Motif Name	Consensus	P-value	Log P-value	q-value (Benjamini)	# of Target Sequences with Motif(of 1522)	% of Target Sequences with Motif	# of Background Sequences with Motif(of 1396)	% of Background Sequences with Motif
FOXA1(Forkhead)/MCF7-FOXA1-ChIP-Seq(GSE26831)/Homer	WAAGTAAACA	1e-8	-1.904e+01	0.0000	112.0	7.36%	38.4	2.75%
GSC(Homeobox)/FrogEmbryos-GSC-ChIP-Seq(DRA000576)/Homer	RGGATTAR	1e-7	-1.796e+01	0.0000	231.0	15.18%	119.7	8.56%
SeqBias: TA-repeat	TATATATATA	1e-7	-1.743e+01	0.0000	389.0	25.56%	241.6	17.28%
FOXA1(Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WAAGTAAACA	1e-7	-1.651e+01	0.0000	128.0	8.41%	52.5	3.75%
Pho4(bHLH)/Yeast-Pho4-ChIP-Seq(GSE29506)/Homer	AAGCACGTGBGD	1e-6	-1.507e+01	0.0000	23.0	1.51%	0.0	0.00%
PABPC1(?)/MEL-PABC1-CLIP-Seq(GSE69755)/Homer	HAATAAAGNN	1e-6	-1.382e+01	0.0001	214.0	14.06%	118.2	8.45%
ZNF416(Zf)/HEK293-ZNF416.GFP-ChIP-Seq(GSE58341)/Homer	WDNCTGGGCA	1e-5	-1.357e+01	0.0001	156.0	10.25%	77.9	5.57%
FOXM1(Forkhead)/MCF7-FOXM1-ChIP-Seq(GSE72977)/Homer	TRTTTACTTW	1e-5	-1.310e+01	0.0001	99.0	6.50%	40.2	2.88%
FoxL2(Forkhead)/Ovary-FoxL2-ChIP-Seq(GSE60858)/Homer	WWTRTAAACAVG	1e-5	-1.248e+01	0.0002	94.0	6.18%	38.1	2.72%
PHA-4(Forkhead)/cElegans-Embryos-PHA4-ChIP-Seq(modEncode)/Homer	KTGTTTGC	1e-5	-1.212e+01	0.0002	253.0	16.62%	153.6	10.98%
Unknown2/Drosophila-Promoters/Homer	CATCMCTA	1e-5	-1.154e+01	0.0003	114.0	7.49%	53.1	3.80%
c-Myc(bHLH)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	VVCCACGTGG	1e-4	-1.066e+01	0.0008	41.0	2.69%	10.7	0.77%
HIF-1b(HLH)/T47D-HIF1b-ChIP-Seq(GSE59937)/Homer	RTACGTGC	1e-4	-1.052e+01	0.0008	69.0	4.53%	26.3	1.88%
Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq(GSE22178)/Homer	MAATCACTGC	1e-4	-9.879e+00	0.0014	72.0	4.73%	29.4	2.10%
NPAS2(bHLH)/Liver-NPAS2-ChIP-Seq(GSE39860)/Homer	KCCACGTGAC	1e-4	-9.869e+00	0.0014	89.0	5.85%	40.5	2.89%
KLF14(Zf)/HEK293-KLF14.GFP-ChIP-Seq(GSE58341)/Homer	RGKGGGCGKGGC	1e-4	-9.780e+00	0.0014	105.0	6.90%	51.2	3.66%
Mef2c(MADS)/GM12878-Mef2c-ChIP-Seq(GSE32465)/Homer	DCYAAAAATAGM	1e-4	-9.543e+00	0.0016	71.0	4.66%	30.0	2.15%
E-box/Arabidopsis-Promoters/Homer	GCCACGTG	1e-3	-8.947e+00	0.0028	39.0	2.56%	11.9	0.85%
c-Myc(bHLH)/LNCAP-cMyc-ChIP-Seq(Unpublished)/Homer	VCCACGTG	1e-3	-8.413e+00	0.0045	34.0	2.23%	9.5	0.68%
CLOCK(bHLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer	GHCACGTG	1e-3	-8.377e+00	0.0045	43.0	2.83%	14.4	1.03%
PIF4(bHLH)/Seedling-PIF4-ChIP-Seq(GSE35315)/Homer	NNBCACGTGN	1e-3	-8.332e+00	0.0045	94.0	6.18%	47.0	3.36%
Bapx1(Homeobox)/VertebralCol-Bapx1-ChIP-Seq(GSE36672)/Homer	TTRAGTGSYK	1e-3	-8.183e+00	0.0049	273.0	17.94%	185.6	13.27%
IBL1(bHLH)/Seedling-IBL1-ChIP-Seq(GSE51120)/Homer	CACGTGCC	1e-3	-7.590e+00	0.0085	108.0	7.10%	59.7	4.27%
Pax8(Paired,Homeobox)/Thyroid-Pax8-ChIP-Seq(GSE26938)/Homer	GTCATGCHTGRCTGS	1e-3	-7.020e+00	0.0144	21.0	1.38%	4.8	0.34%
CRX(Homeobox)/Retina-Crx-ChIP-Seq(GSE20012)/Homer	GCTAATCC	1e-2	-6.887e+00	0.0158	276.0	18.13%	194.7	13.93%
Unknown6/Drosophila-Promoters/Homer	AATTTTAAAA	1e-2	-6.838e+00	0.0160	77.0	5.06%	39.9	2.85%
KLF5(Zf)/LoVo-KLF5-ChIP-Seq(GSE49402)/Homer	DGGGYGKGGC	1e-2	-6.761e+00	0.0166	88.0	5.78%	47.9	3.42%
FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer	NYYTGTTTACHN	1e-2	-6.619e+00	0.0185	35.0	2.30%	12.7	0.90%
Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer	GCCACACCCA	1e-2	-6.010e+00	0.0327	30.0	1.97%	10.5	0.75%
n-Myc(bHLH)/mES-nMyc-ChIP-Seq(GSE11431)/Homer	VRCCACGTGG	1e-2	-5.504e+00	0.0525	46.0	3.02%	21.6	1.55%
Erra(NR)/HepG2-Erra-ChIP-Seq(GSE31477)/Homer	CAAAGGTCAG	1e-2	-5.433e+00	0.0546	155.0	10.18%	103.2	7.38%
Nkx3.1(Homeobox)/LNCaP-Nkx3.1-ChIP-Seq(GSE28264)/Homer	AAGCACTTAA	1e-2	-5.262e+00	0.0627	207.0	13.60%	146.5	10.48%
Mef2d(MADS)/Retina-Mef2d-ChIP-Seq(GSE61391)/Homer	GCTATTTTTAGC	1e-2	-5.213e+00	0.0639	21.0	1.38%	7.0	0.50%
Foxo1(Forkhead)/RAW-Foxo1-ChIP-Seq(Fan_et_al.)/Homer	CTGTTTAC	1e-2	-4.900e+00	0.0848	105.0	6.90%	66.6	4.76%
Max(bHLH)/K562-Max-ChIP-Seq(GSE31477)/Homer	RCCACGTGGYYN	1e-2	-4.811e+00	0.0900	48.0	3.15%	24.3	1.74%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	AGGTCAAGGTCA	1e-2	-4.771e+00	0.0911	10.0	0.66%	1.2	0.08%
USF1(bHLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer	SGTCACGTGR	1e-1	-4.446e+00	0.1226	38.0	2.50%	19.0	1.36%
Tcf4(HMG)/Hct116-Tcf4-ChIP-Seq(SRA012054)/Homer	ASATCAAAGGVA	1e-1	-4.439e+00	0.1226	32.0	2.10%	14.8	1.06%
THRa(NR)/C17.2-THRa-ChIP-Seq(GSE38347)/Homer	GGTCANYTGAGGWCA	1e-1	-4.344e+00	0.1288	42.0	2.76%	21.8	1.56%
Usf2(bHLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer	GTCACGTGGT	1e-1	-4.273e+00	0.1349	46.0	3.02%	24.8	1.78%
PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	MGGAAGTGAAAC	1e-1	-3.968e+00	0.1785	73.0	4.80%	45.3	3.24%
AR-halfsite(NR)/LNCaP-AR-ChIP-Seq(GSE27824)/Homer	CCAGGAACAG	1e-1	-3.967e+00	0.1785	206.0	13.53%	153.9	11.00%
PAX5(Paired,Homeobox),condensed/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GTCACGCTCSCTGM	1e-1	-3.914e+00	0.1796	6.0	0.39%	0.0	0.00%
bHLHE40(bHLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer	KCACGTGMCN	1e-1	-3.672e+00	0.2237	22.0	1.45%	9.9	0.71%
SeqBias: GA-repeat	GAGAGAGAGA	1e-1	-3.651e+00	0.2237	497.0	32.65%	409.4	29.28%
CHR(?)/Hela-CellCycle-Expression/Homer	SRGTTTCAAA	1e-1	-3.648e+00	0.2237	38.0	2.50%	20.9	1.49%
