878-Mef2c-ChIP-Seq(GSE32465)/Homer	DCYAAAAATAGM	1e0	-3.203e-02	1.0000	817.0	18.29%	3936.4	19.37%
Unknown3/Drosophila-Promoters/Homer	ACVAKCTGGCAGCGC	1e0	-2.839e-02	1.0000	31.0	0.69%	193.1	0.95%
PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer	ADGGYAGYAGCATCT	1e0	-2.316e-02	1.0000	419.0	9.38%	2086.8	10.27%
SeqBias: C/A-bias	MMMMMMMMMM	1e0	-2.112e-02	1.0000	4466.0	99.98%	20318.9	100.00%
ZNF382(Zf)/HEK293-ZNF382.GFP-ChIP-Seq(GSE58341)/Homer	GNCTGTASTRNTGBCTCHTT	1e0	-2.059e-02	1.0000	14.0	0.31%	103.9	0.51%
Atf4(bZIP)/MEF-Atf4-ChIP-Seq(GSE35681)/Homer	MTGATGCAAT	1e0	-1.962e-02	1.0000	540.0	12.09%	2664.4	13.11%
NFAT(RHD)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	ATTTTCCATT	1e0	-1.852e-02	1.0000	1321.0	29.57%	6299.4	31.00%
Znf263(Zf)/K562-Znf263-ChIP-Seq(GSE31477)/Homer	CVGTSCTCCC	1e0	-1.798e-02	1.0000	652.0	14.60%	3194.1	15.72%
Pax7(Paired,Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCAATTA	1e0	-1.740e-02	1.0000	262.0	5.87%	1347.6	6.63%
LXRE(NR),DR4/RAW-LXRb.biotin-ChIP-Seq(GSE21512)/Homer	RGGTTACTANAGGTCA	1e0	-1.723e-02	1.0000	17.0	0.38%	123.0	0.61%
AARE(HLH)/mES-cMyc-ChIP-Seq/Homer	GATTGCATCA	1e0	-1.684e-02	1.0000	156.0	3.49%	833.5	4.10%
HRE(HSF)/Striatum-HSF1-ChIP-Seq(GSE38000)/Homer	TTCTAGAABNTTCTA	1e0	-1.498e-02	1.0000	216.0	4.84%	1129.4	5.56%
Ptf1a(bHLH)/Panc1-Ptf1a-ChIP-Seq(GSE47459)/Homer	ACAGCTGTTN	1e0	-1.467e-02	1.0000	1272.0	28.48%	6086.5	29.96%
Esrrb(NR)/mES-Esrrb-ChIP-Seq(GSE11431)/Homer	KTGACCTTGA	1e0	-1.410e-02	1.0000	434.0	9.72%	2176.6	10.71%
Brn1(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	TATGCWAATBAV	1e0	-1.323e-02	1.0000	411.0	9.20%	2069.3	10.18%
SEP3(MADS)/Arabidoposis-Flower-Sep3-ChIP-Seq/Homer	CCAAAAAGGG	1e0	-1.305e-02	1.0000	2151.0	48.15%	10120.7	49.81%
MafA(bZIP)/Islet-MafA-ChIP-Seq(GSE30298)/Homer	TGCTGACTCA	1e0	-1.158e-02	1.0000	447.0	10.01%	2245.3	11.05%
GATA(Zf),IR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NAGATWNBNATCTNN	1e0	-1.006e-02	1.0000	108.0	2.42%	606.0	2.98%
FOXA1(Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WAAGTAAACA	1e0	-9.954e-03	1.0000	1755.0	39.29%	8328.9	40.99%
Gata1(Zf)/K562-GATA1-ChIP-Seq(GSE18829)/Homer	SAGATAAGRV	1e0	-9.080e-03	1.0000	873.0	19.54%	4259.1	20.96%
ISRE(IRF)/ThioMac-LPS-Expression(GSE23622)/Homer	AGTTTCASTTTC	1e0	-8.367e-03	1.0000	67.0	1.50%	400.7	1.97%
