Motif Name	Consensus	P-value	Log P-value	q-value (Benjamini)	# of Target Sequences with Motif(of 4239)	% of Target Sequences with Motif	# of Background Sequences with Motif(of 20413)	% of Background Sequences with Motif
ABF1/SacCer-Promoters/Homer	CGTRNAAARTGA	1e-219	-5.050e+02	0.0000	1491.0	35.17%	3139.5	15.38%
REB1/SacCer-Promoters/Homer	KCCGGGTAAYRR	1e-185	-4.271e+02	0.0000	941.0	22.20%	1594.9	7.82%
RLR1?/SacCer-Promoters/Homer	WTTTTCYYTTTT	1e-70	-1.632e+02	0.0000	1948.0	45.95%	6679.6	32.73%
c-Myc(bHLH)/LNCAP-cMyc-ChIP-Seq(Unpublished)/Homer	VCCACGTG	1e-54	-1.251e+02	0.0000	587.0	13.85%	1426.5	6.99%
SFP1/SacCer-Promoters/Homer	DDAAAAATTTTY	1e-53	-1.231e+02	0.0000	644.0	15.19%	1637.0	8.02%
SeqBias: CG-repeat	CGCGCGCGCG	1e-50	-1.155e+02	0.0000	778.0	18.35%	2169.3	10.63%
DPL-1(E2F)/cElegans-Adult-ChIP-Seq(modEncode)/Homer	TAGCGCGC	1e-42	-9.728e+01	0.0000	1074.0	25.34%	3466.6	16.99%
bHLHE40(bHLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer	KCACGTGMCN	1e-40	-9.333e+01	0.0000	433.0	10.21%	1040.0	5.10%
n-Myc(bHLH)/mES-nMyc-ChIP-Seq(GSE11431)/Homer	VRCCACGTGG	1e-40	-9.306e+01	0.0000	672.0	15.85%	1905.9	9.34%
CLOCK(bHLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer	GHCACGTG	1e-39	-9.209e+01	0.0000	563.0	13.28%	1506.2	7.38%
Cbf1(bHLH)/Yeast-Cbf1-ChIP-Seq(GSE29506)/Homer	TCACGTGAYH	1e-36	-8.519e+01	0.0000	404.0	9.53%	978.5	4.79%
Usf2(bHLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer	GTCACGTGGT	1e-36	-8.508e+01	0.0000	398.0	9.39%	958.1	4.69%
USF1(bHLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer	SGTCACGTGR	1e-33	-7.735e+01	0.0000	476.0	11.23%	1272.1	6.23%
TOD6?/SacCer-Promoters/Homer	GCGATGAGMT	1e-32	-7.445e+01	0.0000	373.0	8.80%	922.8	4.52%
Max(bHLH)/K562-Max-ChIP-Seq(GSE31477)/Homer	RCCACGTGGYYN	1e-31	-7.364e+01	0.0000	603.0	14.23%	1770.0	8.67%
E-box/Arabidopsis-Promoters/Homer	GCCACGTG	1e-27	-6.329e+01	0.0000	525.0	12.38%	1542.9	7.56%
IBL1(bHLH)/Seedling-IBL1-ChIP-Seq(GSE51120)/Homer	CACGTGCC	1e-26	-6.034e+01	0.0000	1345.0	31.73%	4991.7	24.46%
PIF5ox(bHLH)/Arabidopsis-PIF5ox-ChIP-Seq(GSE35062)/Homer	BCACGTGVDN	1e-24	-5.685e+01	0.0000	875.0	20.64%	3004.6	14.72%
Pho2(bHLH)/Yeast-Pho2-ChIP-Seq(GSE29506)/Homer	CCCACGTGCT	1e-24	-5.637e+01	0.0000	428.0	10.10%	1222.8	5.99%
