Motif Name	Consensus	P-value	Log P-value	q-value (Benjamini)	# of Target Sequences with Motif(of 4171)	% of Target Sequences with Motif	# of Background Sequences with Motif(of 21500)	% of Background Sequences with Motif
ABF1/SacCer-Promoters/Homer	CGTRNAAARTGA	1e-231	-5.341e+02	0.0000	1450.0	34.76%	3123.9	14.53%
REB1/SacCer-Promoters/Homer	KCCGGGTAAYRR	1e-190	-4.382e+02	0.0000	918.0	22.00%	1610.4	7.49%
RLR1?/SacCer-Promoters/Homer	WTTTTCYYTTTT	1e-79	-1.825e+02	0.0000	2003.0	48.01%	7269.3	33.80%
c-Myc(bHLH)/LNCAP-cMyc-ChIP-Seq(Unpublished)/Homer	VCCACGTG	1e-68	-1.568e+02	0.0000	574.0	13.76%	1341.7	6.24%
bHLHE40(bHLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer	KCACGTGMCN	1e-59	-1.371e+02	0.0000	441.0	10.57%	960.9	4.47%
Cbf1(bHLH)/Yeast-Cbf1-ChIP-Seq(GSE29506)/Homer	TCACGTGAYH	1e-56	-1.293e+02	0.0000	420.0	10.07%	918.3	4.27%
n-Myc(bHLH)/mES-nMyc-ChIP-Seq(GSE11431)/Homer	VRCCACGTGG	1e-56	-1.291e+02	0.0000	648.0	15.53%	1738.0	8.08%
SeqBias: CG-repeat	CGCGCGCGCG	1e-55	-1.273e+02	0.0000	762.0	18.26%	2189.9	10.18%
CLOCK(bHLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer	GHCACGTG	1e-54	-1.244e+02	0.0000	561.0	13.45%	1435.4	6.67%
DPL-1(E2F)/cElegans-Adult-ChIP-Seq(modEncode)/Homer	TAGCGCGC	1e-49	-1.146e+02	0.0000	1054.0	25.26%	3486.6	16.21%
USF1(bHLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer	SGTCACGTGR	1e-49	-1.135e+02	0.0000	484.0	11.60%	1205.5	5.61%
Usf2(bHLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer	GTCACGTGGT	1e-46	-1.072e+02	0.0000	392.0	9.40%	907.1	4.22%
SFP1/SacCer-Promoters/Homer	DDAAAAATTTTY	1e-45	-1.041e+02	0.0000	642.0	15.39%	1852.6	8.61%
E-box/Arabidopsis-Promoters/Homer	GCCACGTG	1e-43	-9.942e+01	0.0000	520.0	12.46%	1407.1	6.54%
Max(bHLH)/K562-Max-ChIP-Seq(GSE31477)/Homer	RCCACGTGGYYN	1e-36	-8.512e+01	0.0000	564.0	13.52%	1660.6	7.72%
E-box(bHLH)/Promoter/Homer	SSGGTCACGTGA	1e-34	-8.015e+01	0.0000	138.0	3.31%	200.9	0.93%
Pho2(bHLH)/Yeast-Pho2-ChIP-Seq(GSE29506)/Homer	CCCACGTGCT	1e-34	-7.859e+01	0.0000	413.0	9.90%	1115.7	5.19%
PIF5ox(bHLH)/Arabidopsis-PIF5ox-ChIP-Seq(GSE35062)/Homer	BCACGTGVDN	1e-33	-7.824e+01	0.0000	840.0	20.13%	2859.0	13.29%
PIF4(bHLH)/Seedling-PIF4-ChIP-Seq(GSE35315)/Homer	NNBCACGTGN	1e-30	-6.977e+01	0.0000	917.0	21.98%	3273.6	15.22%
IBL1(bHLH)/Seedling-IBL1-ChIP-Seq(GSE51120)/Homer	CACGTGCC	1e-28	-6.448e+01	0.0000	1261.0	30.23%	4902.0	22.79%
TATA-box/SacCer-Promoters/Homer	BBHWTATATA	1e-27	-6.218e+01	0.0000	1865.0	44.70%	7849.4	36.50%
SPCH(bHLH)/Seedling-SPCH-ChIP-Seq(GSE57497)/Homer	WNBCACGTGA	1e-27	-6.218e+01	0.0000	1036.0	24.83%	3888.2	18.08%
TOD6?/SacCer-Promoters/Homer	GCGATGAGMT	1e-25	-5.789e+01	0.0000	332.0	7.96%	924.8	4.30%
E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer	GGCGGGAAAH	1e-22	-5.284e+01	0.0000	756.0	18.12%	2731.8	12.70%
NPAS2(bHLH)/Liver-NPAS2-ChIP-Seq(GSE39860)/Homer	KCCACGTGAC	1e-21	-5.012e+01	0.0000	754.0	18.07%	2751.4	12.79%
Egr2(Zf)/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer	NGCGTGGGCGGR	1e-20	-4.632e+01	0.0000	132.0	3.16%	269.6	1.25%
FHY3(FAR1)/Arabidopsis-FHY3-ChIP-Seq(GSE30711)/Homer	HHCACGCGCBTN	1e-19	-4.605e+01	0.0000	393.0	9.42%	1243.2	5.78%
BMAL1(bHLH)/Liver-Bmal1-ChIP-Seq(GSE39860)/Homer	GNCACGTG	1e-19	-4.392e+01	0.0000	1327.0	31.81%	5495.1	25.55%
MITF(bHLH)/MastCells-MITF-ChIP-Seq(GSE48085)/Homer	RTCATGTGAC	1e-18	-4.246e+01	0.0000	740.0	17.74%	2775.7	12.91%
KLF10(Zf)/HEK293-KLF10.GFP-ChIP-Seq(GSE58341)/Homer	GGGGGTGTGTCC	1e-17	-3.965e+01	0.0000	237.0	5.68%	670.5	3.12%
c-Myc(bHLH)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	VVCCACGTGG	1e-16	-3.711e+01	0.0000	322.0	7.72%	1023.9	4.76%
Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo_et_al.)/Homer	TBGCACGCAA	1e-13	-3.223e+01	0.0000	981.0	23.51%	4031.1	18.74%
ZNF467(Zf)/HEK293-ZNF467.GFP-ChIP-Seq(GSE58341)/Homer	TGGGGAAGGGCM	1e-13	-3.152e+01	0.0000	300.0	7.19%	978.8	4.55%
KLF14(Zf)/HEK293-KLF14.GFP-ChIP-Seq(GSE58341)/Homer	RGKGGGCGKGGC	1e-13	-3.144e+01	0.0000	515.0	12.34%	1901.5	8.84%
SUT1?/SacCer-Promoters/Homer	CCCCGCGC	1e-12	-2.842e+01	0.0000	2789.0	66.85%	13229.0	61.51%
SeqBias: TA-repeat	TATATATATA	1e-11	-2.701e+01	0.0000	3707.0	88.85%	18314.7	85.16%
Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer	TGCGTGGGYG	1e-11	-2.571e+01	0.0000	286.0	6.86%	971.5	4.52%
ZBTB33(Zf)/GM12878-ZBTB33-ChIP-Seq(GSE32465)/Homer	GGVTCTCGCGAGAAC	1e-10	-2.402e+01	0.0000	60.0	1.44%	116.4	0.54%
KLF5(Zf)/LoVo-KLF5-ChIP-Seq(GSE49402)/Homer	DGGGYGKGGC	1e-10	-2.391e+01	0.0000	434.0	10.40%	1633.9	7.60%
Pho4(bHLH)/Yeast-Pho4-ChIP-Seq(GSE29506)/Homer	AAGCACGTGBGD	1e-10	-2.372e+01	0.0000	142.0	3.40%	405.4	1.89%
Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer	GGGGGGGG	1e-10	-2.370e+01	0.0000	272.0	6.52%	932.0	4.33%
Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer	GCCACACCCA	1e-10	-2.336e+01	0.0000	138.0	3.31%	392.7	1.83%
Klf9(Zf)/GBM-Klf9-ChIP-Seq(GSE62211)/Homer	GCCACRCCCACY	1e-9	-2.263e+01	0.0000	122.0	2.92%	336.8	1.57%
CRE(bZIP)/Promoter/Homer	CSGTGACGTCAC	1e-9	-2.131e+01	0.0000	193.0	4.63%	624.9	2.91%
GAGA-repeat/Arabidopsis-Promoters/Homer	CTCTCTCTCY	1e-8	-2.063e+01	0.0000	475.0	11.39%	1862.9	8.66%
EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer	NWGGGTGTGGCY	1e-6	-1.610e+01	0.0000	95.0	2.28%	273.7	1.27%
NRF(NRF)/Promoter/Homer	STGCGCATGCGC	1e-6	-1.536e+01	0.0000	93.0	2.23%	270.3	1.26%
E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer	VDTTTCCCGCCA	1e-6	-1.460e+01	0.0000	121.0	2.90%	386.9	1.80%