CTCF-SatelliteElement(Zf?)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	TGCAGTTCCMVNWRTGGCCA	1e0	-8.071e-03	1.0000	4.0	0.09%	47.9	0.24%
Sox9(HMG)/Limb-SOX9-ChIP-Seq(GSE73225)/Homer	AGGVNCCTTTGT	1e0	-6.640e-03	1.0000	805.0	18.02%	3955.6	19.47%
ZNF415(Zf)/HEK293-ZNF415.GFP-ChIP-Seq(GSE58341)/Homer	GRTGMTRGAGCC	1e0	-6.364e-03	1.0000	224.0	5.01%	1191.2	5.86%
RUNX1(Runt)/Jurkat-RUNX1-ChIP-Seq(GSE29180)/Homer	AAACCACARM	1e0	-6.051e-03	1.0000	789.0	17.66%	3884.9	19.12%
Pax7(Paired,Homeobox),longest/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	NTAATTDGCYAATTANNWWD	1e0	-5.531e-03	1.0000	69.0	1.54%	417.3	2.05%
Hoxb4(Homeobox)/ES-Hoxb4-ChIP-Seq(GSE34014)/Homer	TGATTRATGGCY	1e0	-4.589e-03	1.0000	247.0	5.53%	1312.8	6.46%
STAT6(Stat)/Macrophage-Stat6-ChIP-Seq(GSE38377)/Homer	TTCCKNAGAA	1e0	-4.006e-03	1.0000	705.0	15.78%	3506.9	17.26%
EWS:ERG-fusion(ETS)/CADO_ES1-EWS:ERG-ChIP-Seq(SRA014231)/Homer	ATTTCCTGTN	1e0	-3.398e-03	1.0000	634.0	14.19%	3177.4	15.64%
Gata2(Zf)/K562-GATA2-ChIP-Seq(GSE18829)/Homer	BBCTTATCTS	1e0	-3.316e-03	1.0000	1002.0	22.43%	4906.2	24.15%
Chop(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	ATTGCATCAT	1e0	-3.208e-03	1.0000	392.0	8.78%	2025.3	9.97%
Foxh1(Forkhead)/hESC-FOXH1-ChIP-Seq(GSE29422)/Homer	NNTGTGGATTSS	1e0	-3.043e-03	1.0000	813.0	18.20%	4025.5	19.81%
bZIP:IRF(bZIP,IRF)/Th17-BatF-ChIP-Seq(GSE39756)/Homer	NAGTTTCABTHTGACTNW	1e0	-2.816e-03	1.0000	521.0	11.66%	2647.5	13.03%
JunD(bZIP)/K562-JunD-ChIP-Seq/Homer	ATGACGTCATCN	1e0	-2.616e-03	1.0000	44.0	0.99%	294.6	1.45%
FXR(NR),IR1/Liver-FXR-ChIP-Seq(Chong_et_al.)/Homer	AGGTCANTGACCTB	1e0	-2.482e-03	1.0000	163.0	3.65%	911.4	4.49%
Foxo1(Forkhead)/RAW-Foxo1-ChIP-Seq(Fan_et_al.)/Homer	CTGTTTAC	1e0	-2.286e-03	1.0000	1836.0	41.10%	8775.5	43.19%
Atf7(bZIP)/3T3L1-Atf7-ChIP-Seq(GSE56872)/Homer	NGRTGACGTCAY	1e0	-1.742e-03	1.0000	427.0	9.56%	2212.0	10.89%
Nr5a2(NR)/mES-Nr5a2-ChIP-Seq(GSE19019)/Homer	BTCAAGGTCA	1e0	-1.093e-03	1.0000	292.0	6.54%	1569.8	7.73%
EHF(ETS)/LoVo-EHF-ChIP-Seq(GSE49402)/Homer	AVCAGGAAGT	1e0	-1.080e-03	1.0000	1194.0	26.73%	5848.2	28.78%
Pit1(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGMATATDC	1e0	-1.074e-03	1.0000	1956.0	43.79%	9359.5	46.06%
Nur77(NR)/K562-NR4A1-ChIP-Seq(GSE31363)/Homer	TGACCTTTNCNT	1e0	-8.890e-04	1.0000	169.0	3.78%	962.9	4.74%