E-box(bHLH)/Promoter/Homer	SSGGTCACGTGA	1e-23	-5.461e+01	0.0000	130.0	3.07%	223.0	1.09%
PIF4(bHLH)/Seedling-PIF4-ChIP-Seq(GSE35315)/Homer	NNBCACGTGN	1e-22	-5.273e+01	0.0000	964.0	22.74%	3424.4	16.78%
SPCH(bHLH)/Seedling-SPCH-ChIP-Seq(GSE57497)/Homer	WNBCACGTGA	1e-22	-5.198e+01	0.0000	1081.0	25.50%	3936.6	19.29%
E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer	GGCGGGAAAH	1e-21	-4.899e+01	0.0000	782.0	18.45%	2696.2	13.21%
FHY3(FAR1)/Arabidopsis-FHY3-ChIP-Seq(GSE30711)/Homer	HHCACGCGCBTN	1e-21	-4.851e+01	0.0000	408.0	9.62%	1200.2	5.88%
TATA-box/SacCer-Promoters/Homer	BBHWTATATA	1e-20	-4.833e+01	0.0000	1807.0	42.63%	7253.8	35.54%
NPAS2(bHLH)/Liver-NPAS2-ChIP-Seq(GSE39860)/Homer	KCCACGTGAC	1e-20	-4.808e+01	0.0000	810.0	19.11%	2823.9	13.84%
Egr2(Zf)/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer	NGCGTGGGCGGR	1e-19	-4.479e+01	0.0000	139.0	3.28%	277.8	1.36%
Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo_et_al.)/Homer	TBGCACGCAA	1e-15	-3.570e+01	0.0000	1044.0	24.63%	3989.0	19.55%
BMAL1(bHLH)/Liver-Bmal1-ChIP-Seq(GSE39860)/Homer	GNCACGTG	1e-14	-3.275e+01	0.0000	1394.0	32.89%	5609.1	27.49%
MITF(bHLH)/MastCells-MITF-ChIP-Seq(GSE48085)/Homer	RTCATGTGAC	1e-12	-2.796e+01	0.0000	763.0	18.00%	2872.6	14.08%
ZNF467(Zf)/HEK293-ZNF467.GFP-ChIP-Seq(GSE58341)/Homer	TGGGGAAGGGCM	1e-12	-2.773e+01	0.0000	314.0	7.41%	999.5	4.90%
KLF14(Zf)/HEK293-KLF14.GFP-ChIP-Seq(GSE58341)/Homer	RGKGGGCGKGGC	1e-11	-2.614e+01	0.0000	529.0	12.48%	1895.6	9.29%
Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer	GGGGGGGG	1e-10	-2.398e+01	0.0000	288.0	6.79%	930.5	4.56%
KLF10(Zf)/HEK293-KLF10.GFP-ChIP-Seq(GSE58341)/Homer	GGGGGTGTGTCC	1e-10	-2.309e+01	0.0000	235.0	5.54%	730.9	3.58%
c-Myc(bHLH)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	VVCCACGTGG	1e-9	-2.194e+01	0.0000	332.0	7.83%	1127.4	5.52%
Pho4(bHLH)/Yeast-Pho4-ChIP-Seq(GSE29506)/Homer	AAGCACGTGBGD	1e-9	-2.174e+01	0.0000	150.0	3.54%	419.3	2.05%
Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer	TGCGTGGGYG	1e-9	-2.085e+01	0.0000	308.0	7.27%	1041.1	5.10%
SeqBias: TA-repeat	TATATATATA	1e-8	-2.007e+01	0.0000	3696.0	87.19%	17132.3	83.95%
SUT1?/SacCer-Promoters/Homer	CCCCGCGC	1e-8	-1.998e+01	0.0000	2936.0	69.26%	13262.2	64.99%
Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer	GCCACACCCA	1e-8	-1.878e+01	0.0000	154.0	3.63%	454.6	2.23%