HIF-1b(HLH)/T47D-HIF1b-ChIP-Seq(GSE59937)/Homer	RTACGTGC	1e-5	-1.362e+01	0.0000	1477.0	35.40%	6873.6	31.96%
PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	MGGAAGTGAAAC	1e-5	-1.359e+01	0.0000	1347.0	32.29%	6223.0	28.94%
HIF2a(bHLH)/785_O-HIF2a-ChIP-Seq(GSE34871)/Homer	GCACGTACCC	1e-5	-1.331e+01	0.0000	651.0	15.60%	2818.2	13.10%
HIF-1a(bHLH)/MCF7-HIF1a-ChIP-Seq(GSE28352)/Homer	TACGTGCV	1e-5	-1.313e+01	0.0000	445.0	10.67%	1847.2	8.59%
Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer	NRYTTCCGGY	1e-5	-1.250e+01	0.0000	949.0	22.75%	4284.6	19.92%
E2F1(E2F)/Hela-E2F1-ChIP-Seq(GSE22478)/Homer	CWGGCGGGAA	1e-5	-1.207e+01	0.0000	179.0	4.29%	655.5	3.05%
E2F(E2F)/Hela-CellCycle-Expression/Homer	TTSGCGCGAAAA	1e-5	-1.202e+01	0.0000	114.0	2.73%	379.3	1.76%
Pax8(Paired,Homeobox)/Thyroid-Pax8-ChIP-Seq(GSE26938)/Homer	GTCATGCHTGRCTGS	1e-5	-1.165e+01	0.0001	124.0	2.97%	424.5	1.97%
BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer	DATGASTCAT	1e-4	-1.083e+01	0.0001	523.0	12.54%	2263.3	10.52%
ETS(ETS)/Promoter/Homer	AACCGGAAGT	1e-4	-1.080e+01	0.0001	322.0	7.72%	1318.1	6.13%
TR4(NR),DR1/Hela-TR4-ChIP-Seq(GSE24685)/Homer	GAGGTCAAAGGTCA	1e-4	-1.027e+01	0.0002	53.0	1.27%	149.6	0.70%
RFX(HTH)/K562-RFX3-ChIP-Seq(SRA012198)/Homer	CGGTTGCCATGGCAAC	1e-4	-9.959e+00	0.0003	75.0	1.80%	237.0	1.10%
Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer	HACTTCCGGY	1e-4	-9.898e+00	0.0003	767.0	18.38%	3467.7	16.12%
PAX5(Paired,Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GCAGCCAAGCRTGACH	1e-4	-9.594e+00	0.0004	191.0	4.58%	740.5	3.44%
Dorsal(RHD)/Embryo-dl-ChIP-Seq(GSE65441)/Homer	GGGAAAAMCCCG	1e-3	-8.984e+00	0.0008	197.0	4.72%	776.3	3.61%
ELF1(ETS)/Jurkat-ELF1-ChIP-Seq(SRA014231)/Homer	AVCCGGAAGT	1e-3	-8.889e+00	0.0008	525.0	12.58%	2320.4	10.79%
GABPA(ETS)/Jurkat-GABPa-ChIP-Seq(GSE17954)/Homer	RACCGGAAGT	1e-3	-8.686e+00	0.0010	723.0	17.33%	3288.7	15.29%
PPARE(NR),DR1/3T3L1-Pparg-ChIP-Seq(GSE13511)/Homer	TGACCTTTGCCCCA	1e-3	-8.623e+00	0.0011	453.0	10.86%	1981.5	9.21%
Fli1(ETS)/CD8-FLI-ChIP-Seq(GSE20898)/Homer	NRYTTCCGGH	1e-3	-8.463e+00	0.0012	1219.0	29.22%	5757.8	26.77%
NRF1(NRF)/MCF7-NRF1-ChIP-Seq(Unpublished)/Homer	CTGCGCATGCGC	1e-3	-8.391e+00	0.0013	40.0	0.96%	111.7	0.52%
GATA:SCL(Zf,bHLH)/Ter119-SCL-ChIP-Seq(GSE18720)/Homer	CRGCTGBNGNSNNSAGATAA	1e-3	-7.359e+00	0.0036	104.0	2.49%	385.0	1.79%
ZNF711(Zf)/SHSY5Y-ZNF711-ChIP-Seq(GSE20673)/Homer	AGGCCTAG	1e-3	-7.128e+00	0.0044	681.0	16.32%	3132.7	14.57%
Unknown-ESC-element(?)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	CACAGCAGGGGG	1e-3	-6.910e+00	0.0054	159.0	3.81%	636.6	2.96%
Fra1(bZIP)/BT549-Fra1-ChIP-Seq(GSE46166)/Homer	NNATGASTCATH	1e-2	-6.832e+00	0.0058	455.0	10.91%	2038.5	9.48%
ZNF143|STAF(Zf)/CUTLL-ZNF143-ChIP-Seq(GSE29600)/Homer	ATTTCCCAGVAKSCY	1e-2	-6.795e+00	0.0059	109.0	2.61%	413.8	1.92%
SpiB(ETS)/OCILY3-SPIB-ChIP-Seq(GSE56857)/Homer	AAAGRGGAAGTG	1e-2	-6.460e+00	0.0082	256.0	6.14%	1095.9	5.10%
Zic(Zf)/Cerebellum-ZIC1.2-ChIP-Seq(GSE60731)/Homer	CCTGCTGAGH	1e-2	-6.453e+00	0.0082	357.0	8.56%	1576.3	7.33%
RXR(NR),DR1/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer	TAGGGCAAAGGTCA	1e-2	-6.211e+00	0.0102	464.0	11.12%	2100.1	9.76%
NFkB-p50,p52(RHD)/Monocyte-p50-ChIP-Chip(Schreiber_et_al.)/Homer	GGGGGAATCCCC	1e-2	-5.810e+00	0.0151	34.0	0.81%	104.4	0.49%
Trl(Zf)/S2-GAGAfactor-ChIP-Seq(GSE40646)/Homer	RGAGAGAG	1e-2	-5.807e+00	0.0151	1513.0	36.27%	7361.3	34.23%
GEI-11(Myb?)/cElegans-L4-GEI11-ChIP-Seq(modEncode)/Homer	CCGACAYYTYACGGG	1e-2	-5.806e+00	0.0151	39.0	0.93%	124.1	0.58%
FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer	NYYTGTTTACHN	1e-2	-5.495e+00	0.0199	669.0	16.04%	3132.2	14.56%
Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer	GTTGCCATGGCAACM	1e-2	-5.478e+00	0.0200	73.0	1.75%	271.5	1.26%
PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer	GSCTGTCACTCA	1e-2	-5.415e+00	0.0210	29.0	0.70%	87.1	0.40%
TATA-box/Drosophila-Promoters/Homer	CTATAAAAGCSV	1e-2	-5.260e+00	0.0242	187.0	4.48%	796.9	3.71%
ARE(NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	RGRACASNSTGTYCYB	1e-2	-5.135e+00	0.0271	120.0	2.88%	487.3	2.27%
Six1(Homeobox)/Myoblast-Six1-ChIP-Chip(GSE20150)/Homer	GKVTCADRTTWC	1e-2	-4.762e+00	0.0389	294.0	7.05%	1319.6	6.14%
Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer	SCCTAGCAACAG	1e-2	-4.721e+00	0.0401	232.0	5.56%	1022.5	4.75%
X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	GGTTGCCATGGCAA	1e-2	-4.706e+00	0.0402	106.0	2.54%	431.0	2.00%
GFY(?)/Promoter/Homer	ACTACAATTCCC	1e-2	-4.656e+00	0.0418	36.0	0.86%	121.8	0.57%
ZNF692(Zf)/HEK293-ZNF692.GFP-ChIP-Seq(GSE58341)/Homer	GTGGGCCCCA	1e-1	-4.575e+00	0.0448	46.0	1.10%	164.9	0.77%
Fosl2(bZIP)/3T3L1-Fosl2-ChIP-Seq(GSE56872)/Homer	NATGASTCABNN	1e-1	-4.569e+00	0.0448	159.0	3.81%	679.2	3.16%
AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	VTGACTCATC	1e-1	-4.521e+00	0.0463	541.0	12.97%	2537.7	11.80%
ZNF519(Zf)/HEK293-ZNF519.GFP-ChIP-Seq(GSE58341)/Homer	GAGSCCGAGC	1e-1	-4.520e+00	0.0463	44.0	1.05%	156.3	0.73%
GAGA-repeat/SacCer-Promoters/Homer	CTYTCTYTCTCTCTC	1e-1	-4.504e+00	0.0463	3235.0	77.54%	16350.8	76.03%
BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer	CNNBRGCGCCCCCTGSTGGC	1e-1	-4.350e+00	0.0531	32.0	0.77%	107.4	0.50%
PAX5(Paired,Homeobox),condensed/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GTCACGCTCSCTGM	1e-1	-4.146e+00	0.0645	66.0	1.58%	257.3	1.20%
E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer	GGCGGGAARN	1e-1	-4.136e+00	0.0645	241.0	5.78%	1081.2	5.03%