Nrf2(bZIP)/Lymphoblast-Nrf2-ChIP-Seq(GSE37589)/Homer	HTGCTGAGTCAT	1e0	-8.200e-04	1.0000	6.0	0.13%	76.3	0.38%
SeqBias: CG bias	SSSSSSSSSS	1e0	-6.060e-04	1.0000	3677.0	82.31%	17087.6	84.10%
E2A(bHLH),near_PU.1/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	NVCACCTGBN	1e0	-5.720e-04	1.0000	644.0	14.42%	3286.9	16.18%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	AGGTCAAGGTCA	1e0	-5.180e-04	1.0000	34.0	0.76%	256.6	1.26%
GATA3(Zf),DR8/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATSTNDNNDSAGATAASN	1e0	-4.470e-04	1.0000	94.0	2.10%	587.2	2.89%
Unknown2/Drosophila-Promoters/Homer	CATCMCTA	1e0	-3.430e-04	1.0000	721.0	16.14%	3669.0	18.06%
RORgt(NR)/EL4-RORgt.Flag-ChIP-Seq(GSE56019)/Homer	AAYTAGGTCA	1e0	-3.370e-04	1.0000	79.0	1.77%	511.6	2.52%
Oct6(POU,Homeobox)/NPC-Oct6-ChIP-Seq(GSE35496)/Homer	WATGCAAATGAG	1e0	-2.700e-04	1.0000	534.0	11.95%	2782.1	13.69%
FOXM1(Forkhead)/MCF7-FOXM1-ChIP-Seq(GSE72977)/Homer	TRTTTACTTW	1e0	-2.330e-04	1.0000	1397.0	31.27%	6852.7	33.73%
Mouse_Recombination_Hotspot(Zf)/Testis-DMC1-ChIP-Seq(GSE24438)/Homer	ACTYKNATTCGTGNTACTTC	1e0	-2.220e-04	1.0000	49.0	1.10%	351.9	1.73%
MafF(bZIP)/HepG2-MafF-ChIP-Seq(GSE31477)/Homer	HWWGTCAGCAWWTTT	1e0	-2.000e-04	1.0000	376.0	8.42%	2023.6	9.96%
PR(NR)/T47D-PR-ChIP-Seq(GSE31130)/Homer	VAGRACAKNCTGTBC	1e0	-1.920e-04	1.0000	1626.0	36.40%	7918.1	38.97%
Atf2(bZIP)/3T3L1-Atf2-ChIP-Seq(GSE56872)/Homer	NRRTGACGTCAT	1e0	-1.500e-04	1.0000	226.0	5.06%	1285.1	6.32%
ELT-3(Gata)/cElegans-L1-ELT3-ChIP-Seq(modEncode)/Homer	AWTGATAAGA	1e0	-1.440e-04	1.0000	930.0	20.82%	4687.1	23.07%
c-Jun-CRE(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	ATGACGTCATCY	1e0	-7.500e-05	1.0000	181.0	4.05%	1069.7	5.26%
Sox10(HMG)/SciaticNerve-Sox3-ChIP-Seq(GSE35132)/Homer	CCWTTGTYYB	1e0	-6.900e-05	1.0000	1798.0	40.25%	8748.2	43.05%
Stat3+il21(Stat)/CD4-Stat3-ChIP-Seq(GSE19198)/Homer	SVYTTCCNGGAARB	1e0	-6.000e-05	1.0000	583.0	13.05%	3060.8	15.06%
Erra(NR)/HepG2-Erra-ChIP-Seq(GSE31477)/Homer	CAAAGGTCAG	1e0	-5.500e-05	1.0000	1033.0	23.13%	5204.8	25.62%
PQM-1(?)/cElegans-L3-ChIP-Seq(modEncode)/Homer	ACTGATAAGA	1e0	-4.800e-05	1.0000	743.0	16.63%	3834.0	18.87%
VDR(NR),DR3/GM10855-VDR+vitD-ChIP-Seq(GSE22484)/Homer	ARAGGTCANWGAGTTCANNN	1e0	-4.800e-05	1.0000	74.0	1.66%	509.3	2.51%
GATA(Zf),IR3/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NNNNNBAGATAWYATCTVHN	1e0	-4.700e-05	1.0000	163.0	3.65%	984.2	4.84%