NFkB-p50,p52(RHD)/Monocyte-p50-ChIP-Chip(Schreiber_et_al.)/Homer	GGGGGAATCCCC	1e-1	-3.644e+00	0.2237	8.0	0.53%	1.2	0.09%
BMAL1(bHLH)/Liver-Bmal1-ChIP-Seq(GSE39860)/Homer	GNCACGTG	1e-1	-3.572e+00	0.2265	126.0	8.28%	89.8	6.43%
Mef2a(MADS)/HL1-Mef2a.biotin-ChIP-Seq(GSE21529)/Homer	CYAAAAATAG	1e-1	-3.500e+00	0.2384	47.0	3.09%	27.3	1.95%
Unknown4/Drosophila-Promoters/Homer	AAAAATACCRMA	1e-1	-3.364e+00	0.2677	18.0	1.18%	7.8	0.55%
SPCH(bHLH)/Seedling-SPCH-ChIP-Seq(GSE57497)/Homer	WNBCACGTGA	1e-1	-3.355e+00	0.2677	66.0	4.34%	42.1	3.01%
Stat3(Stat)/mES-Stat3-ChIP-Seq(GSE11431)/Homer	CTTCCGGGAA	1e-1	-3.334e+00	0.2677	21.0	1.38%	9.9	0.71%
Atf7(bZIP)/3T3L1-Atf7-ChIP-Seq(GSE56872)/Homer	NGRTGACGTCAY	1e-1	-3.295e+00	0.2707	38.0	2.50%	22.0	1.57%
Mef2b(MADS)/HEK293-Mef2b.V5-ChIP-Seq(GSE67450)/Homer	GCTATTTTTGGM	1e-1	-3.266e+00	0.2736	82.0	5.39%	55.2	3.95%
Dorsal(RHD)/Embryo-dl-ChIP-Seq(GSE65441)/Homer	GGGAAAAMCCCG	1e-1	-3.173e+00	0.2948	19.0	1.25%	8.9	0.64%
Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo_et_al.)/Homer	TBGCACGCAA	1e-1	-3.068e+00	0.3216	26.0	1.71%	13.9	1.00%
Sox6(HMG)/Myotubes-Sox6-ChIP-Seq(GSE32627)/Homer	CCATTGTTNY	1e-1	-2.953e+00	0.3542	90.0	5.91%	63.6	4.55%
SeqBias: G/A bias	RRRRRRRRRR	1e-1	-2.909e+00	0.3638	1495.0	98.23%	1360.2	97.28%
Foxa2(Forkhead)/Liver-Foxa2-ChIP-Seq(GSE25694)/Homer	CYTGTTTACWYW	1e-1	-2.858e+00	0.3765	48.0	3.15%	30.7	2.20%
Oct4(POU,Homeobox)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAW	1e-1	-2.822e+00	0.3835	32.0	2.10%	18.4	1.32%
PIF5ox(bHLH)/Arabidopsis-PIF5ox-ChIP-Seq(GSE35062)/Homer	BCACGTGVDN	1e-1	-2.803e+00	0.3846	63.0	4.14%	42.2	3.02%
CRE(bZIP)/Promoter/Homer	CSGTGACGTCAC	1e-1	-2.772e+00	0.3846	10.0	0.66%	3.1	0.22%
MafK(bZIP)/C2C12-MafK-ChIP-Seq(GSE36030)/Homer	GCTGASTCAGCA	1e-1	-2.772e+00	0.3846	10.0	0.66%	3.9	0.28%
Bcl6(Zf)/Liver-Bcl6-ChIP-Seq(GSE31578)/Homer	NNNCTTTCCAGGAAA	1e-1	-2.727e+00	0.3956	75.0	4.93%	52.3	3.74%
Rbpj1(?)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	HTTTCCCASG	1e-1	-2.726e+00	0.3956	97.0	6.37%	70.6	5.05%
DMRT1(DM)/Testis-DMRT1-ChIP-Seq(GSE64892)/Homer	TWGHWACAWTGTWDC	1e-1	-2.693e+00	0.3970	19.0	1.25%	10.0	0.71%
HIF-1a(bHLH)/MCF7-HIF1a-ChIP-Seq(GSE28352)/Homer	TACGTGCV	1e-1	-2.670e+00	0.3970	16.0	1.05%	7.8	0.56%
STAT1(Stat)/HelaS3-STAT1-ChIP-Seq(GSE12782)/Homer	NATTTCCNGGAAAT	1e-1	-2.670e+00	0.3970	16.0	1.05%	7.9	0.57%
p53(p53)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	ACATGCCCGGGCAT	1e-1	-2.608e+00	0.4016	4.0	0.26%	0.0	0.00%
Egr2(Zf)/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer	NGCGTGGGCGGR	1e-1	-2.608e+00	0.4016	4.0	0.26%	0.6	0.04%
Pax7(Paired,Homeobox),longest/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	NTAATTDGCYAATTANNWWD	1e-1	-2.608e+00	0.4016	4.0	0.26%	0.3	0.02%
ELF5(ETS)/T47D-ELF5-ChIP-Seq(GSE30407)/Homer	ACVAGGAAGT	1e-1	-2.589e+00	0.4038	35.0	2.30%	21.3	1.52%
E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer	GGCGGGAARN	1e-1	-2.564e+00	0.4081	20.0	1.31%	10.0	0.72%
Sox15(HMG)/CPA-Sox15-ChIP-Seq(GSE62909)/Homer	RAACAATGGN	1e-1	-2.548e+00	0.4092	64.0	4.20%	44.2	3.16%
Atf4(bZIP)/MEF-Atf4-ChIP-Seq(GSE35681)/Homer	MTGATGCAAT	1e-1	-2.520e+00	0.4152	17.0	1.12%	8.6	0.61%
Reverb(NR),DR2/RAW-Reverba.biotin-ChIP-Seq(GSE45914)/Homer	GTRGGTCASTGGGTCA	1e-1	-2.497e+00	0.4194	14.0	0.92%	6.8	0.48%
Srebp2(bHLH)/HepG2-Srebp2-ChIP-Seq(GSE31477)/Homer	CGGTCACSCCAC	1e-1	-2.451e+00	0.4333	21.0	1.38%	11.5	0.82%
DMRT6(DM)/Testis-DMRT6-ChIP-Seq(GSE60440)/Homer	YDGHTACAWTGTADC	1e-1	-2.391e+00	0.4542	18.0	1.18%	9.6	0.69%
SeqBias: polyC-repeat	CCCCCCCCCC	1e-1	-2.378e+00	0.4544	1309.0	86.01%	1177.8	84.24%
IRF1(IRF)/PBMC-IRF1-ChIP-Seq(GSE43036)/Homer	GAAAGTGAAAGT	1e-1	-2.350e+00	0.4612	9.0	0.59%	3.7	0.27%
Pho2(bHLH)/Yeast-Pho2-ChIP-Seq(GSE29506)/Homer	CCCACGTGCT	1e-1	-2.350e+00	0.4612	30.0	1.97%	18.4	1.31%
ZNF322(Zf)/HEK293-ZNF322.GFP-ChIP-Seq(GSE58341)/Homer	GAGCCTGGTACTGWGCCTGR	1e-1	-2.319e+00	0.4641	12.0	0.79%	5.9	0.42%
Sox10(HMG)/SciaticNerve-Sox3-ChIP-Seq(GSE35132)/Homer	CCWTTGTYYB	1e0	-2.240e+00	0.4964	91.0	5.98%	68.5	4.90%
Sox4(HMG)/proB-Sox4-ChIP-Seq(GSE50066)/Homer	YCTTTGTTCC	1e0	-2.234e+00	0.4964	46.0	3.02%	31.3	2.24%
AARE(HLH)/mES-cMyc-ChIP-Seq/Homer	GATTGCATCA	1e0	-2.187e+00	0.5109	7.0	0.46%	2.5	0.18%
ZNF467(Zf)/HEK293-ZNF467.GFP-ChIP-Seq(GSE58341)/Homer	TGGGGAAGGGCM	1e0	-2.068e+00	0.5693	30.0	1.97%	19.4	1.39%
REB1/SacCer-Promoters/Homer	KCCGGGTAAYRR	1e0	-2.038e+00	0.5797	5.0	0.33%	1.3	0.10%
Pitx1(Homeobox)/Chicken-Pitx1-ChIP-Seq(GSE38910)/Homer	TAATCCCN	1e0	-2.038e+00	0.5797	401.0	26.35%	342.7	24.51%
Pit1+1bp(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGCATAATTCA	1e0	-2.011e+00	0.5819	31.0	2.04%	20.3	1.45%
Klf9(Zf)/GBM-Klf9-ChIP-Seq(GSE62211)/Homer	GCCACRCCCACY	1e0	-2.007e+00	0.5819	18.0	1.18%	10.6	0.76%
bZIP:IRF(bZIP,IRF)/Th17-BatF-ChIP-Seq(GSE39756)/Homer	NAGTTTCABTHTGACTNW	1e0	-2.007e+00	0.5819	18.0	1.18%	10.2	0.73%
ZNF669(Zf)/HEK293-ZNF669.GFP-ChIP-Seq(GSE58341)/Homer	GARTGGTCATCGCCC	1e0	-1.956e+00	0.5887	3.0	0.20%	1.0	0.07%
NF1:FOXA1(CTF,Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WNTGTTTRYTTTGGCA	1e0	-1.956e+00	0.5887	3.0	0.20%	0.8	0.06%
CEBP:AP1(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	DRTGTTGCAA	1e0	-1.855e+00	0.6441	45.0	2.96%	32.0	2.29%