AP-2alpha(AP2)/Hela-AP2alpha-ChIP-Seq(GSE31477)/Homer	ATGCCCTGAGGC	1e-1	-4.132e+00	0.0645	143.0	3.43%	613.7	2.85%
p53(p53)/Saos-p53-ChIP-Seq(GSE15780)/Homer	RRCATGYCYRGRCATGYYYN	1e-1	-4.057e+00	0.0676	57.0	1.37%	218.4	1.02%
p53(p53)/Saos-p53-ChIP-Seq/Homer	RRCATGYCYRGRCATGYYYN	1e-1	-4.057e+00	0.0676	57.0	1.37%	218.4	1.02%
CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	AYAGTGCCMYCTRGTGGCCA	1e-1	-4.000e+00	0.0709	36.0	0.86%	127.2	0.59%
Ets1-distal(ETS)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	MACAGGAAGT	1e-1	-3.868e+00	0.0801	180.0	4.31%	795.2	3.70%
GLI3(Zf)/Limb-GLI3-ChIP-Chip(GSE11077)/Homer	CGTGGGTGGTCC	1e-1	-3.657e+00	0.0980	43.0	1.03%	161.3	0.75%
ZNF528(Zf)/HEK293-ZNF528.GFP-ChIP-Seq(GSE58341)/Homer	AGAAATGACTTCCCT	1e-1	-3.536e+00	0.1094	7.0	0.17%	16.0	0.07%
AP-2gamma(AP2)/MCF7-TFAP2C-ChIP-Seq(GSE21234)/Homer	SCCTSAGGSCAW	1e-1	-3.413e+00	0.1226	211.0	5.06%	957.7	4.45%
ZSCAN22(Zf)/HEK293-ZSCAN22.GFP-ChIP-Seq(GSE58341)/Homer	SMCAGTCWGAKGGAGGAGGC	1e-1	-3.296e+00	0.1364	12.0	0.29%	34.5	0.16%
NFkB-p65-Rel(RHD)/ThioMac-LPS-Expression(GSE23622)/Homer	GGAAATTCCC	1e-1	-3.153e+00	0.1561	54.0	1.29%	217.2	1.01%
Atf3(bZIP)/GBM-ATF3-ChIP-Seq(GSE33912)/Homer	DATGASTCATHN	1e-1	-3.128e+00	0.1584	471.0	11.29%	2250.5	10.46%
Srebp2(bHLH)/HepG2-Srebp2-ChIP-Seq(GSE31477)/Homer	CGGTCACSCCAC	1e-1	-2.996e+00	0.1791	60.0	1.44%	247.7	1.15%
EBNA1(EBV-virus)/Raji-EBNA1-ChIP-Seq(GSE30709)/Homer	GGYAGCAYDTGCTDCCCNNN	1e-1	-2.992e+00	0.1791	10.0	0.24%	28.8	0.13%
Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer	BAACAGCTGT	1e-1	-2.953e+00	0.1835	298.0	7.14%	1399.2	6.51%
Unknown3/Arabidopsis-Promoters/Homer	AYTAAACCGG	1e-1	-2.925e+00	0.1870	451.0	10.81%	2160.1	10.04%
Unknown1/Arabidopsis-Promoters/Homer	RGGGTAWWWTHGTAA	1e-1	-2.885e+00	0.1930	144.0	3.45%	648.7	3.02%
REST-NRSF(Zf)/Jurkat-NRSF-ChIP-Seq/Homer	GGMGCTGTCCATGGTGCTGA	1e-1	-2.841e+00	0.1998	2.0	0.05%	2.4	0.01%
IRF1(IRF)/PBMC-IRF1-ChIP-Seq(GSE43036)/Homer	GAAAGTGAAAGT	1e-1	-2.734e+00	0.2205	211.0	5.06%	979.5	4.55%
Jun-AP1(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	GATGASTCATCN	1e-1	-2.661e+00	0.2351	76.0	1.82%	328.5	1.53%
Stat3(Stat)/mES-Stat3-ChIP-Seq(GSE11431)/Homer	CTTCCGGGAA	1e-1	-2.647e+00	0.2365	415.0	9.95%	1994.7	9.28%
ERG(ETS)/VCaP-ERG-ChIP-Seq(GSE14097)/Homer	ACAGGAAGTG	1e-1	-2.580e+00	0.2507	1038.0	24.88%	5144.1	23.92%
DMRT1(DM)/Testis-DMRT1-ChIP-Seq(GSE64892)/Homer	TWGHWACAWTGTWDC	1e-1	-2.569e+00	0.2514	328.0	7.86%	1564.4	7.27%
ZNF675(Zf)/HEK293-ZNF675.GFP-ChIP-Seq(GSE58341)/Homer	ARGAGGMCAAAATGW	1e-1	-2.513e+00	0.2636	135.0	3.24%	615.4	2.86%
GFX(?)/Promoter/Homer	ATTCTCGCGAGA	1e-1	-2.508e+00	0.2636	13.0	0.31%	43.9	0.20%
MafK(bZIP)/C2C12-MafK-ChIP-Seq(GSE36030)/Homer	GCTGASTCAGCA	1e-1	-2.441e+00	0.2786	93.0	2.23%	415.0	1.93%
ZNF41(Zf)/HEK293-ZNF41.GFP-ChIP-Seq(GSE58341)/Homer	CCTCATGGTGYCYTWYTCCCTTGTG	1e-1	-2.373e+00	0.2956	22.0	0.53%	83.2	0.39%
Etv2(ETS)/ES-ER71-ChIP-Seq(GSE59402)/Homer(0.967)	NNAYTTCCTGHN	1e-1	-2.349e+00	0.3005	634.0	15.20%	3112.1	14.47%
ETS1(ETS)/Jurkat-ETS1-ChIP-Seq(GSE17954)/Homer	ACAGGAAGTG	1e0	-2.293e+00	0.3151	738.0	17.69%	3642.6	16.94%
Pbx3(Homeobox)/GM12878-PBX3-ChIP-Seq(GSE32465)/Homer	SCTGTCAMTCAN	1e0	-2.286e+00	0.3151	111.0	2.66%	506.0	2.35%
RARg(NR)/ES-RARg-ChIP-Seq(GSE30538)/Homer	AGGTCAAGGTCA	1e0	-2.252e+00	0.3232	13.0	0.31%	45.8	0.21%
ETV1(ETS)/GIST48-ETV1-ChIP-Seq(GSE22441)/Homer	AACCGGAAGT	1e0	-2.078e+00	0.3814	1025.0	24.57%	5118.4	23.80%
Tbox:Smad(T-box,MAD)/ESCd5-Smad2_3-ChIP-Seq(GSE29422)/Homer	AGGTGHCAGACA	1e0	-2.026e+00	0.3987	85.0	2.04%	386.3	1.80%
Sox2(HMG)/mES-Sox2-ChIP-Seq(GSE11431)/Homer	BCCATTGTTC	1e0	-1.920e+00	0.4399	1217.0	29.17%	6113.4	28.43%
EFL-1(E2F)/cElegans-L1-EFL1-ChIP-Seq(modEncode)/Homer	TGCAARYGCGCTCYA	1e0	-1.850e+00	0.4682	16.0	0.38%	62.9	0.29%
ZNF189(Zf)/HEK293-ZNF189.GFP-ChIP-Seq(GSE58341)/Homer	TGGAACAGMA	1e0	-1.800e+00	0.4883	580.0	13.90%	2877.7	13.38%
Bach1(bZIP)/K562-Bach1-ChIP-Seq(GSE31477)/Homer	AWWNTGCTGAGTCAT	1e0	-1.728e+00	0.5206	25.0	0.60%	105.5	0.49%
Tbet(T-box)/CD8-Tbet-ChIP-Seq(GSE33802)/Homer	AGGTGTGAAM	1e0	-1.684e+00	0.5403	969.0	23.23%	4868.3	22.64%
Sp1(Zf)/Promoter/Homer	GGCCCCGCCCCC	1e0	-1.665e+00	0.5462	47.0	1.13%	211.4	0.98%
ZFX(Zf)/mES-Zfx-ChIP-Seq(GSE11431)/Homer	AGGCCTRG	1e0	-1.647e+00	0.5519	400.0	9.59%	1976.8	9.19%
Unknown1(NR/Ini-like)/Drosophila-Promoters/Homer	MYGGTCACACTG	1e0	-1.639e+00	0.5524	122.0	2.92%	580.4	2.70%
Unknown2/Arabidopsis-Promoters/Homer	AAACGACGTCGTTTT	1e0	-1.592e+00	0.5747	34.0	0.81%	150.1	0.70%
EWS:FLI1-fusion(ETS)/SK_N_MC-EWS:FLI1-ChIP-Seq(SRA014231)/Homer	VACAGGAAAT	1e0	-1.542e+00	0.6000	411.0	9.85%	2040.0	9.49%
MyoG(bHLH)/C2C12-MyoG-ChIP-Seq(GSE36024)/Homer	AACAGCTG	1e0	-1.508e+00	0.6165	390.0	9.35%	1935.8	9.00%
GRE(NR),IR3/RAW264.7-GRE-ChIP-Seq(Unpublished)/Homer	VAGRACAKWCTGTYC	1e0	-1.442e+00	0.6534	163.0	3.91%	793.6	3.69%
p63(p53)/Keratinocyte-p63-ChIP-Seq(GSE17611)/Homer	NNDRCATGYCYNRRCATGYH	1e0	-1.424e+00	0.6609	168.0	4.03%	819.7	3.81%
ETS:RUNX(ETS,Runt)/Jurkat-RUNX1-ChIP-Seq(GSE17954)/Homer	RCAGGATGTGGT	1e0	-1.370e+00	0.6923	31.0	0.74%	140.9	0.66%
Mef2d(MADS)/Retina-Mef2d-ChIP-Seq(GSE61391)/Homer	GCTATTTTTAGC	1e0	-1.360e+00	0.6949	341.0	8.17%	1697.4	7.89%
RBPJ:Ebox(?,bHLH)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	GGGRAARRGRMCAGMTG	1e0	-1.339e+00	0.7042	110.0	2.64%	532.8	2.48%
T1ISRE(IRF)/ThioMac-Ifnb-Expression/Homer	ACTTTCGTTTCT	1e0	-1.312e+00	0.7184	20.0	0.48%	88.7	0.41%