Otx2(Homeobox)/EpiLC-Otx2-ChIP-Seq(GSE56098)/Homer	NYTAATCCYB	1e0	-4.600e-05	1.0000	978.0	21.89%	4951.5	24.37%
HLH-1(bHLH)/cElegans-Embryo-HLH1-ChIP-Seq(modEncode)/Homer	RACAGCTGTTBH	1e0	-2.400e-05	1.0000	561.0	12.56%	2978.6	14.66%
Zelda(Zf)/Embryo-zld-ChIP-Seq(GSE65441)/Homer	KBCTACCTGW	1e0	-2.200e-05	1.0000	300.0	6.72%	1696.6	8.35%
DREF/Drosophila-Promoters/Homer	AVYTATCGATAD	1e0	-2.000e-05	1.0000	88.0	1.97%	597.6	2.94%
CEBP:AP1(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	DRTGTTGCAA	1e0	-1.900e-05	1.0000	1175.0	26.30%	5906.0	29.07%
Olig2(bHLH)/Neuron-Olig2-ChIP-Seq(GSE30882)/Homer	RCCATMTGTT	1e0	-1.400e-05	1.0000	1470.0	32.91%	7290.9	35.88%
Nkx2.2(Homeobox)/NPC-Nkx2.2-ChIP-Seq(GSE61673)/Homer	BTBRAGTGSN	1e0	-1.000e-05	1.0000	1467.0	32.84%	7288.9	35.87%
Nr5a2(NR)/Pancreas-LRH1-ChIP-Seq(GSE34295)/Homer	BTCAAGGTCA	1e0	-1.000e-05	1.0000	418.0	9.36%	2300.3	11.32%
Oct4(POU,Homeobox)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAW	1e0	-3.000e-06	1.0000	674.0	15.09%	3578.8	17.61%
Oct2(POU,Homeobox)/Bcell-Oct2-ChIP-Seq(GSE21512)/Homer	ATATGCAAAT	1e0	-3.000e-06	1.0000	437.0	9.78%	2422.7	11.92%
PRDM14(Zf)/H1-PRDM14-ChIP-Seq(GSE22767)/Homer	RGGTCTCTAACY	1e0	-2.000e-06	1.0000	165.0	3.69%	1045.6	5.15%
Unknown5/Drosophila-Promoters/Homer	GCTGATAASV	1e0	-1.000e-06	1.0000	895.0	20.04%	4660.7	22.94%
CEBP(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	ATTGCGCAAC	1e0	-1.000e-06	1.0000	1318.0	29.51%	6661.0	32.78%
HNF4a(NR),DR1/HepG2-HNF4a-ChIP-Seq(GSE25021)/Homer	CARRGKBCAAAGTYCA	1e0	-0.000e+00	1.0000	189.0	4.23%	1203.2	5.92%
Nkx2.5(Homeobox)/HL1-Nkx2.5.biotin-ChIP-Seq(GSE21529)/Homer	RRSCACTYAA	1e0	-0.000e+00	1.0000	1693.0	37.90%	8466.1	41.67%
ZBTB12(Zf)/HEK293-ZBTB12.GFP-ChIP-Seq(GSE58341)/Homer	NGNTCTAGAACCNGV	1e0	-0.000e+00	1.0000	208.0	4.66%	1315.6	6.47%
Atf1(bZIP)/K562-ATF1-ChIP-Seq(GSE31477)/Homer	GATGACGTCA	1e0	-0.000e+00	1.0000	872.0	19.52%	4622.5	22.75%
Unknown4/Arabidopsis-Promoters/Homer	CKTCKTCTTY	1e0	-0.000e+00	1.0000	1399.0	31.32%	7124.7	35.06%
Tcf4(HMG)/Hct116-Tcf4-ChIP-Seq(SRA012054)/Homer	ASATCAAAGGVA	1e0	-0.000e+00	1.0000	555.0	12.42%	3089.1	15.20%
TEAD2(TEA)/Py2T-Tead2-ChIP-Seq(GSE55709)/Homer	CCWGGAATGY	1e0	-0.000e+00	1.0000	322.0	7.21%	1920.2	9.45%
Lhx2(Homeobox)/HFSC-Lhx2-ChIP-Seq(GSE48068)/Homer	TAATTAGN	1e0	-0.000e+00	1.0000	1790.0	40.07%	8944.9	44.02%