STAT5(Stat)/mCD4+-Stat5-ChIP-Seq(GSE12346)/Homer	RTTTCTNAGAAA	1e0	-1.846e+00	0.6441	20.0	1.31%	12.3	0.88%
OCT4-SOX2-TCF-NANOG(POU,Homeobox,HMG)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAACAATG	1e0	-1.844e+00	0.6441	12.0	0.79%	6.5	0.47%
HIF2a(bHLH)/785_O-HIF2a-ChIP-Seq(GSE34871)/Homer	GCACGTACCC	1e0	-1.830e+00	0.6441	16.0	1.05%	9.3	0.67%
LHY(Myb)/Seedling-LHY-ChIP-Seq(GSE52175)/Homer	ADAAATATCT	1e0	-1.758e+00	0.6811	80.0	5.26%	62.4	4.47%
IRF2(IRF)/Erythroblas-IRF2-ChIP-Seq(GSE36985)/Homer	GAAASYGAAASY	1e0	-1.750e+00	0.6811	6.0	0.39%	2.6	0.18%
Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer	SCCTAGCAACAG	1e0	-1.750e+00	0.6811	6.0	0.39%	2.3	0.16%
Chop(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	ATTGCATCAT	1e0	-1.749e+00	0.6811	17.0	1.12%	10.1	0.72%
SeqBias: CG bias	SSSSSSSSSS	1e0	-1.744e+00	0.6811	771.0	50.66%	683.2	48.87%
GAGA-repeat/SacCer-Promoters/Homer	CTYTCTYTCTCTCTC	1e0	-1.742e+00	0.6811	287.0	18.86%	244.1	17.46%
Nr5a2(NR)/mES-Nr5a2-ChIP-Seq(GSE19019)/Homer	BTCAAGGTCA	1e0	-1.614e+00	0.7407	19.0	1.25%	12.6	0.90%
Srebp1a(bHLH)/HepG2-Srebp1a-ChIP-Seq(GSE31477)/Homer	RTCACSCCAY	1e0	-1.612e+00	0.7407	24.0	1.58%	16.9	1.21%
TEAD2(TEA)/Py2T-Tead2-ChIP-Seq(GSE55709)/Homer	CCWGGAATGY	1e0	-1.609e+00	0.7407	35.0	2.30%	25.8	1.85%
ZNF519(Zf)/HEK293-ZNF519.GFP-ChIP-Seq(GSE58341)/Homer	GAGSCCGAGC	1e0	-1.568e+00	0.7541	7.0	0.46%	3.4	0.24%
STAT4(Stat)/CD4-Stat4-ChIP-Seq(GSE22104)/Homer	NYTTCCWGGAAR	1e0	-1.558e+00	0.7548	49.0	3.22%	37.9	2.71%
NRF(NRF)/Promoter/Homer	STGCGCATGCGC	1e0	-1.537e+00	0.7562	4.0	0.26%	1.8	0.13%
PAX6(Paired,Homeobox)/Forebrain-Pax6-ChIP-Seq(GSE66961)/Homer	NGTGTTCAVTSAAGCGKAAA	1e0	-1.537e+00	0.7562	4.0	0.26%	1.4	0.10%
TOD6?/SacCer-Promoters/Homer	GCGATGAGMT	1e0	-1.461e+00	0.8088	12.0	0.79%	7.8	0.56%
Bach2(bZIP)/OCILy7-Bach2-ChIP-Seq(GSE44420)/Homer	TGCTGAGTCA	1e0	-1.440e+00	0.8190	8.0	0.53%	4.3	0.31%
Atf1(bZIP)/K562-ATF1-ChIP-Seq(GSE31477)/Homer	GATGACGTCA	1e0	-1.359e+00	0.8799	51.0	3.35%	40.2	2.88%
Etv2(ETS)/ES-ER71-ChIP-Seq(GSE59402)/Homer(0.967)	NNAYTTCCTGHN	1e0	-1.358e+00	0.8799	44.0	2.89%	34.1	2.44%
Cbf1(bHLH)/Yeast-Cbf1-ChIP-Seq(GSE29506)/Homer	TCACGTGAYH	1e0	-1.350e+00	0.8799	19.0	1.25%	13.8	0.98%
GATA3(Zf),DR8/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATSTNDNNDSAGATAASN	1e0	-1.337e+00	0.8799	5.0	0.33%	2.6	0.18%
EGL-5(Homeobox)/cElegans-L3-EGL5-ChIP-Seq(modEncode)/Homer	ATTTAATGGG	1e0	-1.328e+00	0.8799	100.0	6.57%	83.7	5.98%
Brn1(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	TATGCWAATBAV	1e0	-1.308e+00	0.8869	20.0	1.31%	14.8	1.06%
EHF(ETS)/LoVo-EHF-ChIP-Seq(GSE49402)/Homer	AVCAGGAAGT	1e0	-1.308e+00	0.8869	69.0	4.53%	56.5	4.04%
PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer	GSCTGTCACTCA	1e0	-1.303e+00	0.8869	2.0	0.13%	0.3	0.02%
GFY-Staf(?,Zf)/Promoter/Homer	RACTACAATTCCCAGAAKGC	1e0	-1.303e+00	0.8869	2.0	0.13%	0.7	0.05%
Nrf2(bZIP)/Lymphoblast-Nrf2-ChIP-Seq(GSE37589)/Homer	HTGCTGAGTCAT	1e0	-1.303e+00	0.8869	2.0	0.13%	0.0	0.00%
EBNA1(EBV-virus)/Raji-EBNA1-ChIP-Seq(GSE30709)/Homer	GGYAGCAYDTGCTDCCCNNN	1e0	-1.303e+00	0.8869	2.0	0.13%	0.0	0.00%
Bach1(bZIP)/K562-Bach1-ChIP-Seq(GSE31477)/Homer	AWWNTGCTGAGTCAT	1e0	-1.303e+00	0.8869	2.0	0.13%	0.0	0.00%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	RGGTCADNNAGAGGTCAV	1e0	-1.303e+00	0.8869	2.0	0.13%	0.0	0.00%
JunD(bZIP)/K562-JunD-ChIP-Seq/Homer	ATGACGTCATCN	1e0	-1.303e+00	0.8869	2.0	0.13%	0.8	0.06%
ZNF528(Zf)/HEK293-ZNF528.GFP-ChIP-Seq(GSE58341)/Homer	AGAAATGACTTCCCT	1e0	-1.303e+00	0.8869	2.0	0.13%	0.0	0.00%
LXRE(NR),DR4/RAW-LXRb.biotin-ChIP-Seq(GSE21512)/Homer	RGGTTACTANAGGTCA	1e0	-1.235e+00	0.8869	22.0	1.45%	16.6	1.18%
Oct2(POU,Homeobox)/Bcell-Oct2-ChIP-Seq(GSE21512)/Homer	ATATGCAAAT	1e0	-1.235e+00	0.8869	22.0	1.45%	16.6	1.19%
MafA(bZIP)/Islet-MafA-ChIP-Seq(GSE30298)/Homer	TGCTGACTCA	1e0	-1.222e+00	0.8869	29.0	1.91%	22.3	1.60%
RUNX-AML(Runt)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	GCTGTGGTTW	1e0	-1.222e+00	0.8869	36.0	2.37%	28.4	2.03%
Unknown3/Arabidopsis-Promoters/Homer	AYTAAACCGG	1e0	-1.214e+00	0.8869	6.0	0.39%	3.8	0.28%
Sox3(HMG)/NPC-Sox3-ChIP-Seq(GSE33059)/Homer	CCWTTGTY	1e0	-1.192e+00	0.8869	86.0	5.65%	72.9	5.21%
PPARE(NR),DR1/3T3L1-Pparg-ChIP-Seq(GSE13511)/Homer	TGACCTTTGCCCCA	1e0	-1.174e+00	0.8931	24.0	1.58%	18.4	1.32%
Esrrb(NR)/mES-Esrrb-ChIP-Seq(GSE11431)/Homer	KTGACCTTGA	1e0	-1.173e+00	0.8931	31.0	2.04%	24.1	1.72%
Pbx3(Homeobox)/GM12878-PBX3-ChIP-Seq(GSE32465)/Homer	SCTGTCAMTCAN	1e0	-1.127e+00	0.9084	7.0	0.46%	4.2	0.30%
ZNF165(Zf)/WHIM12-ZNF165-ChIP-Seq(GSE65937)/Homer	AAGGKGRCGCAGGCA	1e0	-1.127e+00	0.9084	7.0	0.46%	4.6	0.33%
Unknown1(NR/Ini-like)/Drosophila-Promoters/Homer	MYGGTCACACTG	1e0	-1.127e+00	0.9084	7.0	0.46%	4.7	0.33%
Olig2(bHLH)/Neuron-Olig2-ChIP-Seq(GSE30882)/Homer	RCCATMTGTT	1e0	-1.127e+00	0.9084	92.0	6.04%	79.0	5.65%
PU.1(ETS)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	AGAGGAAGTG	1e0	-1.122e+00	0.9084	19.0	1.25%	14.4	1.03%
Tcf3(HMG)/mES-Tcf3-ChIP-Seq(GSE11724)/Homer	ASWTCAAAGG	1e0	-1.107e+00	0.9084	13.0	0.85%	9.9	0.71%
PAX5(Paired,Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GCAGCCAAGCRTGACH	1e0	-1.092e+00	0.9141	20.0	1.31%	15.6	1.12%
Fox:Ebox(Forkhead,bHLH)/Panc1-Foxa2-ChIP-Seq(GSE47459)/Homer	NNNVCTGWGYAAACASN	1e0	-1.073e+00	0.9254	44.0	2.89%	36.9	2.64%