HEB(bHLH)/mES-Heb-ChIP-Seq(GSE53233)/Homer	VCAGCTGBNN	1e0	-1.290e+00	0.7294	766.0	18.36%	3870.9	18.00%
DMRT6(DM)/Testis-DMRT6-ChIP-Seq(GSE60440)/Homer	YDGHTACAWTGTADC	1e0	-1.261e+00	0.7460	233.0	5.58%	1156.9	5.38%
ERE(NR),IR3/MCF7-ERa-ChIP-Seq(Unpublished)/Homer	VAGGTCACNSTGACC	1e0	-1.236e+00	0.7594	86.0	2.06%	416.4	1.94%
YY1(Zf)/Promoter/Homer	CAAGATGGCGGC	1e0	-1.186e+00	0.7934	53.0	1.27%	253.0	1.18%
GFY-Staf(?,Zf)/Promoter/Homer	RACTACAATTCCCAGAAKGC	1e0	-1.177e+00	0.7952	16.0	0.38%	71.2	0.33%
FOXA1:AR(Forkhead,NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	AGTAAACAAAAAAGAACAND	1e0	-1.136e+00	0.8226	87.0	2.09%	425.9	1.98%
PRDM1(Zf)/Hela-PRDM1-ChIP-Seq(GSE31477)/Homer	ACTTTCACTTTC	1e0	-1.108e+00	0.8409	601.0	14.41%	3046.0	14.16%
SPDEF(ETS)/VCaP-SPDEF-ChIP-Seq(SRA014231)/Homer	ASWTCCTGBT	1e0	-1.039e+00	0.8945	817.0	19.58%	4160.7	19.35%
ZNF264(Zf)/HEK293-ZNF264.GFP-ChIP-Seq(GSE58341)/Homer	RGGGCACTAACY	1e0	-9.922e-01	0.9317	492.0	11.79%	2499.7	11.62%
GRE(NR),IR3/A549-GR-ChIP-Seq(GSE32465)/Homer	NRGVACABNVTGTYCY	1e0	-9.714e-01	0.9451	69.0	1.65%	341.6	1.59%
PCF/Arabidopsis-Promoters/Homer	NNWWWTGGGCYTDDN	1e0	-8.984e-01	1.0000	312.0	7.48%	1586.6	7.38%
ZNF165(Zf)/WHIM12-ZNF165-ChIP-Seq(GSE65937)/Homer	AAGGKGRCGCAGGCA	1e0	-8.628e-01	1.0000	21.0	0.50%	102.4	0.48%
THRa(NR)/C17.2-THRa-ChIP-Seq(GSE38347)/Homer	GGTCANYTGAGGWCA	1e0	-8.362e-01	1.0000	124.0	2.97%	628.2	2.92%
Brachyury(T-box)/Mesoendoderm-Brachyury-ChIP-exo(GSE54963)/Homer	ANTTMRCASBNNNGTGYKAAN	1e0	-8.209e-01	1.0000	204.0	4.89%	1039.0	4.83%
SeqBias: G/A bias	RRRRRRRRRR	1e0	-7.760e-01	1.0000	4172.0	100.00%	21502.5	99.98%
NF1:FOXA1(CTF,Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WNTGTTTRYTTTGGCA	1e0	-7.622e-01	1.0000	58.0	1.39%	294.2	1.37%
OCT:OCT(POU,Homeobox,IR1)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATWATTCATGA	1e0	-7.425e-01	1.0000	36.0	0.86%	182.7	0.85%
Foxa2(Forkhead)/Liver-Foxa2-ChIP-Seq(GSE25694)/Homer	CYTGTTTACWYW	1e0	-7.248e-01	1.0000	1012.0	24.26%	5209.8	24.22%
E-box/Drosophila-Promoters/Homer	AACAGCTGTTHN	1e0	-7.018e-01	1.0000	112.0	2.68%	576.0	2.68%
Pknox1(Homeobox)/ES-Prep1-ChIP-Seq(GSE63282)/Homer	SCTGTCAVTCAV	1e0	-6.879e-01	1.0000	106.0	2.54%	545.3	2.54%
EBF1(EBF)/Near-E2A-ChIP-Seq(GSE21512)/Homer	GTCCCCWGGGGA	1e0	-6.438e-01	1.0000	208.0	4.99%	1075.8	5.00%
EBF(EBF)/proBcell-EBF-ChIP-Seq(GSE21978)/Homer	DGTCCCYRGGGA	1e0	-5.914e-01	1.0000	36.0	0.86%	188.6	0.88%
Rfx1(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	KGTTGCCATGGCAA	1e0	-5.866e-01	1.0000	127.0	3.04%	661.3	3.07%
PU.1:IRF8(ETS:IRF)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	GGAAGTGAAAST	1e0	-5.860e-01	1.0000	176.0	4.22%	915.9	4.26%
PGR(NR)/EndoStromal-PGR-ChIP-Seq(GSE69539)/Homer	AAGAACATWHTGTTC	1e0	-5.847e-01	1.0000	192.0	4.60%	998.7	4.64%
IRF:BATF(IRF:bZIP)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	CTTTCANTATGACTV	1e0	-5.646e-01	1.0000	149.0	3.57%	777.8	3.62%
HRE(HSF)/HepG2-HSF1-ChIP-Seq(GSE31477)/Homer	BSTTCTRGAABVTTCYAGAA	1e0	-5.610e-01	1.0000	81.0	1.94%	425.0	1.98%
RUNX2(Runt)/PCa-RUNX2-ChIP-Seq(GSE33889)/Homer	NWAACCACADNN	1e0	-5.459e-01	1.0000	592.0	14.19%	3073.5	14.29%
Tcf12(bHLH)/GM12878-Tcf12-ChIP-Seq(GSE32465)/Homer	VCAGCTGYTG	1e0	-5.272e-01	1.0000	342.0	8.20%	1782.7	8.29%
Smad4(MAD)/ESC-SMAD4-ChIP-Seq(GSE29422)/Homer	VBSYGTCTGG	1e0	-5.205e-01	1.0000	817.0	19.58%	4241.8	19.72%
E2A(bHLH)/proBcell-E2A-ChIP-Seq(GSE21978)/Homer	DNRCAGCTGY	1e0	-5.125e-01	1.0000	530.0	12.70%	2758.5	12.83%
Reverb(NR),DR2/RAW-Reverba.biotin-ChIP-Seq(GSE45914)/Homer	GTRGGTCASTGGGTCA	1e0	-4.968e-01	1.0000	24.0	0.58%	130.0	0.60%
p53(p53)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	ACATGCCCGGGCAT	1e0	-4.765e-01	1.0000	1.0	0.02%	5.8	0.03%
Rbpj1(?)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	HTTTCCCASG	1e0	-4.720e-01	1.0000	862.0	20.66%	4484.1	20.85%
FOXA1(Forkhead)/MCF7-FOXA1-ChIP-Seq(GSE26831)/Homer	WAAGTAAACA	1e0	-4.569e-01	1.0000	1363.0	32.67%	7077.7	32.91%
Tlx?(NR)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	CTGGCAGSCTGCCA	1e0	-4.517e-01	1.0000	85.0	2.04%	453.9	2.11%
ZBTB18(Zf)/HEK293-ZBTB18.GFP-ChIP-Seq(GSE58341)/Homer	AACATCTGGA	1e0	-4.428e-01	1.0000	208.0	4.99%	1097.9	5.10%
PAX6(Paired,Homeobox)/Forebrain-Pax6-ChIP-Seq(GSE66961)/Homer	NGTGTTCAVTSAAGCGKAAA	1e0	-4.374e-01	1.0000	69.0	1.65%	370.0	1.72%
LXRE(NR),DR4/RAW-LXRb.biotin-ChIP-Seq(GSE21512)/Homer	RGGTTACTANAGGTCA	1e0	-4.169e-01	1.0000	20.0	0.48%	111.5	0.52%
Smad2(MAD)/ES-SMAD2-ChIP-Seq(GSE29422)/Homer	CTGTCTGG	1e0	-4.036e-01	1.0000	817.0	19.58%	4267.8	19.84%
ELF5(ETS)/T47D-ELF5-ChIP-Seq(GSE30407)/Homer	ACVAGGAAGT	1e0	-4.021e-01	1.0000	668.0	16.01%	3495.7	16.25%
Fox:Ebox(Forkhead,bHLH)/Panc1-Foxa2-ChIP-Seq(GSE47459)/Homer	NNNVCTGWGYAAACASN	1e0	-3.582e-01	1.0000	787.0	18.86%	4123.1	19.17%
OCT:OCT(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	ATGAATATTCATGAG	1e0	-3.307e-01	1.0000	9.0	0.22%	54.3	0.25%
Tcf21(bHLH)/ArterySmoothMuscle-Tcf21-ChIP-Seq(GSE61369)/Homer	NAACAGCTGG	1e0	-3.215e-01	1.0000	350.0	8.39%	1858.5	8.64%
Tcfcp2l1(CP2)/mES-Tcfcp2l1-ChIP-Seq(GSE11431)/Homer	NRAACCRGTTYRAACCRGYT	1e0	-2.937e-01	1.0000	59.0	1.41%	329.3	1.53%
Unknown3/Drosophila-Promoters/Homer	ACVAKCTGGCAGCGC	1e0	-2.928e-01	1.0000	34.0	0.81%	194.7	0.91%
RUNX(Runt)/HPC7-Runx1-ChIP-Seq(GSE22178)/Homer	SAAACCACAG	1e0	-2.820e-01	1.0000	507.0	12.15%	2687.8	12.50%
Atoh1(bHLH)/Cerebellum-Atoh1-ChIP-Seq(GSE22111)/Homer	VNRVCAGCTGGY	1e0	-2.760e-01	1.0000	486.0	11.65%	2579.5	11.99%