HOXA9(Homeobox)/HSC-Hoxa9-ChIP-Seq(GSE33509)/Homer	GGCCATAAATCA	1e0	-0.000e+00	1.0000	1076.0	24.09%	5638.0	27.75%
TEAD4(TEA)/Tropoblast-Tead4-ChIP-Seq(GSE37350)/Homer	CCWGGAATGY	1e0	-0.000e+00	1.0000	625.0	13.99%	3461.6	17.04%
Cdx2(Homeobox)/mES-Cdx2-ChIP-Seq(GSE14586)/Homer	GYMATAAAAH	1e0	-0.000e+00	1.0000	1335.0	29.89%	6868.7	33.80%
HOXB13(Homeobox)/ProstateTumor-HOXB13-ChIP-Seq(GSE56288)/Homer	TTTTATKRGG	1e0	-0.000e+00	1.0000	1747.0	39.11%	8789.8	43.26%
Tal1	CATCTG	1e0	-0.000e+00	1.0000	914.0	20.46%	4875.1	23.99%
Lhx1(Homeobox)/EmbryoCarcinoma-Lhx1-ChIP-Seq(GSE70957)/Homer	NNYTAATTAR	1e0	-0.000e+00	1.0000	1830.0	40.97%	9192.9	45.24%
Bcl6(Zf)/Liver-Bcl6-ChIP-Seq(GSE31578)/Homer	NNNCTTTCCAGGAAA	1e0	-0.000e+00	1.0000	1049.0	23.48%	5540.6	27.27%
Sox3(HMG)/NPC-Sox3-ChIP-Seq(GSE33059)/Homer	CCWTTGTY	1e0	-0.000e+00	1.0000	2079.0	46.54%	10345.7	50.92%
BMYB(HTH)/Hela-BMYB-ChIP-Seq(GSE27030)/Homer	NHAACBGYYV	1e0	-0.000e+00	1.0000	2022.0	45.27%	10087.4	49.65%
Sox6(HMG)/Myotubes-Sox6-ChIP-Seq(GSE32627)/Homer	CCATTGTTNY	1e0	-0.000e+00	1.0000	2236.0	50.06%	11064.8	54.46%
Bapx1(Homeobox)/VertebralCol-Bapx1-ChIP-Seq(GSE36672)/Homer	TTRAGTGSYK	1e0	-0.000e+00	1.0000	1620.0	36.27%	8253.2	40.62%
Nkx3.1(Homeobox)/LNCaP-Nkx3.1-ChIP-Seq(GSE28264)/Homer	AAGCACTTAA	1e0	-0.000e+00	1.0000	1839.0	41.17%	9269.1	45.62%
STAT4(Stat)/CD4-Stat4-ChIP-Seq(GSE22104)/Homer	NYTTCCWGGAAR	1e0	-0.000e+00	1.0000	1005.0	22.50%	5362.5	26.39%
STAT6(Stat)/CD4-Stat6-ChIP-Seq(GSE22104)/Homer	ABTTCYYRRGAA	1e0	-0.000e+00	1.0000	670.0	15.00%	3741.8	18.42%
caudal(Homeobox)/Drosophila-Embryos-ChIP-Chip(modEncode)/Homer	GGYCATAAAW	1e0	-0.000e+00	1.0000	1552.0	34.74%	7951.1	39.13%
Unknown(Homeobox)/Limb-p300-ChIP-Seq/Homer	SSCMATWAAA	1e0	-0.000e+00	1.0000	980.0	21.94%	5256.4	25.87%
Gata4(Zf)/Heart-Gata4-ChIP-Seq(GSE35151)/Homer	NBWGATAAGR	1e0	-0.000e+00	1.0000	1534.0	34.34%	7904.1	38.90%
Tbx5(T-box)/HL1-Tbx5.biotin-ChIP-Seq(GSE21529)/Homer	AGGTGTCA	1e0	-0.000e+00	1.0000	2150.0	48.13%	10743.6	52.87%
PHA-4(Forkhead)/cElegans-Embryos-PHA4-ChIP-Seq(modEncode)/Homer	KTGTTTGC	1e0	-0.000e+00	1.0000	3067.0	68.66%	14826.4	72.97%
IRF4(IRF)/GM12878-IRF4-ChIP-Seq(GSE32465)/Homer	ACTGAAACCA	1e0	-0.000e+00	1.0000	458.0	10.25%	2722.4	13.40%