Tbx5(T-box)/HL1-Tbx5.biotin-ChIP-Seq(GSE21529)/Homer	AGGTGTCA	1e0	-1.073e+00	0.9254	228.0	14.98%	201.6	14.42%
GATA3(Zf),DR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATGKDGAGATAAG	1e0	-1.065e+00	0.9254	3.0	0.20%	1.9	0.13%
FOXA1:AR(Forkhead,NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	AGTAAACAAAAAAGAACAND	1e0	-1.065e+00	0.9254	3.0	0.20%	1.5	0.10%
PGR(NR)/EndoStromal-PGR-ChIP-Seq(GSE69539)/Homer	AAGAACATWHTGTTC	1e0	-1.062e+00	0.9254	8.0	0.53%	5.7	0.41%
NFkB-p65(RHD)/GM12787-p65-ChIP-Seq(GSE19485)/Homer	WGGGGATTTCCC	1e0	-1.054e+00	0.9254	29.0	1.91%	23.1	1.65%
RUNX(Runt)/HPC7-Runx1-ChIP-Seq(GSE22178)/Homer	SAAACCACAG	1e0	-1.015e+00	0.9413	31.0	2.04%	25.9	1.85%
Ets1-distal(ETS)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	MACAGGAAGT	1e0	-1.011e+00	0.9413	9.0	0.59%	6.3	0.45%
Atf2(bZIP)/3T3L1-Atf2-ChIP-Seq(GSE56872)/Homer	NRRTGACGTCAT	1e0	-9.760e-01	0.9657	17.0	1.12%	13.3	0.95%
PRDM1(Zf)/Hela-PRDM1-ChIP-Seq(GSE31477)/Homer	ACTTTCACTTTC	1e0	-9.738e-01	0.9657	25.0	1.64%	20.1	1.44%
c-Jun-CRE(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	ATGACGTCATCY	1e0	-9.738e-01	0.9657	25.0	1.64%	20.1	1.44%
GLI3(Zf)/Limb-GLI3-ChIP-Chip(GSE11077)/Homer	CGTGGGTGGTCC	1e0	-9.565e-01	0.9657	4.0	0.26%	2.2	0.16%
PR(NR)/T47D-PR-ChIP-Seq(GSE31130)/Homer	VAGRACAKNCTGTBC	1e0	-9.522e-01	0.9657	82.0	5.39%	71.9	5.14%
PRDM14(Zf)/H1-PRDM14-ChIP-Seq(GSE22767)/Homer	RGGTCTCTAACY	1e0	-9.331e-01	0.9758	11.0	0.72%	9.0	0.64%
Sox2(HMG)/mES-Sox2-ChIP-Seq(GSE11431)/Homer	BCCATTGTTC	1e0	-8.941e-01	1.0000	39.0	2.56%	33.2	2.37%
MafF(bZIP)/HepG2-MafF-ChIP-Seq(GSE31477)/Homer	HWWGTCAGCAWWTTT	1e0	-8.521e-01	1.0000	14.0	0.92%	11.9	0.85%
RUNX1(Runt)/Jurkat-RUNX1-ChIP-Seq(GSE29180)/Homer	AAACCACARM	1e0	-8.494e-01	1.0000	53.0	3.48%	46.2	3.31%
E2F1(E2F)/Hela-E2F1-ChIP-Seq(GSE22478)/Homer	CWGGCGGGAA	1e0	-8.439e-01	1.0000	6.0	0.39%	4.0	0.29%
Lhx2(Homeobox)/HFSC-Lhx2-ChIP-Seq(GSE48068)/Homer	TAATTAGN	1e0	-8.255e-01	1.0000	77.0	5.06%	68.0	4.87%
ERG(ETS)/VCaP-ERG-ChIP-Seq(GSE14097)/Homer	ACAGGAAGTG	1e0	-8.109e-01	1.0000	79.0	5.19%	70.8	5.06%
Nur77(NR)/K562-NR4A1-ChIP-Seq(GSE31363)/Homer	TGACCTTTNCNT	1e0	-8.083e-01	1.0000	7.0	0.46%	5.3	0.38%
Atf3(bZIP)/GBM-ATF3-ChIP-Seq(GSE33912)/Homer	DATGASTCATHN	1e0	-7.962e-01	1.0000	27.0	1.77%	23.7	1.70%
GATA3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATAASR	1e0	-7.853e-01	1.0000	94.0	6.18%	84.7	6.06%
Jun-AP1(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	GATGASTCATCN	1e0	-7.798e-01	1.0000	8.0	0.53%	6.6	0.47%
PU.1:IRF8(ETS:IRF)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	GGAAGTGAAAST	1e0	-7.798e-01	1.0000	8.0	0.53%	6.9	0.49%
Hoxb4(Homeobox)/ES-Hoxb4-ChIP-Seq(GSE34014)/Homer	TGATTRATGGCY	1e0	-7.798e-01	1.0000	8.0	0.53%	6.1	0.44%
Nr5a2(NR)/Pancreas-LRH1-ChIP-Seq(GSE34295)/Homer	BTCAAGGTCA	1e0	-7.720e-01	1.0000	29.0	1.91%	25.1	1.80%
TEAD(TEA)/Fibroblast-PU.1-ChIP-Seq(Unpublished)/Homer	YCWGGAATGY	1e0	-7.614e-01	1.0000	41.0	2.69%	36.9	2.64%
E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer	GGCGGGAAAH	1e0	-7.560e-01	1.0000	9.0	0.59%	7.9	0.56%
Cdx2(Homeobox)/mES-Cdx2-ChIP-Seq(GSE14586)/Homer	GYMATAAAAH	1e0	-7.551e-01	1.0000	53.0	3.48%	47.5	3.40%
Pdx1(Homeobox)/Islet-Pdx1-ChIP-Seq(SRA008281)/Homer	YCATYAATCA	1e0	-7.509e-01	1.0000	65.0	4.27%	58.3	4.17%
IRF4(IRF)/GM12878-IRF4-ChIP-Seq(GSE32465)/Homer	ACTGAAACCA	1e0	-7.493e-01	1.0000	20.0	1.31%	17.2	1.23%
SpiB(ETS)/OCILY3-SPIB-ChIP-Seq(GSE56857)/Homer	AAAGRGGAAGTG	1e0	-7.356e-01	1.0000	10.0	0.66%	8.7	0.62%
SeqBias: CA-repeat	CACACACACA	1e0	-7.270e-01	1.0000	321.0	21.09%	293.5	20.99%
Tal1	CATCTG	1e0	-7.001e-01	1.0000	85.0	5.58%	77.5	5.54%
GATA(Zf),IR3/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NNNNNBAGATAWYATCTVHN	1e0	-6.877e-01	1.0000	13.0	0.85%	11.3	0.81%
RUNX2(Runt)/PCa-RUNX2-ChIP-Seq(GSE33889)/Homer	NWAACCACADNN	1e0	-6.864e-01	1.0000	38.0	2.50%	34.3	2.45%
NeuroD1(bHLH)/Islet-NeuroD1-ChIP-Seq(GSE30298)/Homer	GCCATCTGTT	1e0	-6.864e-01	1.0000	38.0	2.50%	34.7	2.48%
RXR(NR),DR1/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer	TAGGGCAAAGGTCA	1e0	-6.823e-01	1.0000	26.0	1.71%	23.7	1.69%
Tlx?(NR)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	CTGGCAGSCTGCCA	1e0	-6.519e-01	1.0000	16.0	1.05%	14.3	1.02%
Pax7(Paired,Homeobox),long/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCHGATTAC	1e0	-6.516e-01	1.0000	1.0	0.07%	0.8	0.06%
NFkB-p65-Rel(RHD)/ThioMac-LPS-Expression(GSE23622)/Homer	GGAAATTCCC	1e0	-6.516e-01	1.0000	1.0	0.07%	0.0	0.00%
NF-E2(bZIP)/K562-NFE2-ChIP-Seq(GSE31477)/Homer	GATGACTCAGCA	1e0	-6.516e-01	1.0000	1.0	0.07%	0.6	0.04%
GEI-11(Myb?)/cElegans-L4-GEI11-ChIP-Seq(modEncode)/Homer	CCGACAYYTYACGGG	1e0	-6.516e-01	1.0000	1.0	0.07%	0.0	0.00%
ZNF317(Zf)/HEK293-ZNF317.GFP-ChIP-Seq(GSE58341)/Homer	GTCWGCTGTYYCTCT	1e0	-6.516e-01	1.0000	1.0	0.07%	0.0	0.00%
E2F(E2F)/Hela-CellCycle-Expression/Homer	TTSGCGCGAAAA	1e0	-6.516e-01	1.0000	1.0	0.07%	0.0	0.00%
RFX(HTH)/K562-RFX3-ChIP-Seq(SRA012198)/Homer	CGGTTGCCATGGCAAC	1e0	-6.516e-01	1.0000	1.0	0.07%	0.0	0.00%
Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer	GTTGCCATGGCAACM	1e0	-6.516e-01	1.0000	1.0	0.07%	1.0	0.07%
DREF/Drosophila-Promoters/Homer	AVYTATCGATAD	1e0	-6.516e-01	1.0000	1.0	0.07%	0.0	0.00%
AP-2alpha(AP2)/Hela-AP2alpha-ChIP-Seq(GSE31477)/Homer	ATGCCCTGAGGC	1e0	-6.402e-01	1.0000	31.0	2.04%	28.0	2.00%