SeqBias: GCW-triplet	GCWGCWGCWGCW	1e0	-2.705e-01	1.0000	4168.0	99.90%	21489.4	99.92%
Ascl1(bHLH)/NeuralTubes-Ascl1-ChIP-Seq(GSE55840)/Homer	NNVVCAGCTGBN	1e0	-2.575e-01	1.0000	595.0	14.26%	3153.3	14.66%
NF1(CTF)/LNCAP-NF1-ChIP-Seq(Unpublished)/Homer	CYTGGCABNSTGCCAR	1e0	-2.574e-01	1.0000	95.0	2.28%	526.3	2.45%
FoxL2(Forkhead)/Ovary-FoxL2-ChIP-Seq(GSE60858)/Homer	WWTRTAAACAVG	1e0	-2.566e-01	1.0000	1344.0	32.21%	7043.8	32.75%
Zfp809(Zf)/ES-Zfp809-ChIP-Seq(GSE70799)/Homer	GGGGCTYGKCTGGGA	1e0	-2.285e-01	1.0000	21.0	0.50%	128.0	0.60%
Srebp1a(bHLH)/HepG2-Srebp1a-ChIP-Seq(GSE31477)/Homer	RTCACSCCAY	1e0	-2.250e-01	1.0000	113.0	2.71%	627.7	2.92%
Mef2a(MADS)/HL1-Mef2a.biotin-ChIP-Seq(GSE21529)/Homer	CYAAAAATAG	1e0	-2.167e-01	1.0000	612.0	14.67%	3255.8	15.14%
Esrrb(NR)/mES-Esrrb-ChIP-Seq(GSE11431)/Homer	KTGACCTTGA	1e0	-2.154e-01	1.0000	401.0	9.61%	2151.2	10.00%
Bach2(bZIP)/OCILy7-Bach2-ChIP-Seq(GSE44420)/Homer	TGCTGAGTCA	1e0	-2.139e-01	1.0000	62.0	1.49%	354.4	1.65%
GATA3(Zf),DR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATGKDGAGATAAG	1e0	-2.078e-01	1.0000	119.0	2.85%	662.4	3.08%
Brn2(POU,Homeobox)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATATTC	1e0	-2.053e-01	1.0000	165.0	3.95%	908.5	4.22%
LIN-15B(Zf)/cElegans-L3-LIN15B-ChIP-Seq(modEncode)/Homer	CARTGGAGCGCRYTTGCATT	1e0	-2.034e-01	1.0000	2.0	0.05%	16.4	0.08%
SeqBias: polyA-repeat	AAAAAAAAAA	1e0	-1.940e-01	1.0000	4172.0	100.00%	21506.6	100.00%
 Ik-1	NHTTGGGAATRCC	1e0	-1.940e-01	1.0000	4172.0	100.00%	21506.6	100.00%
Ap4(bHLH)/AML-Tfap4-ChIP-Seq(GSE45738)/Homer	NAHCAGCTGD	1e0	-1.922e-01	1.0000	432.0	10.35%	2321.9	10.80%
SeqBias: A/T bias	WWWWWWWWWW	1e0	-1.837e-01	1.0000	4167.0	99.88%	21487.9	99.91%
IRF2(IRF)/Erythroblas-IRF2-ChIP-Seq(GSE36985)/Homer	GAAASYGAAASY	1e0	-1.734e-01	1.0000	123.0	2.95%	690.7	3.21%
Hnf1(Homeobox)/Liver-Foxa2-Chip-Seq(GSE25694)/Homer	GGTTAAWCATTAA	1e0	-1.705e-01	1.0000	224.0	5.37%	1230.5	5.72%
Oct4:Sox17(POU,Homeobox,HMG)/F9-Sox17-ChIP-Seq(GSE44553)/Homer	CCATTGTATGCAAAT	1e0	-1.669e-01	1.0000	196.0	4.70%	1082.3	5.03%
RBFox2(?)/Heart-RBFox2-CLIP-Seq(GSE57926)/Homer	TGCATGCA	1e0	-1.650e-01	1.0000	1508.0	36.15%	7936.8	36.90%
FOXA1(Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WAAGTAAACA	1e0	-1.604e-01	1.0000	1555.0	37.27%	8182.8	38.05%
NF-E2(bZIP)/K562-NFE2-ChIP-Seq(GSE31477)/Homer	GATGACTCAGCA	1e0	-1.524e-01	1.0000	12.0	0.29%	81.3	0.38%
ZNF322(Zf)/HEK293-ZNF322.GFP-ChIP-Seq(GSE58341)/Homer	GAGCCTGGTACTGWGCCTGR	1e0	-1.403e-01	1.0000	37.0	0.89%	226.7	1.05%
TATA-Box(TBP)/Promoter/Homer	CCTTTTAWAGSC	1e0	-1.396e-01	1.0000	1600.0	38.35%	8428.1	39.19%
ZNF317(Zf)/HEK293-ZNF317.GFP-ChIP-Seq(GSE58341)/Homer	GTCWGCTGTYYCTCT	1e0	-1.377e-01	1.0000	38.0	0.91%	232.5	1.08%
Pax7(Paired,Homeobox),long/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCHGATTAC	1e0	-1.366e-01	1.0000	55.0	1.32%	327.1	1.52%
CArG(MADS)/PUER-Srf-ChIP-Seq(Sullivan_et_al.)/Homer	CCATATATGGNM	1e0	-1.318e-01	1.0000	374.0	8.96%	2038.0	9.48%
Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq(GSE22178)/Homer	MAATCACTGC	1e0	-1.230e-01	1.0000	406.0	9.73%	2211.3	10.28%
PU.1(ETS)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	AGAGGAAGTG	1e0	-1.218e-01	1.0000	238.0	5.70%	1320.9	6.14%
Tbx20(T-box)/Heart-Tbx20-ChIP-Seq(GSE29636)/Homer	GGTGYTGACAGS	1e0	-1.185e-01	1.0000	147.0	3.52%	833.7	3.88%
AARE(HLH)/mES-cMyc-ChIP-Seq/Homer	GATTGCATCA	1e0	-1.184e-01	1.0000	142.0	3.40%	806.9	3.75%
EHF(ETS)/LoVo-EHF-ChIP-Seq(GSE49402)/Homer	AVCAGGAAGT	1e0	-1.181e-01	1.0000	1109.0	26.58%	5895.8	27.41%
Gata1(Zf)/K562-GATA1-ChIP-Seq(GSE18829)/Homer	SAGATAAGRV	1e0	-1.141e-01	1.0000	767.0	18.38%	4113.4	19.13%
HRE(HSF)/Striatum-HSF1-ChIP-Seq(GSE38000)/Homer	TTCTAGAABNTTCTA	1e0	-1.029e-01	1.0000	190.0	4.55%	1070.5	4.98%
Sox15(HMG)/CPA-Sox15-ChIP-Seq(GSE62909)/Homer	RAACAATGGN	1e0	-9.762e-02	1.0000	1346.0	32.26%	7143.4	33.22%
ISRE(IRF)/ThioMac-LPS-Expression(GSE23622)/Homer	AGTTTCASTTTC	1e0	-9.445e-02	1.0000	66.0	1.58%	397.7	1.85%
Nur77(NR)/K562-NR4A1-ChIP-Seq(GSE31363)/Homer	TGACCTTTNCNT	1e0	-9.366e-02	1.0000	173.0	4.15%	982.2	4.57%
MafA(bZIP)/Islet-MafA-ChIP-Seq(GSE30298)/Homer	TGCTGACTCA	1e0	-9.206e-02	1.0000	396.0	9.49%	2174.1	10.11%
RUNX-AML(Runt)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	GCTGTGGTTW	1e0	-9.173e-02	1.0000	412.0	9.88%	2259.7	10.51%
NFkB-p65(RHD)/GM12787-p65-ChIP-Seq(GSE19485)/Homer	WGGGGATTTCCC	1e0	-8.633e-02	1.0000	266.0	6.38%	1486.0	6.91%
CTCF-SatelliteElement(Zf?)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	TGCAGTTCCMVNWRTGGCCA	1e0	-8.421e-02	1.0000	3.0	0.07%	29.8	0.14%
CEBP:CEBP(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	NTNATGCAAYMNNHTGMAAY	1e0	-8.182e-02	1.0000	203.0	4.87%	1149.8	5.35%
MyoD(bHLH)/Myotube-MyoD-ChIP-Seq(GSE21614)/Homer	RRCAGCTGYTSY	1e0	-6.635e-02	1.0000	298.0	7.14%	1668.5	7.76%
STAT5(Stat)/mCD4+-Stat5-ChIP-Seq(GSE12346)/Homer	RTTTCTNAGAAA	1e0	-6.561e-02	1.0000	291.0	6.98%	1631.6	7.59%
Meis1(Homeobox)/MastCells-Meis1-ChIP-Seq(GSE48085)/Homer	VGCTGWCAVB	1e0	-6.462e-02	1.0000	949.0	22.75%	5106.6	23.74%
ZNF416(Zf)/HEK293-ZNF416.GFP-ChIP-Seq(GSE58341)/Homer	WDNCTGGGCA	1e0	-6.259e-02	1.0000	348.0	8.34%	1938.4	9.01%
Unknown2/Drosophila-Promoters/Homer	CATCMCTA	1e0	-5.976e-02	1.0000	660.0	15.82%	3594.7	16.71%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	AGGTCAAGGTCA	1e0	-5.927e-02	1.0000	38.0	0.91%	248.5	1.16%
NFAT:AP1(RHD,bZIP)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	SARTGGAAAAWRTGAGTCAB	1e0	-5.826e-02	1.0000	151.0	3.62%	879.1	4.09%