NF1-halfsite(CTF)/LNCaP-NF1-ChIP-Seq(Unpublished)/Homer	YTGCCAAG	1e0	-0.000e+00	1.0000	1177.0	26.35%	6247.6	30.75%
AR-halfsite(NR)/LNCaP-AR-ChIP-Seq(GSE27824)/Homer	CCAGGAACAG	1e0	-0.000e+00	1.0000	2117.0	47.39%	10628.9	52.31%
AMYB(HTH)/Testes-AMYB-ChIP-Seq(GSE44588)/Homer	TGGCAGTTGG	1e0	-0.000e+00	1.0000	1718.0	38.46%	8810.9	43.36%
GRHL2(CP2)/HBE-GRHL2-ChIP-Seq(GSE46194)/Homer	AAACYKGTTWDACMRGTTTB	1e0	-0.000e+00	1.0000	284.0	6.36%	1854.5	9.13%
Eomes(T-box)/H9-Eomes-ChIP-Seq(GSE26097)/Homer	ATTAACACCT	1e0	-0.000e+00	1.0000	2075.0	46.45%	10472.2	51.54%
GSC(Homeobox)/FrogEmbryos-GSC-ChIP-Seq(DRA000576)/Homer	RGGATTAR	1e0	-0.000e+00	1.0000	1504.0	33.67%	7845.1	38.61%
Pdx1(Homeobox)/Islet-Pdx1-ChIP-Seq(SRA008281)/Homer	YCATYAATCA	1e0	-0.000e+00	1.0000	1385.0	31.01%	7314.9	36.00%
SeqBias: GA-repeat	GAGAGAGAGA	1e0	-0.000e+00	1.0000	3820.0	85.52%	18073.5	88.95%
Initiator/Drosophila-Promoters/Homer	NTCAGTYG	1e0	-0.000e+00	1.0000	1837.0	41.12%	9423.2	46.38%
Hoxc9(Homeobox)/Ainv15-Hoxc9-ChIP-Seq(GSE21812)/Homer	GGCCATAAATCA	1e0	-0.000e+00	1.0000	797.0	17.84%	4537.0	22.33%
Phox2a(Homeobox)/Neuron-Phox2a-ChIP-Seq(GSE31456)/Homer	YTAATYNRATTA	1e0	-0.000e+00	1.0000	720.0	16.12%	4166.3	20.50%
Tcf3(HMG)/mES-Tcf3-ChIP-Seq(GSE11724)/Homer	ASWTCAAAGG	1e0	-0.000e+00	1.0000	269.0	6.02%	1843.7	9.07%
HOXD13(Homeobox)/Chicken-Hoxd13-ChIP-Seq(GSE38910)/Homer	NCYAATAAAA	1e0	-0.000e+00	1.0000	1741.0	38.97%	9057.0	44.57%
LHY(Myb)/Seedling-LHY-ChIP-Seq(GSE52175)/Homer	ADAAATATCT	1e0	-0.000e+00	1.0000	1843.0	41.26%	9540.9	46.96%
NFY(CCAAT)/Promoter/Homer	RGCCAATSRG	1e0	-0.000e+00	1.0000	1025.0	22.95%	5695.8	28.03%
Isl1(Homeobox)/Neuron-Isl1-ChIP-Seq(GSE31456)/Homer	CTAATKGV	1e0	-0.000e+00	1.0000	2295.0	51.38%	11665.4	57.41%
PABPC1(?)/MEL-PABC1-CLIP-Seq(GSE69755)/Homer	HAATAAAGNN	1e0	-0.000e+00	1.0000	2843.0	63.64%	14095.0	69.37%
CHR(?)/Hela-CellCycle-Expression/Homer	SRGTTTCAAA	1e0	0.000e+00	1.0000	900.0	20.15%	5854.3	28.81%
CRX(Homeobox)/Retina-Crx-ChIP-Seq(GSE20012)/Homer	GCTAATCC	1e0	0.000e+00	1.0000	2483.0	55.59%	12618.6	62.10%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	RGGTCADNNAGAGGTCAV	1e0	0.000e+00	1.0000	0.0	0.00%	11.2	0.06%
GATA3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATAASR	1e0	0.000e+00	1.0000	2207.0	49.41%	11359.7	55.91%
HNF6(Homeobox)/Liver-Hnf6-ChIP-Seq(ERP000394)/Homer	NTATYGATCH	1e0	0.000e+00	1.0000	1220.0	27.31%	6946.4	34.19%