KANADI1(Myb)/Seedling-KAN1-ChIP-Seq(GSE48081)/Homer	ARGAATAWWN	1e0	-6.329e-01	1.0000	59.0	3.88%	55.0	3.93%
ETS:RUNX(ETS,Runt)/Jurkat-RUNX1-ChIP-Seq(GSE17954)/Homer	RCAGGATGTGGT	1e0	-6.314e-01	1.0000	2.0	0.13%	1.4	0.10%
RARg(NR)/ES-RARg-ChIP-Seq(GSE30538)/Homer	AGGTCAAGGTCA	1e0	-6.314e-01	1.0000	2.0	0.13%	1.2	0.08%
ZBTB12(Zf)/HEK293-ZBTB12.GFP-ChIP-Seq(GSE58341)/Homer	NGNTCTAGAACCNGV	1e0	-6.148e-01	1.0000	20.0	1.31%	18.6	1.33%
LIN-39(Homeobox)/cElegans.L3-LIN39-ChIP-Seq(modEncode)/Homer	ATGATTRATG	1e0	-6.117e-01	1.0000	90.0	5.91%	83.5	5.97%
GATA:SCL(Zf,bHLH)/Ter119-SCL-ChIP-Seq(GSE18720)/Homer	CRGCTGBNGNSNNSAGATAA	1e0	-6.044e-01	1.0000	4.0	0.26%	3.5	0.25%
TATA-box/Drosophila-Promoters/Homer	CTATAAAAGCSV	1e0	-6.044e-01	1.0000	4.0	0.26%	3.1	0.22%
YY1(Zf)/Promoter/Homer	CAAGATGGCGGC	1e0	-6.044e-01	1.0000	4.0	0.26%	3.7	0.26%
Sp1(Zf)/Promoter/Homer	GGCCCCGCCCCC	1e0	-5.938e-01	1.0000	5.0	0.33%	4.7	0.34%
IRF:BATF(IRF:bZIP)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	CTTTCANTATGACTV	1e0	-5.938e-01	1.0000	5.0	0.33%	4.2	0.30%
EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer	NWGGGTGTGGCY	1e0	-5.845e-01	1.0000	6.0	0.39%	6.0	0.43%
Pknox1(Homeobox)/ES-Prep1-ChIP-Seq(GSE63282)/Homer	SCTGTCAVTCAV	1e0	-5.845e-01	1.0000	6.0	0.39%	5.0	0.36%
NFAT:AP1(RHD,bZIP)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	SARTGGAAAAWRTGAGTCAB	1e0	-5.759e-01	1.0000	7.0	0.46%	6.9	0.49%
RORgt(NR)/EL4-RORgt.Flag-ChIP-Seq(GSE56019)/Homer	AAYTAGGTCA	1e0	-5.759e-01	1.0000	7.0	0.46%	6.9	0.49%
HRE(HSF)/Striatum-HSF1-ChIP-Seq(GSE38000)/Homer	TTCTAGAABNTTCTA	1e0	-5.681e-01	1.0000	8.0	0.53%	7.2	0.51%
PAX3:FKHR-fusion(Paired,Homeobox)/Rh4-PAX3:FKHR-ChIP-Seq(GSE19063)/Homer	ACCRTGACTAATTNN	1e0	-5.681e-01	1.0000	8.0	0.53%	7.0	0.50%
CEBP:CEBP(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	NTNATGCAAYMNNHTGMAAY	1e0	-5.608e-01	1.0000	9.0	0.59%	8.2	0.59%
Six1(Homeobox)/Myoblast-Six1-ChIP-Chip(GSE20150)/Homer	GKVTCADRTTWC	1e0	-5.608e-01	1.0000	9.0	0.59%	8.5	0.61%
Atoh1(bHLH)/Cerebellum-Atoh1-ChIP-Seq(GSE22111)/Homer	VNRVCAGCTGGY	1e0	-5.606e-01	1.0000	44.0	2.89%	41.6	2.98%
Fosl2(bZIP)/3T3L1-Fosl2-ChIP-Seq(GSE56872)/Homer	NATGASTCABNN	1e0	-5.476e-01	1.0000	11.0	0.72%	10.2	0.73%
Gata4(Zf)/Heart-Gata4-ChIP-Seq(GSE35151)/Homer	NBWGATAAGR	1e0	-5.240e-01	1.0000	52.0	3.42%	49.4	3.53%
HOXA9(Homeobox)/HSC-Hoxa9-ChIP-Seq(GSE33509)/Homer	GGCCATAAATCA	1e0	-5.063e-01	1.0000	39.0	2.56%	37.6	2.69%
RLR1?/SacCer-Promoters/Homer	WTTTTCYYTTTT	1e0	-4.942e-01	1.0000	42.0	2.76%	41.0	2.93%
BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer	DATGASTCAT	1e0	-4.884e-01	1.0000	23.0	1.51%	22.0	1.58%
RBFox2(?)/Heart-RBFox2-CLIP-Seq(GSE57926)/Homer	TGCATGCA	1e0	-4.874e-01	1.0000	125.0	8.21%	118.1	8.44%
ETS1(ETS)/Jurkat-ETS1-ChIP-Seq(GSE17954)/Homer	ACAGGAAGTG	1e0	-4.866e-01	1.0000	44.0	2.89%	42.3	3.03%
SeqBias: A/T bias	WWWWWWWWWW	1e0	-4.709e-01	1.0000	957.0	62.88%	886.2	63.39%
Ptf1a(bHLH)/Panc1-Ptf1a-ChIP-Seq(GSE47459)/Homer	ACAGCTGTTN	1e0	-4.708e-01	1.0000	161.0	10.58%	152.5	10.91%
Znf263(Zf)/K562-Znf263-ChIP-Seq(GSE31477)/Homer	CVGTSCTCCC	1e0	-4.540e-01	1.0000	72.0	4.73%	69.7	4.98%
HEB(bHLH)/mES-Heb-ChIP-Seq(GSE53233)/Homer	VCAGCTGBNN	1e0	-4.428e-01	1.0000	110.0	7.23%	105.7	7.56%
HOXD13(Homeobox)/Chicken-Hoxd13-ChIP-Seq(GSE38910)/Homer	NCYAATAAAA	1e0	-4.266e-01	1.0000	63.0	4.14%	61.9	4.43%
Zfp809(Zf)/ES-Zfp809-ChIP-Seq(GSE70799)/Homer	GGGGCTYGKCTGGGA	1e0	-4.138e-01	1.0000	11.0	0.72%	11.3	0.81%
p63(p53)/Keratinocyte-p63-ChIP-Seq(GSE17611)/Homer	NNDRCATGYCYNRRCATGYH	1e0	-4.121e-01	1.0000	9.0	0.59%	9.9	0.71%
Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer	TGCGTGGGYG	1e0	-4.109e-01	1.0000	16.0	1.05%	16.9	1.21%
Fra1(bZIP)/BT549-Fra1-ChIP-Seq(GSE46166)/Homer	NNATGASTCATH	1e0	-4.068e-01	1.0000	19.0	1.25%	19.7	1.41%
TATA-box/SacCer-Promoters/Homer	BBHWTATATA	1e0	-3.838e-01	1.0000	32.0	2.10%	32.4	2.31%
HOXA2(Homeobox)/mES-Hoxa2-ChIP-Seq(Donaldson_et_al.)/Homer	GYCATCMATCAT	1e0	-3.822e-01	1.0000	4.0	0.26%	4.9	0.35%
Meis1(Homeobox)/MastCells-Meis1-ChIP-Seq(GSE48085)/Homer	VGCTGWCAVB	1e0	-3.738e-01	1.0000	64.0	4.20%	63.0	4.51%
p53(p53)/Saos-p53-ChIP-Seq/Homer	RRCATGYCYRGRCATGYYYN	1e0	-3.633e-01	1.0000	3.0	0.20%	3.0	0.22%
p53(p53)/Saos-p53-ChIP-Seq(GSE15780)/Homer	RRCATGYCYRGRCATGYYYN	1e0	-3.633e-01	1.0000	3.0	0.20%	3.0	0.22%
ABF1/SacCer-Promoters/Homer	CGTRNAAARTGA	1e0	-3.633e-01	1.0000	3.0	0.20%	3.3	0.23%
ETV1(ETS)/GIST48-ETV1-ChIP-Seq(GSE22441)/Homer	AACCGGAAGT	1e0	-3.447e-01	1.0000	54.0	3.55%	54.9	3.92%
ISRE(IRF)/ThioMac-LPS-Expression(GSE23622)/Homer	AGTTTCASTTTC	1e0	-3.302e-01	1.0000	2.0	0.13%	2.6	0.18%
Tbx20(T-box)/Heart-Tbx20-ChIP-Seq(GSE29636)/Homer	GGTGYTGACAGS	1e0	-3.302e-01	1.0000	2.0	0.13%	2.3	0.16%
TR4(NR),DR1/Hela-TR4-ChIP-Seq(GSE24685)/Homer	GAGGTCAAAGGTCA	1e0	-3.302e-01	1.0000	2.0	0.13%	2.2	0.15%
EWS:FLI1-fusion(ETS)/SK_N_MC-EWS:FLI1-ChIP-Seq(SRA014231)/Homer	VACAGGAAAT	1e0	-3.254e-01	1.0000	20.0	1.31%	21.3	1.53%
Zelda(Zf)/Embryo-zld-ChIP-Seq(GSE65441)/Homer	KBCTACCTGW	1e0	-3.249e-01	1.0000	19.0	1.25%	20.2	1.44%
ZNF189(Zf)/HEK293-ZNF189.GFP-ChIP-Seq(GSE58341)/Homer	TGGAACAGMA	1e0	-3.197e-01	1.0000	34.0	2.23%	35.6	2.54%
PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer	ADGGYAGYAGCATCT	1e0	-3.187e-01	1.0000	14.0	0.92%	15.2	1.09%