SEP3(MADS)/Arabidoposis-Flower-Sep3-ChIP-Seq/Homer	CCAAAAAGGG	1e0	-5.784e-02	1.0000	1979.0	47.44%	10463.5	48.65%
STAT1(Stat)/HelaS3-STAT1-ChIP-Seq(GSE12782)/Homer	NATTTCCNGGAAAT	1e0	-5.305e-02	1.0000	315.0	7.55%	1769.6	8.23%
SOC1(MADS)/Seedling-SOC1-ChIP-Seq(GSE45846)/Homer	TWCCAWWTWTGG	1e0	-4.954e-02	1.0000	652.0	15.63%	3563.6	16.57%
Znf263(Zf)/K562-Znf263-ChIP-Seq(GSE31477)/Homer	CVGTSCTCCC	1e0	-4.127e-02	1.0000	588.0	14.09%	3235.9	15.05%
Hoxb4(Homeobox)/ES-Hoxb4-ChIP-Seq(GSE34014)/Homer	TGATTRATGGCY	1e0	-3.713e-02	1.0000	221.0	5.30%	1276.7	5.94%
Pit1+1bp(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGCATAATTCA	1e0	-3.589e-02	1.0000	661.0	15.84%	3629.1	16.87%
RORgt(NR)/EL4-RORgt.Flag-ChIP-Seq(GSE56019)/Homer	AAYTAGGTCA	1e0	-3.559e-02	1.0000	82.0	1.97%	510.7	2.37%
PAX3:FKHR-fusion(Paired,Homeobox)/Rh4-PAX3:FKHR-ChIP-Seq(GSE19063)/Homer	ACCRTGACTAATTNN	1e0	-3.427e-02	1.0000	283.0	6.78%	1615.8	7.51%
ZNF669(Zf)/HEK293-ZNF669.GFP-ChIP-Seq(GSE58341)/Homer	GARTGGTCATCGCCC	1e0	-3.161e-02	1.0000	35.0	0.84%	241.5	1.12%
Chop(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	ATTGCATCAT	1e0	-3.047e-02	1.0000	353.0	8.46%	1997.7	9.29%
PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer	ADGGYAGYAGCATCT	1e0	-2.985e-02	1.0000	356.0	8.53%	2014.4	9.37%
NeuroD1(bHLH)/Islet-NeuroD1-ChIP-Seq(GSE30298)/Homer	GCCATCTGTT	1e0	-2.953e-02	1.0000	326.0	7.81%	1853.4	8.62%
ETS:E-box(ETS,bHLH)/HPC7-Scl-ChIP-Seq(GSE22178)/Homer	AGGAARCAGCTG	1e0	-2.766e-02	1.0000	29.0	0.70%	207.7	0.97%
Pax7(Paired,Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCAATTA	1e0	-2.512e-02	1.0000	209.0	5.01%	1224.1	5.69%
ZNF136(Zf)/HEK293-ZNF136.GFP-ChIP-Seq(GSE58341)/Homer	YTKGATAHAGTATTCTWGGTNGGCA	1e0	-2.406e-02	1.0000	88.0	2.11%	553.9	2.58%
Sox4(HMG)/proB-Sox4-ChIP-Seq(GSE50066)/Homer	YCTTTGTTCC	1e0	-2.205e-02	1.0000	868.0	20.81%	4749.3	22.08%
FXR(NR),IR1/Liver-FXR-ChIP-Seq(Chong_et_al.)/Homer	AGGTCANTGACCTB	1e0	-2.129e-02	1.0000	152.0	3.64%	915.2	4.26%
Atf4(bZIP)/MEF-Atf4-ChIP-Seq(GSE35681)/Homer	MTGATGCAAT	1e0	-1.866e-02	1.0000	464.0	11.12%	2614.9	12.16%
Pax7(Paired,Homeobox),longest/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	NTAATTDGCYAATTANNWWD	1e0	-1.804e-02	1.0000	60.0	1.44%	398.5	1.85%
SeqBias: C/A-bias	MMMMMMMMMM	1e0	-1.669e-02	1.0000	4171.0	99.98%	21506.6	100.00%
bZIP:IRF(bZIP,IRF)/Th17-BatF-ChIP-Seq(GSE39756)/Homer	NAGTTTCABTHTGACTNW	1e0	-1.502e-02	1.0000	468.0	11.22%	2645.3	12.30%
OCT4-SOX2-TCF-NANOG(POU,Homeobox,HMG)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAACAATG	1e0	-1.481e-02	1.0000	267.0	6.40%	1559.6	7.25%
Foxo1(Forkhead)/RAW-Foxo1-ChIP-Seq(Fan_et_al.)/Homer	CTGTTTAC	1e0	-1.398e-02	1.0000	1629.0	39.05%	8754.0	40.70%
Gata2(Zf)/K562-GATA2-ChIP-Seq(GSE18829)/Homer	BBCTTATCTS	1e0	-1.254e-02	1.0000	874.0	20.95%	4812.0	22.37%
HOXA2(Homeobox)/mES-Hoxa2-ChIP-Seq(Donaldson_et_al.)/Homer	GYCATCMATCAT	1e0	-1.219e-02	1.0000	118.0	2.83%	739.2	3.44%
Sox9(HMG)/Limb-SOX9-ChIP-Seq(GSE73225)/Homer	AGGVNCCTTTGT	1e0	-1.100e-02	1.0000	705.0	16.90%	3924.8	18.25%
EWS:ERG-fusion(ETS)/CADO_ES1-EWS:ERG-ChIP-Seq(SRA014231)/Homer	ATTTCCTGTN	1e0	-9.313e-03	1.0000	569.0	13.64%	3207.8	14.92%
PR(NR)/T47D-PR-ChIP-Seq(GSE31130)/Homer	VAGRACAKNCTGTBC	1e0	-6.820e-03	1.0000	1429.0	34.25%	7757.4	36.07%
ZNF415(Zf)/HEK293-ZNF415.GFP-ChIP-Seq(GSE58341)/Homer	GRTGMTRGAGCC	1e0	-6.554e-03	1.0000	191.0	4.58%	1165.4	5.42%
Zelda(Zf)/Embryo-zld-ChIP-Seq(GSE65441)/Homer	KBCTACCTGW	1e0	-6.522e-03	1.0000	279.0	6.69%	1652.0	7.68%
Unknown4/Drosophila-Promoters/Homer	AAAAATACCRMA	1e0	-5.931e-03	1.0000	314.0	7.53%	1847.0	8.59%
Erra(NR)/HepG2-Erra-ChIP-Seq(GSE31477)/Homer	CAAAGGTCAG	1e0	-4.981e-03	1.0000	936.0	22.44%	5187.6	24.12%
NFAT(RHD)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	ATTTTCCATT	1e0	-4.806e-03	1.0000	1177.0	28.21%	6458.8	30.03%
Brn1(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	TATGCWAATBAV	1e0	-4.326e-03	1.0000	349.0	8.37%	2049.7	9.53%
Atf7(bZIP)/3T3L1-Atf7-ChIP-Seq(GSE56872)/Homer	NGRTGACGTCAY	1e0	-4.068e-03	1.0000	364.0	8.72%	2133.8	9.92%
Ptf1a(bHLH)/Panc1-Ptf1a-ChIP-Seq(GSE47459)/Homer	ACAGCTGTTN	1e0	-3.921e-03	1.0000	1093.0	26.20%	6027.8	28.03%
Nrf2(bZIP)/Lymphoblast-Nrf2-ChIP-Seq(GSE37589)/Homer	HTGCTGAGTCAT	1e0	-3.716e-03	1.0000	5.0	0.12%	67.2	0.31%
GATA(Zf),IR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NAGATWNBNATCTNN	1e0	-2.833e-03	1.0000	94.0	2.25%	632.3	2.94%
Mef2c(MADS)/GM12878-Mef2c-ChIP-Seq(GSE32465)/Homer	DCYAAAAATAGM	1e0	-2.788e-03	1.0000	686.0	16.44%	3885.5	18.07%
FOXM1(Forkhead)/MCF7-FOXM1-ChIP-Seq(GSE72977)/Homer	TRTTTACTTW	1e0	-2.762e-03	1.0000	1211.0	29.03%	6665.6	30.99%
Foxh1(Forkhead)/hESC-FOXH1-ChIP-Seq(GSE29422)/Homer	NNTGTGGATTSS	1e0	-2.711e-03	1.0000	697.0	16.71%	3945.9	18.35%
VDR(NR),DR3/GM10855-VDR+vitD-ChIP-Seq(GSE22484)/Homer	ARAGGTCANWGAGTTCANNN	1e0	-2.660e-03	1.0000	61.0	1.46%	437.7	2.04%
ZNF382(Zf)/HEK293-ZNF382.GFP-ChIP-Seq(GSE58341)/Homer	GNCTGTASTRNTGBCTCHTT	1e0	-2.319e-03	1.0000	11.0	0.26%	117.4	0.55%
TCFL2(HMG)/K562-TCF7L2-ChIP-Seq(GSE29196)/Homer	ACWTCAAAGG	1e0	-2.236e-03	1.0000	74.0	1.77%	518.8	2.41%
Atf2(bZIP)/3T3L1-Atf2-ChIP-Seq(GSE56872)/Homer	NRRTGACGTCAT	1e0	-2.099e-03	1.0000	193.0	4.63%	1206.3	5.61%
JunD(bZIP)/K562-JunD-ChIP-Seq/Homer	ATGACGTCATCN	1e0	-1.820e-03	1.0000	32.0	0.77%	262.8	1.22%
Oct2(POU,Homeobox)/Bcell-Oct2-ChIP-Seq(GSE21512)/Homer	ATATGCAAAT	1e0	-1.710e-03	1.0000	420.0	10.07%	2468.1	11.48%
Nr5a2(NR)/mES-Nr5a2-ChIP-Seq(GSE19019)/Homer	BTCAAGGTCA	1e0	-1.265e-03	1.0000	248.0	5.94%	1528.5	7.11%