Lhx3(Homeobox)/Neuron-Lhx3-ChIP-Seq(GSE31456)/Homer	ADBTAATTAR	1e0	0.000e+00	1.0000	2460.0	55.07%	12732.7	62.66%
MYB(HTH)/ERMYB-Myb-ChIPSeq(GSE22095)/Homer	GGCVGTTR	1e0	0.000e+00	1.0000	2360.0	52.83%	11989.2	59.00%
Nanog(Homeobox)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	RGCCATTAAC	1e0	0.000e+00	1.0000	3428.0	76.74%	17860.6	87.90%
Nkx2.1(Homeobox)/LungAC-Nkx2.1-ChIP-Seq(GSE43252)/Homer	RSCACTYRAG	1e0	0.000e+00	1.0000	2038.0	45.62%	10620.3	52.27%
Nkx6.1(Homeobox)/Islet-Nkx6.1-ChIP-Seq(GSE40975)/Homer	GKTAATGR	1e0	0.000e+00	1.0000	3403.0	76.18%	17331.6	85.30%
Pitx1(Homeobox)/Chicken-Pitx1-ChIP-Seq(GSE38910)/Homer	TAATCCCN	1e0	0.000e+00	1.0000	3309.0	74.08%	17642.5	86.83%
REST-NRSF(Zf)/Jurkat-NRSF-ChIP-Seq/Homer	GGMGCTGTCCATGGTGCTGA	1e0	0.000e+00	1.0000	0.0	0.00%	2.8	0.01%
SCL(bHLH)/HPC7-Scl-ChIP-Seq(GSE13511)/Homer	AVCAGCTG	1e0	0.000e+00	1.0000	2127.0	47.62%	12034.8	59.23%
Smad3(MAD)/NPC-Smad3-ChIP-Seq(GSE36673)/Homer	TWGTCTGV	1e0	0.000e+00	1.0000	1452.0	32.51%	7816.8	38.47%
TEAD(TEA)/Fibroblast-PU.1-ChIP-Seq(Unpublished)/Homer	YCWGGAATGY	1e0	0.000e+00	1.0000	504.0	11.28%	3345.8	16.47%
Tgif1(Homeobox)/mES-Tgif1-ChIP-Seq(GSE55404)/Homer	YTGWCADY	1e0	0.000e+00	1.0000	2394.0	53.59%	12515.5	61.60%
Tgif2(Homeobox)/mES-Tgif2-ChIP-Seq(GSE55404)/Homer	TGTCANYT	1e0	0.000e+00	1.0000	2509.0	56.17%	12881.7	63.40%
ZFP3(Zf)/HEK293-ZFP3.GFP-ChIP-Seq(GSE58341)/Homer	GGGTTTTGAAGGATGARTAGGAGTT	1e0	0.000e+00	1.0000	0.0	0.00%	0.5	0.00%
ZNF16(Zf)/HEK293-ZNF16.GFP-ChIP-Seq(GSE58341)/Homer	MACCTTCYATGGCTCCCTAKTGCCY	1e0	0.000e+00	1.0000	0.0	0.00%	1.1	0.01%
SeqBias: CA-repeat	CACACACACA	1e0	0.000e+00	1.0000	3297.0	73.81%	16510.8	81.26%
SeqBias: polyC-repeat	CCCCCCCCCC	1e0	0.000e+00	1.0000	4402.0	98.54%	20286.4	99.84%
Unknown6/Drosophila-Promoters/Homer	AATTTTAAAA	1e0	0.000e+00	1.0000	1410.0	31.56%	7651.6	37.66%
KANADI1(Myb)/Seedling-KAN1-ChIP-Seq(GSE48081)/Homer	ARGAATAWWN	1e0	0.000e+00	1.0000	2283.0	51.11%	11734.6	57.75%
CES-1(Homeobox)/cElegans-L1-CES1-ChIP-Seq(modEncode)/Homer	AAATTSAATTTN	1e0	0.000e+00	1.0000	1046.0	23.42%	6030.6	29.68%
EGL-5(Homeobox)/cElegans-L3-EGL5-ChIP-Seq(modEncode)/Homer	ATTTAATGGG	1e0	0.000e+00	1.0000	2089.0	46.77%	11046.3	54.36%
LIN-39(Homeobox)/cElegans.L3-LIN39-ChIP-Seq(modEncode)/Homer	ATGATTRATG	1e0	0.000e+00	1.0000	1993.0	44.62%	10395.9	51.16%