caudal(Homeobox)/Drosophila-Embryos-ChIP-Chip(modEncode)/Homer	GGYCATAAAW	1e0	-3.024e-01	1.0000	51.0	3.35%	52.7	3.77%
EBF(EBF)/proBcell-EBF-ChIP-Seq(GSE21978)/Homer	DGTCCCYRGGGA	1e0	-2.996e-01	1.0000	9.0	0.59%	10.6	0.76%
E-box/Drosophila-Promoters/Homer	AACAGCTGTTHN	1e0	-2.927e-01	1.0000	8.0	0.53%	9.9	0.71%
Hnf1(Homeobox)/Liver-Foxa2-Chip-Seq(GSE25694)/Homer	GGTTAAWCATTAA	1e0	-2.732e-01	1.0000	6.0	0.39%	7.8	0.56%
E2A(bHLH)/proBcell-E2A-ChIP-Seq(GSE21978)/Homer	DNRCAGCTGY	1e0	-2.732e-01	1.0000	77.0	5.06%	78.4	5.60%
EWS:ERG-fusion(ETS)/CADO_ES1-EWS:ERG-ChIP-Seq(SRA014231)/Homer	ATTTCCTGTN	1e0	-2.662e-01	1.0000	27.0	1.77%	29.1	2.08%
Gata2(Zf)/K562-GATA2-ChIP-Seq(GSE18829)/Homer	BBCTTATCTS	1e0	-2.656e-01	1.0000	26.0	1.71%	28.2	2.02%
Foxh1(Forkhead)/hESC-FOXH1-ChIP-Seq(GSE29422)/Homer	NNTGTGGATTSS	1e0	-2.632e-01	1.0000	23.0	1.51%	25.4	1.81%
TCFL2(HMG)/K562-TCF7L2-ChIP-Seq(GSE29196)/Homer	ACWTCAAAGG	1e0	-2.602e-01	1.0000	1.0	0.07%	1.5	0.11%
GRE(NR),IR3/A549-GR-ChIP-Seq(GSE32465)/Homer	NRGVACABNVTGTYCY	1e0	-2.602e-01	1.0000	1.0	0.07%	1.0	0.07%
GFY(?)/Promoter/Homer	ACTACAATTCCC	1e0	-2.602e-01	1.0000	1.0	0.07%	1.7	0.12%
GRE(NR),IR3/RAW264.7-GRE-ChIP-Seq(Unpublished)/Homer	VAGRACAKWCTGTYC	1e0	-2.402e-01	1.0000	4.0	0.26%	5.4	0.39%
FHY3(FAR1)/Arabidopsis-FHY3-ChIP-Seq(GSE30711)/Homer	HHCACGCGCBTN	1e0	-2.402e-01	1.0000	4.0	0.26%	5.8	0.42%
Otx2(Homeobox)/EpiLC-Otx2-ChIP-Seq(GSE56098)/Homer	NYTAATCCYB	1e0	-2.242e-01	1.0000	42.0	2.76%	45.1	3.23%
Fli1(ETS)/CD8-FLI-ChIP-Seq(GSE20898)/Homer	NRYTTCCGGH	1e0	-2.235e-01	1.0000	37.0	2.43%	40.6	2.90%
X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	GGTTGCCATGGCAA	1e0	-2.144e-01	1.0000	3.0	0.20%	4.2	0.30%
HLH-1(bHLH)/cElegans-Embryo-HLH1-ChIP-Seq(modEncode)/Homer	RACAGCTGTTBH	1e0	-2.143e-01	1.0000	25.0	1.64%	28.2	2.02%
ZNF143|STAF(Zf)/CUTLL-ZNF143-ChIP-Seq(GSE29600)/Homer	ATTTCCCAGVAKSCY	1e0	-2.127e-01	1.0000	24.0	1.58%	27.5	1.97%
Hoxc9(Homeobox)/Ainv15-Hoxc9-ChIP-Seq(GSE21812)/Homer	GGCCATAAATCA	1e0	-2.127e-01	1.0000	24.0	1.58%	27.3	1.95%
Oct6(POU,Homeobox)/NPC-Oct6-ChIP-Seq(GSE35496)/Homer	WATGCAAATGAG	1e0	-2.127e-01	1.0000	24.0	1.58%	27.1	1.94%
Gata1(Zf)/K562-GATA1-ChIP-Seq(GSE18829)/Homer	SAGATAAGRV	1e0	-2.110e-01	1.0000	23.0	1.51%	26.9	1.92%
E2A(bHLH),near_PU.1/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	NVCACCTGBN	1e0	-2.107e-01	1.0000	78.0	5.12%	81.7	5.84%
SFP1/SacCer-Promoters/Homer	DDAAAAATTTTY	1e0	-2.066e-01	1.0000	8.0	0.53%	10.0	0.72%
Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer	BAACAGCTGT	1e0	-1.993e-01	1.0000	18.0	1.18%	21.7	1.56%
RBPJ:Ebox(?,bHLH)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	GGGRAARRGRMCAGMTG	1e0	-1.926e-01	1.0000	16.0	1.05%	19.3	1.38%
Pit1(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGMATATDC	1e0	-1.853e-01	1.0000	76.0	4.99%	80.0	5.72%
E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer	VDTTTCCCGCCA	1e0	-1.766e-01	1.0000	2.0	0.13%	3.0	0.22%
ARE(NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	RGRACASNSTGTYCYB	1e0	-1.766e-01	1.0000	2.0	0.13%	3.8	0.27%
Oct4:Sox17(POU,Homeobox,HMG)/F9-Sox17-ChIP-Seq(GSE44553)/Homer	CCATTGTATGCAAAT	1e0	-1.766e-01	1.0000	2.0	0.13%	3.1	0.22%
Stat3+il21(Stat)/CD4-Stat3-ChIP-Seq(GSE19198)/Homer	SVYTTCCNGGAARB	1e0	-1.738e-01	1.0000	26.0	1.71%	30.5	2.18%
ERE(NR),IR3/MCF7-ERa-ChIP-Seq(Unpublished)/Homer	VAGGTCACNSTGACC	1e0	-1.608e-01	1.0000	10.0	0.66%	13.8	0.98%
AP-2gamma(AP2)/MCF7-TFAP2C-ChIP-Seq(GSE21234)/Homer	SCCTSAGGSCAW	1e0	-1.590e-01	1.0000	44.0	2.89%	49.1	3.51%
KLF10(Zf)/HEK293-KLF10.GFP-ChIP-Seq(GSE58341)/Homer	GGGGGTGTGTCC	1e0	-1.468e-01	1.0000	16.0	1.05%	20.5	1.47%
Sox9(HMG)/Limb-SOX9-ChIP-Seq(GSE73225)/Homer	AGGVNCCTTTGT	1e0	-1.390e-01	1.0000	26.0	1.71%	31.9	2.28%
MyoD(bHLH)/Myotube-MyoD-ChIP-Seq(GSE21614)/Homer	RRCAGCTGYTSY	1e0	-1.349e-01	1.0000	24.0	1.58%	29.4	2.11%
VDR(NR),DR3/GM10855-VDR+vitD-ChIP-Seq(GSE22484)/Homer	ARAGGTCANWGAGTTCANNN	1e0	-1.336e-01	1.0000	7.0	0.46%	10.2	0.73%
AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	VTGACTCATC	1e0	-1.326e-01	1.0000	23.0	1.51%	28.9	2.07%
SeqBias: GCW-triplet	GCWGCWGCWGCW	1e0	-1.231e-01	1.0000	1453.0	95.47%	1346.8	96.33%
ZNF382(Zf)/HEK293-ZNF382.GFP-ChIP-Seq(GSE58341)/Homer	GNCTGTASTRNTGBCTCHTT	1e0	-1.161e-01	1.0000	1.0	0.07%	2.3	0.17%
OCT:OCT(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	ATGAATATTCATGAG	1e0	-1.161e-01	1.0000	1.0	0.07%	2.4	0.17%
E-box(bHLH)/Promoter/Homer	SSGGTCACGTGA	1e0	-1.080e-01	1.0000	5.0	0.33%	8.1	0.58%
Ascl1(bHLH)/NeuralTubes-Ascl1-ChIP-Seq(GSE55840)/Homer	NNVVCAGCTGBN	1e0	-9.991e-02	1.0000	58.0	3.81%	66.9	4.78%
GRHL2(CP2)/HBE-GRHL2-ChIP-Seq(GSE46194)/Homer	AAACYKGTTWDACMRGTTTB	1e0	-9.900e-02	1.0000	8.0	0.53%	12.4	0.88%
GABPA(ETS)/Jurkat-GABPa-ChIP-Seq(GSE17954)/Homer	RACCGGAAGT	1e0	-9.575e-02	1.0000	31.0	2.04%	38.5	2.75%
ETS:E-box(ETS,bHLH)/HPC7-Scl-ChIP-Seq(GSE22178)/Homer	AGGAARCAGCTG	1e0	-9.484e-02	1.0000	2.0	0.13%	4.3	0.30%
Rfx1(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	KGTTGCCATGGCAA	1e0	-9.484e-02	1.0000	2.0	0.13%	4.6	0.33%
Tbox:Smad(T-box,MAD)/ESCd5-Smad2_3-ChIP-Seq(GSE29422)/Homer	AGGTGHCAGACA	1e0	-9.484e-02	1.0000	2.0	0.13%	4.2	0.30%
CTCF-SatelliteElement(Zf?)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	TGCAGTTCCMVNWRTGGCCA	1e0	-9.484e-02	1.0000	2.0	0.13%	4.6	0.33%