Mef2b(MADS)/HEK293-Mef2b.V5-ChIP-Seq(GSE67450)/Homer	GCTATTTTTGGM	1e0	-9.460e-04	1.0000	1194.0	28.62%	6627.1	30.81%
GATA3(Zf),DR8/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATSTNDNNDSAGATAASN	1e0	-8.110e-04	1.0000	81.0	1.94%	577.8	2.69%
STAT6(Stat)/Macrophage-Stat6-ChIP-Seq(GSE38377)/Homer	TTCCKNAGAA	1e0	-7.830e-04	1.0000	609.0	14.60%	3521.5	16.37%
Stat3+il21(Stat)/CD4-Stat3-ChIP-Seq(GSE19198)/Homer	SVYTTCCNGGAARB	1e0	-7.800e-04	1.0000	515.0	12.34%	3012.6	14.01%
Atf1(bZIP)/K562-ATF1-ChIP-Seq(GSE31477)/Homer	GATGACGTCA	1e0	-7.470e-04	1.0000	787.0	18.86%	4479.2	20.83%
E2A(bHLH),near_PU.1/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	NVCACCTGBN	1e0	-5.860e-04	1.0000	555.0	13.30%	3239.9	15.06%
MafF(bZIP)/HepG2-MafF-ChIP-Seq(GSE31477)/Homer	HWWGTCAGCAWWTTT	1e0	-4.530e-04	1.0000	319.0	7.65%	1952.9	9.08%
SeqBias: CG bias	SSSSSSSSSS	1e0	-4.500e-04	1.0000	3363.0	80.61%	17758.6	82.57%
Oct4(POU,Homeobox)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAW	1e0	-3.910e-04	1.0000	617.0	14.79%	3589.6	16.69%
Pit1(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGMATATDC	1e0	-2.770e-04	1.0000	1730.0	41.47%	9485.4	44.10%
c-Jun-CRE(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	ATGACGTCATCY	1e0	-2.630e-04	1.0000	153.0	3.67%	1023.2	4.76%
HLH-1(bHLH)/cElegans-Embryo-HLH1-ChIP-Seq(modEncode)/Homer	RACAGCTGTTBH	1e0	-2.250e-04	1.0000	492.0	11.79%	2927.1	13.61%
Mouse_Recombination_Hotspot(Zf)/Testis-DMC1-ChIP-Seq(GSE24438)/Homer	ACTYKNATTCGTGNTACTTC	1e0	-2.210e-04	1.0000	45.0	1.08%	372.9	1.73%
Nkx2.2(Homeobox)/NPC-Nkx2.2-ChIP-Seq(GSE61673)/Homer	BTBRAGTGSN	1e0	-1.800e-04	1.0000	1296.0	31.06%	7236.9	33.65%
HNF4a(NR),DR1/HepG2-HNF4a-ChIP-Seq(GSE25021)/Homer	CARRGKBCAAAGTYCA	1e0	-1.730e-04	1.0000	176.0	4.22%	1165.3	5.42%
CEBP:AP1(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	DRTGTTGCAA	1e0	-1.590e-04	1.0000	1046.0	25.07%	5920.7	27.53%
RUNX1(Runt)/Jurkat-RUNX1-ChIP-Seq(GSE29180)/Homer	AAACCACARM	1e0	-1.560e-04	1.0000	679.0	16.28%	3956.5	18.40%
ZBTB12(Zf)/HEK293-ZBTB12.GFP-ChIP-Seq(GSE58341)/Homer	NGNTCTAGAACCNGV	1e0	-1.480e-04	1.0000	195.0	4.67%	1278.6	5.94%
PRDM14(Zf)/H1-PRDM14-ChIP-Seq(GSE22767)/Homer	RGGTCTCTAACY	1e0	-1.100e-04	1.0000	152.0	3.64%	1034.7	4.81%
Nkx2.5(Homeobox)/HL1-Nkx2.5.biotin-ChIP-Seq(GSE21529)/Homer	RRSCACTYAA	1e0	-7.300e-05	1.0000	1518.0	36.39%	8437.3	39.23%
Nr5a2(NR)/Pancreas-LRH1-ChIP-Seq(GSE34295)/Homer	BTCAAGGTCA	1e0	-5.800e-05	1.0000	360.0	8.63%	2235.9	10.40%
BMYB(HTH)/Hela-BMYB-ChIP-Seq(GSE27030)/Homer	NHAACBGYYV	1e0	-3.200e-05	1.0000	1820.0	43.62%	10042.4	46.69%
TEAD4(TEA)/Tropoblast-Tead4-ChIP-Seq(GSE37350)/Homer	CCWGGAATGY	1e0	-1.800e-05	1.0000	558.0	13.37%	3363.3	15.64%
Sox6(HMG)/Myotubes-Sox6-ChIP-Seq(GSE32627)/Homer	CCATTGTTNY	1e0	-6.000e-06	1.0000	2016.0	48.32%	11120.1	51.71%
STAT4(Stat)/CD4-Stat4-ChIP-Seq(GSE22104)/Homer	NYTTCCWGGAAR	1e0	-5.000e-06	1.0000	915.0	21.93%	5340.0	24.83%
Lhx2(Homeobox)/HFSC-Lhx2-ChIP-Seq(GSE48068)/Homer	TAATTAGN	1e0	-3.000e-06	1.0000	1584.0	37.97%	8898.1	41.37%
Otx2(Homeobox)/EpiLC-Otx2-ChIP-Seq(GSE56098)/Homer	NYTAATCCYB	1e0	-3.000e-06	1.0000	830.0	19.89%	4900.8	22.79%
Sox10(HMG)/SciaticNerve-Sox3-ChIP-Seq(GSE35132)/Homer	CCWTTGTYYB	1e0	-2.000e-06	1.0000	1570.0	37.63%	8852.8	41.16%
CEBP(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	ATTGCGCAAC	1e0	-1.000e-06	1.0000	1167.0	27.97%	6733.5	31.31%
TEAD2(TEA)/Py2T-Tead2-ChIP-Seq(GSE55709)/Homer	CCWGGAATGY	1e0	-1.000e-06	1.0000	280.0	6.71%	1867.7	8.68%
Oct6(POU,Homeobox)/NPC-Oct6-ChIP-Seq(GSE35496)/Homer	WATGCAAATGAG	1e0	-1.000e-06	1.0000	438.0	10.50%	2785.9	12.95%
IRF4(IRF)/GM12878-IRF4-ChIP-Seq(GSE32465)/Homer	ACTGAAACCA	1e0	-0.000e+00	1.0000	425.0	10.19%	2720.1	12.65%
DREF/Drosophila-Promoters/Homer	AVYTATCGATAD	1e0	-0.000e+00	1.0000	68.0	1.63%	604.3	2.81%
Olig2(bHLH)/Neuron-Olig2-ChIP-Seq(GSE30882)/Homer	RCCATMTGTT	1e0	-0.000e+00	1.0000	1242.0	29.77%	7230.8	33.62%
PQM-1(?)/cElegans-L3-ChIP-Seq(modEncode)/Homer	ACTGATAAGA	1e0	-0.000e+00	1.0000	602.0	14.43%	3762.0	17.49%
STAT6(Stat)/CD4-Stat6-ChIP-Seq(GSE22104)/Homer	ABTTCYYRRGAA	1e0	-0.000e+00	1.0000	600.0	14.38%	3752.9	17.45%
Unknown(Homeobox)/Limb-p300-ChIP-Seq/Homer	SSCMATWAAA	1e0	-0.000e+00	1.0000	887.0	21.26%	5333.7	24.80%
Bapx1(Homeobox)/VertebralCol-Bapx1-ChIP-Seq(GSE36672)/Homer	TTRAGTGSYK	1e0	-0.000e+00	1.0000	1428.0	34.23%	8245.4	38.34%
HOXB13(Homeobox)/ProstateTumor-HOXB13-ChIP-Seq(GSE56288)/Homer	TTTTATKRGG	1e0	-0.000e+00	1.0000	1560.0	37.39%	8947.8	41.61%
NF1-halfsite(CTF)/LNCaP-NF1-ChIP-Seq(Unpublished)/Homer	YTGCCAAG	1e0	-0.000e+00	1.0000	1057.0	25.34%	6281.3	29.21%
Tal1	CATCTG	1e0	-0.000e+00	1.0000	785.0	18.82%	4811.5	22.37%
AR-halfsite(NR)/LNCaP-AR-ChIP-Seq(GSE27824)/Homer	CCAGGAACAG	1e0	-0.000e+00	1.0000	1890.0	45.30%	10680.4	49.66%
ELT-3(Gata)/cElegans-L1-ELT3-ChIP-Seq(modEncode)/Homer	AWTGATAAGA	1e0	-0.000e+00	1.0000	760.0	18.22%	4676.1	21.74%
Eomes(T-box)/H9-Eomes-ChIP-Seq(GSE26097)/Homer	ATTAACACCT	1e0	-0.000e+00	1.0000	1840.0	44.10%	10434.1	48.52%
Nkx3.1(Homeobox)/LNCaP-Nkx3.1-ChIP-Seq(GSE28264)/Homer	AAGCACTTAA	1e0	-0.000e+00	1.0000	1643.0	39.38%	9416.0	43.78%
Cdx2(Homeobox)/mES-Cdx2-ChIP-Seq(GSE14586)/Homer	GYMATAAAAH	1e0	-0.000e+00	1.0000	1167.0	27.97%	6905.0	32.11%
Unknown5/Drosophila-Promoters/Homer	GCTGATAASV	1e0	-0.000e+00	1.0000	759.0	18.19%	4692.0	21.82%
GRHL2(CP2)/HBE-GRHL2-ChIP-Seq(GSE46194)/Homer	AAACYKGTTWDACMRGTTTB	1e0	-0.000e+00	1.0000	257.0	6.16%	1846.0	8.58%