GATA(Zf),IR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NAGATWNBNATCTNN	1e0	-9.187e-02	1.0000	4.0	0.26%	7.8	0.56%
Unknown-ESC-element(?)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	CACAGCAGGGGG	1e0	-9.077e-02	1.0000	28.0	1.84%	35.7	2.55%
Unknown4/Arabidopsis-Promoters/Homer	CKTCKTCTTY	1e0	-8.260e-02	1.0000	55.0	3.61%	64.9	4.64%
Phox2a(Homeobox)/Neuron-Phox2a-ChIP-Seq(GSE31456)/Homer	YTAATYNRATTA	1e0	-7.824e-02	1.0000	22.0	1.45%	30.0	2.14%
HNF4a(NR),DR1/HepG2-HNF4a-ChIP-Seq(GSE25021)/Homer	CARRGKBCAAAGTYCA	1e0	-7.425e-02	1.0000	9.0	0.59%	14.2	1.01%
FXR(NR),IR1/Liver-FXR-ChIP-Seq(Chong_et_al.)/Homer	AGGTCANTGACCTB	1e0	-6.617e-02	1.0000	12.0	0.79%	18.3	1.31%
PQM-1(?)/cElegans-L3-ChIP-Seq(modEncode)/Homer	ACTGATAAGA	1e0	-6.448e-02	1.0000	17.0	1.12%	24.9	1.78%
Unknown5/Drosophila-Promoters/Homer	GCTGATAASV	1e0	-6.448e-02	1.0000	17.0	1.12%	24.2	1.73%
Tcf21(bHLH)/ArterySmoothMuscle-Tcf21-ChIP-Seq(GSE61369)/Homer	NAACAGCTGG	1e0	-6.327e-02	1.0000	33.0	2.17%	42.2	3.02%
ZBTB18(Zf)/HEK293-ZBTB18.GFP-ChIP-Seq(GSE58341)/Homer	AACATCTGGA	1e0	-6.128e-02	1.0000	16.0	1.05%	23.6	1.69%
NFAT(RHD)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	ATTTTCCATT	1e0	-5.911e-02	1.0000	30.0	1.97%	39.9	2.86%
SeqBias: CG-repeat	CGCGCGCGCG	1e0	-5.833e-02	1.0000	57.0	3.75%	68.2	4.88%
SUT1?/SacCer-Promoters/Homer	CCCCGCGC	1e0	-5.652e-02	1.0000	426.0	27.99%	428.8	30.67%
ZNF136(Zf)/HEK293-ZNF136.GFP-ChIP-Seq(GSE58341)/Homer	YTKGATAHAGTATTCTWGGTNGGCA	1e0	-5.572e-02	1.0000	4.0	0.26%	8.5	0.61%
CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	AYAGTGCCMYCTRGTGGCCA	1e0	-5.385e-02	1.0000	1.0	0.07%	3.8	0.27%
Tcf12(bHLH)/GM12878-Tcf12-ChIP-Seq(GSE32465)/Homer	VCAGCTGYTG	1e0	-4.634e-02	1.0000	30.0	1.97%	40.7	2.91%
HOXB13(Homeobox)/ProstateTumor-HOXB13-ChIP-Seq(GSE56288)/Homer	TTTTATKRGG	1e0	-4.561e-02	1.0000	52.0	3.42%	64.5	4.61%
Pax7(Paired,Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCAATTA	1e0	-4.188e-02	1.0000	3.0	0.20%	7.5	0.54%
Tgif2(Homeobox)/mES-Tgif2-ChIP-Seq(GSE55404)/Homer	TGTCANYT	1e0	-4.064e-02	1.0000	140.0	9.20%	155.7	11.13%
TEAD4(TEA)/Tropoblast-Tead4-ChIP-Seq(GSE37350)/Homer	CCWGGAATGY	1e0	-3.954e-02	1.0000	43.0	2.83%	55.5	3.97%
ZNF711(Zf)/SHSY5Y-ZNF711-ChIP-Seq(GSE20673)/Homer	AGGCCTAG	1e0	-3.572e-02	1.0000	86.0	5.65%	101.5	7.26%
Tgif1(Homeobox)/mES-Tgif1-ChIP-Seq(GSE55404)/Homer	YTGWCADY	1e0	-3.447e-02	1.0000	118.0	7.75%	134.1	9.59%
ZNF675(Zf)/HEK293-ZNF675.GFP-ChIP-Seq(GSE58341)/Homer	ARGAGGMCAAAATGW	1e0	-3.335e-02	1.0000	4.0	0.26%	9.8	0.70%
Brn2(POU,Homeobox)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATATTC	1e0	-3.335e-02	1.0000	4.0	0.26%	9.3	0.67%
Unknown(Homeobox)/Limb-p300-ChIP-Seq/Homer	SSCMATWAAA	1e0	-3.235e-02	1.0000	27.0	1.77%	38.8	2.78%
STAT6(Stat)/Macrophage-Stat6-ChIP-Seq(GSE38377)/Homer	TTCCKNAGAA	1e0	-3.105e-02	1.0000	26.0	1.71%	37.7	2.70%
Tbet(T-box)/CD8-Tbet-ChIP-Seq(GSE33802)/Homer	AGGTGTGAAM	1e0	-3.100e-02	1.0000	42.0	2.76%	55.1	3.94%
Lhx1(Homeobox)/EmbryoCarcinoma-Lhx1-ChIP-Seq(GSE70957)/Homer	NNYTAATTAR	1e0	-2.721e-02	1.0000	58.0	3.81%	73.6	5.27%
ZNF692(Zf)/HEK293-ZNF692.GFP-ChIP-Seq(GSE58341)/Homer	GTGGGCCCCA	1e0	-2.376e-02	1.0000	3.0	0.20%	8.1	0.58%
ELT-3(Gata)/cElegans-L1-ELT3-ChIP-Seq(modEncode)/Homer	AWTGATAAGA	1e0	-2.353e-02	1.0000	26.0	1.71%	38.8	2.78%
Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer	NRYTTCCGGY	1e0	-2.054e-02	1.0000	6.0	0.39%	13.1	0.94%
Zic(Zf)/Cerebellum-ZIC1.2-ChIP-Seq(GSE60731)/Homer	CCTGCTGAGH	1e0	-1.995e-02	1.0000	35.0	2.30%	49.3	3.53%
ZNF415(Zf)/HEK293-ZNF415.GFP-ChIP-Seq(GSE58341)/Homer	GRTGMTRGAGCC	1e0	-1.945e-02	1.0000	8.0	0.53%	16.8	1.20%
Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer	GGGGGGGG	1e0	-1.601e-02	1.0000	36.0	2.37%	51.5	3.68%
MITF(bHLH)/MastCells-MITF-ChIP-Seq(GSE48085)/Homer	RTCATGTGAC	1e0	-1.396e-02	1.0000	47.0	3.09%	64.8	4.63%
SeqBias: C/A-bias	MMMMMMMMMM	1e0	-1.361e-02	1.0000	1455.0	95.60%	1357.1	97.06%
EBF1(EBF)/Near-E2A-ChIP-Seq(GSE21512)/Homer	GTCCCCWGGGGA	1e0	-1.133e-02	1.0000	48.0	3.15%	66.7	4.77%
HNF6(Homeobox)/Liver-Hnf6-ChIP-Seq(ERP000394)/Homer	NTATYGATCH	1e0	-1.088e-02	1.0000	23.0	1.51%	37.7	2.70%
GAGA-repeat/Arabidopsis-Promoters/Homer	CTCTCTCTCY	1e0	-1.087e-02	1.0000	65.0	4.27%	85.4	6.10%
Nanog(Homeobox)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	RGCCATTAAC	1e0	-9.494e-03	1.0000	275.0	18.07%	300.4	21.48%
Nkx6.1(Homeobox)/Islet-Nkx6.1-ChIP-Seq(GSE40975)/Homer	GKTAATGR	1e0	-8.823e-03	1.0000	176.0	11.56%	202.4	14.48%
ZSCAN22(Zf)/HEK293-ZSCAN22.GFP-ChIP-Seq(GSE58341)/Homer	SMCAGTCWGAKGGAGGAGGC	1e0	-7.468e-03	1.0000	2.0	0.13%	8.9	0.64%
NF1(CTF)/LNCAP-NF1-ChIP-Seq(Unpublished)/Homer	CYTGGCABNSTGCCAR	1e0	-7.066e-03	1.0000	12.0	0.79%	24.3	1.74%
CEBP(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	ATTGCGCAAC	1e0	-6.196e-03	1.0000	24.0	1.58%	40.0	2.86%
Brachyury(T-box)/Mesoendoderm-Brachyury-ChIP-exo(GSE54963)/Homer	ANTTMRCASBNNNGTGYKAAN	1e0	-3.783e-03	1.0000	4.0	0.26%	13.4	0.96%
ETS(ETS)/Promoter/Homer	AACCGGAAGT	1e0	-3.783e-03	1.0000	4.0	0.26%	13.5	0.96%
Ap4(bHLH)/AML-Tfap4-ChIP-Seq(GSE45738)/Homer	NAHCAGCTGD	1e0	-3.353e-03	1.0000	43.0	2.83%	65.4	4.68%
Nkx2.2(Homeobox)/NPC-Nkx2.2-ChIP-Seq(GSE61673)/Homer	BTBRAGTGSN	1e0	-3.221e-03	1.0000	90.0	5.91%	118.0	8.44%
CES-1(Homeobox)/cElegans-L1-CES1-ChIP-Seq(modEncode)/Homer	AAATTSAATTTN	1e0	-3.196e-03	1.0000	24.0	1.58%	42.6	3.05%
Smad3(MAD)/NPC-Smad3-ChIP-Seq(GSE36673)/Homer	TWGTCTGV	1e0	-3.095e-03	1.0000	114.0	7.49%	144.4	10.33%
MyoG(bHLH)/C2C12-MyoG-ChIP-Seq(GSE36024)/Homer	AACAGCTG	1e0	-2.750e-03	1.0000	30.0	1.97%	50.9	3.64%
Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer	HACTTCCGGY	1e0	-1.933e-03	1.0000	5.0	0.33%	16.8	1.20%
ZFX(Zf)/mES-Zfx-ChIP-Seq(GSE11431)/Homer	AGGCCTRG	1e0	-1.787e-03	1.0000	37.0	2.43%	60.3	4.31%
STAT6(Stat)/CD4-Stat6-ChIP-Seq(GSE22104)/Homer	ABTTCYYRRGAA	1e0	-1.385e-03	1.0000	17.0	1.12%	35.4	2.53%
Unknown1/Arabidopsis-Promoters/Homer	RGGGTAWWWTHGTAA	1e0	-1.031e-03	1.0000	2.0	0.13%	11.7	0.84%
Lhx3(Homeobox)/Neuron-Lhx3-ChIP-Seq(GSE31456)/Homer	ADBTAATTAR	1e0	-7.930e-04	1.0000	87.0	5.72%	121.7	8.70%
Eomes(T-box)/H9-Eomes-ChIP-Seq(GSE26097)/Homer	ATTAACACCT	1e0	-6.000e-04	1.0000	94.0	6.18%	130.5	9.33%
ZNF264(Zf)/HEK293-ZNF264.GFP-ChIP-Seq(GSE58341)/Homer	RGGGCACTAACY	1e0	-5.310e-04	1.0000	14.0	0.92%	33.3	2.38%
Smad4(MAD)/ESC-SMAD4-ChIP-Seq(GSE29422)/Homer	VBSYGTCTGG	1e0	-3.680e-04	1.0000	37.0	2.43%	66.0	4.72%
Smad2(MAD)/ES-SMAD2-ChIP-Seq(GSE29422)/Homer	CTGTCTGG	1e0	-2.480e-04	1.0000	40.0	2.63%	70.5	5.04%
ELF1(ETS)/Jurkat-ELF1-ChIP-Seq(SRA014231)/Homer	AVCCGGAAGT	1e0	-2.020e-04	1.0000	5.0	0.33%	20.6	1.47%
AMYB(HTH)/Testes-AMYB-ChIP-Seq(GSE44588)/Homer	TGGCAGTTGG	1e0	-1.970e-04	1.0000	34.0	2.23%	63.1	4.51%
Isl1(Homeobox)/Neuron-Isl1-ChIP-Seq(GSE31456)/Homer	CTAATKGV	1e0	-1.450e-04	1.0000	81.0	5.32%	121.5	8.69%
SOC1(MADS)/Seedling-SOC1-ChIP-Seq(GSE45846)/Homer	TWCCAWWTWTGG	1e0	-1.140e-04	1.0000	10.0	0.66%	30.8	2.20%
DPL-1(E2F)/cElegans-Adult-ChIP-Seq(modEncode)/Homer	TAGCGCGC	1e0	-1.120e-04	1.0000	5.0	0.33%	21.7	1.55%
Nkx2.5(Homeobox)/HL1-Nkx2.5.biotin-ChIP-Seq(GSE21529)/Homer	RRSCACTYAA	1e0	-7.600e-05	1.0000	98.0	6.44%	143.1	10.23%
SCL(bHLH)/HPC7-Scl-ChIP-Seq(GSE13511)/Homer	AVCAGCTG	1e0	-6.700e-05	1.0000	212.0	13.93%	267.1	19.11%
PCF/Arabidopsis-Promoters/Homer	NNWWWTGGGCYTDDN	1e0	-3.400e-05	1.0000	2.0	0.13%	17.0	1.22%
MYB(HTH)/ERMYB-Myb-ChIPSeq(GSE22095)/Homer	GGCVGTTR	1e0	-2.900e-05	1.0000	39.0	2.56%	75.8	5.42%
BMYB(HTH)/Hela-BMYB-ChIP-Seq(GSE27030)/Homer	NHAACBGYYV	1e0	-1.700e-05	1.0000	35.0	2.30%	72.0	5.15%
SeqBias: polyA-repeat	AAAAAAAAAA	1e0	-1.300e-05	1.0000	1300.0	85.41%	1264.5	90.44%
Nkx2.1(Homeobox)/LungAC-Nkx2.1-ChIP-Seq(GSE43252)/Homer	RSCACTYRAG	1e0	-9.000e-06	1.0000	127.0	8.34%	184.0	13.16%
SPDEF(ETS)/VCaP-SPDEF-ChIP-Seq(SRA014231)/Homer	ASWTCCTGBT	1e0	-1.000e-06	1.0000	19.0	1.25%	55.8	3.99%
Initiator/Drosophila-Promoters/Homer	NTCAGTYG	1e0	-0.000e+00	1.0000	81.0	5.32%	141.2	10.10%
CArG(MADS)/PUER-Srf-ChIP-Seq(Sullivan_et_al.)/Homer	CCATATATGGNM	1e0	-0.000e+00	1.0000	2.0	0.13%	25.6	1.83%
TATA-Box(TBP)/Promoter/Homer	CCTTTTAWAGSC	1e0	-0.000e+00	1.0000	34.0	2.23%	89.0	6.36%
SEP3(MADS)/Arabidoposis-Flower-Sep3-ChIP-Seq/Homer	CCAAAAAGGG	1e0	-0.000e+00	1.0000	32.0	2.10%	88.7	6.34%
Trl(Zf)/S2-GAGAfactor-ChIP-Seq(GSE40646)/Homer	RGAGAGAG	1e0	-0.000e+00	1.0000	72.0	4.73%	152.9	10.94%
NF1-halfsite(CTF)/LNCaP-NF1-ChIP-Seq(Unpublished)/Homer	YTGCCAAG	1e0	-0.000e+00	1.0000	38.0	2.50%	107.2	7.67%
NFY(CCAAT)/Promoter/Homer	RGCCAATSRG	1e0	-0.000e+00	1.0000	10.0	0.66%	55.1	3.94%
Unknown3/Drosophila-Promoters/Homer	ACVAKCTGGCAGCGC	1e0	-0.000e+00	1.0000	0.0	0.00%	2.8	0.20%
Tcfcp2l1(CP2)/mES-Tcfcp2l1-ChIP-Seq(GSE11431)/Homer	NRAACCRGTTYRAACCRGYT	1e0	-0.000e+00	1.0000	0.0	0.00%	3.7	0.26%
HRE(HSF)/HepG2-HSF1-ChIP-Seq(GSE31477)/Homer	BSTTCTRGAABVTTCYAGAA	1e0	-0.000e+00	1.0000	0.0	0.00%	1.6	0.12%
Mouse_Recombination_Hotspot(Zf)/Testis-DMC1-ChIP-Seq(GSE24438)/Homer	ACTYKNATTCGTGNTACTTC	1e0	-0.000e+00	1.0000	0.0	0.00%	1.2	0.09%
ZNF16(Zf)/HEK293-ZNF16.GFP-ChIP-Seq(GSE58341)/Homer	MACCTTCYATGGCTCCCTAKTGCCY	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
ZFP3(Zf)/HEK293-ZFP3.GFP-ChIP-Seq(GSE58341)/Homer	GGGTTTTGAAGGATGARTAGGAGTT	1e0	0.000e+00	1.0000	0.0	0.00%	0.9	0.06%
ZBTB33(Zf)/GM12878-ZBTB33-ChIP-Seq(GSE32465)/Homer	GGVTCTCGCGAGAAC	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
T1ISRE(IRF)/ThioMac-Ifnb-Expression/Homer	ACTTTCGTTTCT	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
Unknown2/Arabidopsis-Promoters/Homer	AAACGACGTCGTTTT	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
GFX(?)/Promoter/Homer	ATTCTCGCGAGA	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
LIN-15B(Zf)/cElegans-L3-LIN15B-ChIP-Seq(modEncode)/Homer	CARTGGAGCGCRYTTGCATT	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
 Ik-1	NHTTGGGAATRCC	1e0	0.000e+00	1.0000	1522.0	100.00%	1398.2	100.00%
ZNF41(Zf)/HEK293-ZNF41.GFP-ChIP-Seq(GSE58341)/Homer	CCTCATGGTGYCYTWYTCCCTTGTG	1e0	0.000e+00	1.0000	0.0	0.00%	0.8	0.06%
REST-NRSF(Zf)/Jurkat-NRSF-ChIP-Seq/Homer	GGMGCTGTCCATGGTGCTGA	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
EFL-1(E2F)/cElegans-L1-EFL1-ChIP-Seq(modEncode)/Homer	TGCAARYGCGCTCYA	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
OCT:OCT(POU,Homeobox,IR1)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATWATTCATGA	1e0	0.000e+00	1.0000	0.0	0.00%	0.5	0.04%
NRF1(NRF)/MCF7-NRF1-ChIP-Seq(Unpublished)/Homer	CTGCGCATGCGC	1e0	0.000e+00	1.0000	0.0	0.00%	4.6	0.33%
BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer	CNNBRGCGCCCCCTGSTGGC	1e0	0.000e+00	1.0000	0.0	0.00%	6.7	0.48%