Sox3(HMG)/NPC-Sox3-ChIP-Seq(GSE33059)/Homer	CCWTTGTY	1e0	-0.000e+00	1.0000	1839.0	44.08%	10455.5	48.62%
HOXA9(Homeobox)/HSC-Hoxa9-ChIP-Seq(GSE33509)/Homer	GGCCATAAATCA	1e0	-0.000e+00	1.0000	929.0	22.27%	5641.8	26.23%
GATA(Zf),IR3/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NNNNNBAGATAWYATCTVHN	1e0	-0.000e+00	1.0000	118.0	2.83%	993.4	4.62%
Tcf4(HMG)/Hct116-Tcf4-ChIP-Seq(SRA012054)/Homer	ASATCAAAGGVA	1e0	-0.000e+00	1.0000	464.0	11.12%	3062.6	14.24%
AMYB(HTH)/Testes-AMYB-ChIP-Seq(GSE44588)/Homer	TGGCAGTTGG	1e0	-0.000e+00	1.0000	1510.0	36.19%	8756.6	40.72%
Bcl6(Zf)/Liver-Bcl6-ChIP-Seq(GSE31578)/Homer	NNNCTTTCCAGGAAA	1e0	-0.000e+00	1.0000	912.0	21.86%	5597.6	26.03%
HOXD13(Homeobox)/Chicken-Hoxd13-ChIP-Seq(GSE38910)/Homer	NCYAATAAAA	1e0	-0.000e+00	1.0000	1564.0	37.49%	9104.9	42.34%
caudal(Homeobox)/Drosophila-Embryos-ChIP-Chip(modEncode)/Homer	GGYCATAAAW	1e0	-0.000e+00	1.0000	1360.0	32.60%	8027.2	37.32%
Lhx1(Homeobox)/EmbryoCarcinoma-Lhx1-ChIP-Seq(GSE70957)/Homer	NNYTAATTAR	1e0	-0.000e+00	1.0000	1590.0	38.11%	9243.7	42.98%
Tbx5(T-box)/HL1-Tbx5.biotin-ChIP-Seq(GSE21529)/Homer	AGGTGTCA	1e0	-0.000e+00	1.0000	1907.0	45.71%	10903.6	50.70%
Hoxc9(Homeobox)/Ainv15-Hoxc9-ChIP-Seq(GSE21812)/Homer	GGCCATAAATCA	1e0	-0.000e+00	1.0000	703.0	16.85%	4502.2	20.93%
GSC(Homeobox)/FrogEmbryos-GSC-ChIP-Seq(DRA000576)/Homer	RGGATTAR	1e0	-0.000e+00	1.0000	1301.0	31.18%	7761.9	36.09%
Unknown4/Arabidopsis-Promoters/Homer	CKTCKTCTTY	1e0	-0.000e+00	1.0000	1217.0	29.17%	7313.7	34.01%
Gata4(Zf)/Heart-Gata4-ChIP-Seq(GSE35151)/Homer	NBWGATAAGR	1e0	-0.000e+00	1.0000	1321.0	31.66%	7875.0	36.62%
Phox2a(Homeobox)/Neuron-Phox2a-ChIP-Seq(GSE31456)/Homer	YTAATYNRATTA	1e0	-0.000e+00	1.0000	620.0	14.86%	4048.2	18.82%
PHA-4(Forkhead)/cElegans-Embryos-PHA4-ChIP-Seq(modEncode)/Homer	KTGTTTGC	1e0	-0.000e+00	1.0000	2725.0	65.32%	15102.3	70.22%
Initiator/Drosophila-Promoters/Homer	NTCAGTYG	1e0	-0.000e+00	1.0000	1613.0	38.66%	9439.3	43.89%
MYB(HTH)/ERMYB-Myb-ChIPSeq(GSE22095)/Homer	GGCVGTTR	1e0	-0.000e+00	1.0000	2112.0	50.62%	12032.5	55.95%
Smad3(MAD)/NPC-Smad3-ChIP-Seq(GSE36673)/Homer	TWGTCTGV	1e0	-0.000e+00	1.0000	1312.0	31.45%	7868.2	36.58%
SeqBias: GA-repeat	GAGAGAGAGA	1e0	-0.000e+00	1.0000	3513.0	84.20%	18919.0	87.97%
Pdx1(Homeobox)/Islet-Pdx1-ChIP-Seq(SRA008281)/Homer	YCATYAATCA	1e0	-0.000e+00	1.0000	1188.0	28.48%	7276.9	33.84%
LIN-39(Homeobox)/cElegans.L3-LIN39-ChIP-Seq(modEncode)/Homer	ATGATTRATG	1e0	-0.000e+00	1.0000	1784.0	42.76%	10468.8	48.68%
LHY(Myb)/Seedling-LHY-ChIP-Seq(GSE52175)/Homer	ADAAATATCT	1e0	-0.000e+00	1.0000	1625.0	38.95%	9655.9	44.90%
Nkx2.1(Homeobox)/LungAC-Nkx2.1-ChIP-Seq(GSE43252)/Homer	RSCACTYRAG	1e0	-0.000e+00	1.0000	1822.0	43.67%	10714.4	49.82%
Tcf3(HMG)/mES-Tcf3-ChIP-Seq(GSE11724)/Homer	ASWTCAAAGG	1e0	-0.000e+00	1.0000	222.0	5.32%	1844.4	8.58%
Isl1(Homeobox)/Neuron-Isl1-ChIP-Seq(GSE31456)/Homer	CTAATKGV	1e0	-0.000e+00	1.0000	2042.0	48.95%	11872.2	55.20%
TEAD(TEA)/Fibroblast-PU.1-ChIP-Seq(Unpublished)/Homer	YCWGGAATGY	1e0	-0.000e+00	1.0000	448.0	10.74%	3252.4	15.12%
CHR(?)/Hela-CellCycle-Expression/Homer	SRGTTTCAAA	1e0	0.000e+00	1.0000	806.0	19.32%	5839.5	27.15%
CRX(Homeobox)/Retina-Crx-ChIP-Seq(GSE20012)/Homer	GCTAATCC	1e0	0.000e+00	1.0000	2205.0	52.85%	12766.2	59.36%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	RGGTCADNNAGAGGTCAV	1e0	0.000e+00	1.0000	0.0	0.00%	14.0	0.07%
GATA3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATAASR	1e0	0.000e+00	1.0000	1930.0	46.26%	11565.1	53.77%
HNF6(Homeobox)/Liver-Hnf6-ChIP-Seq(ERP000394)/Homer	NTATYGATCH	1e0	0.000e+00	1.0000	1038.0	24.88%	6895.6	32.06%
Lhx3(Homeobox)/Neuron-Lhx3-ChIP-Seq(GSE31456)/Homer	ADBTAATTAR	1e0	0.000e+00	1.0000	2162.0	51.82%	12894.4	59.96%
Nanog(Homeobox)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	RGCCATTAAC	1e0	0.000e+00	1.0000	3062.0	73.39%	18583.8	86.41%
NFY(CCAAT)/Promoter/Homer	RGCCAATSRG	1e0	0.000e+00	1.0000	856.0	20.52%	5620.9	26.14%
Nkx6.1(Homeobox)/Islet-Nkx6.1-ChIP-Seq(GSE40975)/Homer	GKTAATGR	1e0	0.000e+00	1.0000	3053.0	73.18%	17875.0	83.11%
Pitx1(Homeobox)/Chicken-Pitx1-ChIP-Seq(GSE38910)/Homer	TAATCCCN	1e0	0.000e+00	1.0000	2995.0	71.79%	18262.4	84.92%
SCL(bHLH)/HPC7-Scl-ChIP-Seq(GSE13511)/Homer	AVCAGCTG	1e0	0.000e+00	1.0000	1868.0	44.77%	12172.8	56.60%
Tgif1(Homeobox)/mES-Tgif1-ChIP-Seq(GSE55404)/Homer	YTGWCADY	1e0	0.000e+00	1.0000	2112.0	50.62%	12558.6	58.39%
Tgif2(Homeobox)/mES-Tgif2-ChIP-Seq(GSE55404)/Homer	TGTCANYT	1e0	0.000e+00	1.0000	2216.0	53.12%	13019.9	60.54%
ZFP3(Zf)/HEK293-ZFP3.GFP-ChIP-Seq(GSE58341)/Homer	GGGTTTTGAAGGATGARTAGGAGTT	1e0	0.000e+00	1.0000	0.0	0.00%	0.9	0.00%
ZNF16(Zf)/HEK293-ZNF16.GFP-ChIP-Seq(GSE58341)/Homer	MACCTTCYATGGCTCCCTAKTGCCY	1e0	0.000e+00	1.0000	0.0	0.00%	0.4	0.00%
SeqBias: CA-repeat	CACACACACA	1e0	0.000e+00	1.0000	2995.0	71.79%	17056.2	79.31%
SeqBias: polyC-repeat	CCCCCCCCCC	1e0	0.000e+00	1.0000	4094.0	98.13%	21477.3	99.86%
Unknown6/Drosophila-Promoters/Homer	AATTTTAAAA	1e0	0.000e+00	1.0000	1267.0	30.37%	7876.8	36.62%
KANADI1(Myb)/Seedling-KAN1-ChIP-Seq(GSE48081)/Homer	ARGAATAWWN	1e0	0.000e+00	1.0000	2005.0	48.06%	11877.0	55.23%
PABPC1(?)/MEL-PABC1-CLIP-Seq(GSE69755)/Homer	HAATAAAGNN	1e0	0.000e+00	1.0000	2557.0	61.29%	14492.6	67.39%
CES-1(Homeobox)/cElegans-L1-CES1-ChIP-Seq(modEncode)/Homer	AAATTSAATTTN	1e0	0.000e+00	1.0000	910.0	21.81%	6005.5	27.92%
EGL-5(Homeobox)/cElegans-L3-EGL5-ChIP-Seq(modEncode)/Homer	ATTTAATGGG	1e0	0.000e+00	1.0000	1814.0	43.48%	11220.5	52.17%