HIF-1b(HLH)/T47D-HIF1b-ChIP-Seq(GSE59937)/Homer	RTACGTGC	1e-7	-1.809e+01	0.0000	1604.0	37.84%	6889.3	33.76%
PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	MGGAAGTGAAAC	1e-7	-1.787e+01	0.0000	1385.0	32.67%	5873.8	28.78%
ZBTB33(Zf)/GM12878-ZBTB33-ChIP-Seq(GSE32465)/Homer	GGVTCTCGCGAGAAC	1e-7	-1.755e+01	0.0000	56.0	1.32%	117.0	0.57%
GAGA-repeat/Arabidopsis-Promoters/Homer	CTCTCTCTCY	1e-6	-1.569e+01	0.0000	505.0	11.91%	1942.2	9.52%
KLF5(Zf)/LoVo-KLF5-ChIP-Seq(GSE49402)/Homer	DGGGYGKGGC	1e-6	-1.569e+01	0.0000	444.0	10.47%	1678.8	8.23%
Klf9(Zf)/GBM-Klf9-ChIP-Seq(GSE62211)/Homer	GCCACRCCCACY	1e-6	-1.531e+01	0.0000	122.0	2.88%	359.8	1.76%
HIF2a(bHLH)/785_O-HIF2a-ChIP-Seq(GSE34871)/Homer	GCACGTACCC	1e-5	-1.260e+01	0.0000	715.0	16.87%	2934.0	14.38%
EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer	NWGGGTGTGGCY	1e-5	-1.231e+01	0.0000	101.0	2.38%	302.7	1.48%
E2F1(E2F)/Hela-E2F1-ChIP-Seq(GSE22478)/Homer	CWGGCGGGAA	1e-5	-1.205e+01	0.0000	181.0	4.27%	620.2	3.04%
E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer	VDTTTCCCGCCA	1e-5	-1.180e+01	0.0001	120.0	2.83%	379.8	1.86%
HIF-1a(bHLH)/MCF7-HIF1a-ChIP-Seq(GSE28352)/Homer	TACGTGCV	1e-4	-1.132e+01	0.0001	458.0	10.80%	1815.1	8.89%
TATA-box/Drosophila-Promoters/Homer	CTATAAAAGCSV	1e-4	-1.063e+01	0.0002	200.0	4.72%	715.3	3.51%
Pax8(Paired,Homeobox)/Thyroid-Pax8-ChIP-Seq(GSE26938)/Homer	GTCATGCHTGRCTGS	1e-4	-1.035e+01	0.0002	132.0	3.11%	440.8	2.16%
BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer	DATGASTCAT	1e-4	-1.033e+01	0.0002	561.0	13.23%	2294.0	11.24%
CRE(bZIP)/Promoter/Homer	CSGTGACGTCAC	1e-4	-1.032e+01	0.0002	194.0	4.58%	694.5	3.40%
E2F(E2F)/Hela-CellCycle-Expression/Homer	TTSGCGCGAAAA	1e-4	-1.015e+01	0.0003	129.0	3.04%	430.2	2.11%
NRF1(NRF)/MCF7-NRF1-ChIP-Seq(Unpublished)/Homer	CTGCGCATGCGC	1e-4	-9.945e+00	0.0003	45.0	1.06%	113.7	0.56%
FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer	NYYTGTTTACHN	1e-4	-9.940e+00	0.0003	713.0	16.82%	2990.8	14.66%
PPARE(NR),DR1/3T3L1-Pparg-ChIP-Seq(GSE13511)/Homer	TGACCTTTGCCCCA	1e-4	-9.242e+00	0.0006	490.0	11.56%	2001.8	9.81%
Dorsal(RHD)/Embryo-dl-ChIP-Seq(GSE65441)/Homer	GGGAAAAMCCCG	1e-4	-9.235e+00	0.0006	210.0	4.95%	776.1	3.80%
Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer	GTTGCCATGGCAACM	1e-3	-8.938e+00	0.0008	90.0	2.12%	288.0	1.41%
NRF(NRF)/Promoter/Homer	STGCGCATGCGC	1e-3	-8.896e+00	0.0009	95.0	2.24%	307.9	1.51%
RFX(HTH)/K562-RFX3-ChIP-Seq(SRA012198)/Homer	CGGTTGCCATGGCAAC	1e-3	-8.854e+00	0.0009	79.0	1.86%	245.7	1.20%
Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer	NRYTTCCGGY	1e-3	-8.537e+00	0.0012	1001.0	23.61%	4356.7	21.35%
PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer	GSCTGTCACTCA	1e-2	-6.829e+00	0.0064	34.0	0.80%	91.4	0.45%
RXR(NR),DR1/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer	TAGGGCAAAGGTCA	1e-2	-6.824e+00	0.0064	498.0	11.75%	2098.1	10.28%
ERE(NR),IR3/MCF7-ERa-ChIP-Seq(Unpublished)/Homer	VAGGTCACNSTGACC	1e-2	-6.629e+00	0.0076	123.0	2.90%	446.2	2.19%
EFL-1(E2F)/cElegans-L1-EFL1-ChIP-Seq(modEncode)/Homer	TGCAARYGCGCTCYA	1e-2	-6.405e+00	0.0094	23.0	0.54%	55.4	0.27%
GATA:SCL(Zf,bHLH)/Ter119-SCL-ChIP-Seq(GSE18720)/Homer	CRGCTGBNGNSNNSAGATAA	1e-2	-6.171e+00	0.0117	106.0	2.50%	381.2	1.87%
SpiB(ETS)/OCILY3-SPIB-ChIP-Seq(GSE56857)/Homer	AAAGRGGAAGTG	1e-2	-6.159e+00	0.0117	266.0	6.28%	1073.8	5.26%
Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer	SCCTAGCAACAG	1e-2	-6.034e+00	0.0131	262.0	6.18%	1058.5	5.19%
p53(p53)/Saos-p53-ChIP-Seq(GSE15780)/Homer	RRCATGYCYRGRCATGYYYN	1e-2	-5.937e+00	0.0140	69.0	1.63%	232.3	1.14%
p53(p53)/Saos-p53-ChIP-Seq/Homer	RRCATGYCYRGRCATGYYYN	1e-2	-5.937e+00	0.0140	69.0	1.63%	232.3	1.14%
HEB(bHLH)/mES-Heb-ChIP-Seq(GSE53233)/Homer	VCAGCTGBNN	1e-2	-5.918e+00	0.0141	904.0	21.33%	4000.8	19.60%
Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer	HACTTCCGGY	1e-2	-5.860e+00	0.0147	809.0	19.08%	3560.6	17.45%
p63(p53)/Keratinocyte-p63-ChIP-Seq(GSE17611)/Homer	NNDRCATGYCYNRRCATGYH	1e-2	-5.653e+00	0.0179	201.0	4.74%	797.9	3.91%
Zic(Zf)/Cerebellum-ZIC1.2-ChIP-Seq(GSE60731)/Homer	CCTGCTGAGH	1e-2	-5.610e+00	0.0184	395.0	9.32%	1665.1	8.16%
Fosl2(bZIP)/3T3L1-Fosl2-ChIP-Seq(GSE56872)/Homer	NATGASTCABNN	1e-2	-5.465e+00	0.0210	178.0	4.20%	700.1	3.43%
Fli1(ETS)/CD8-FLI-ChIP-Seq(GSE20898)/Homer	NRYTTCCGGH	1e-2	-5.283e+00	0.0249	1289.0	30.41%	5837.3	28.60%
ZNF143|STAF(Zf)/CUTLL-ZNF143-ChIP-Seq(GSE29600)/Homer	ATTTCCCAGVAKSCY	1e-2	-5.167e+00	0.0276	126.0	2.97%	480.0	2.35%
E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer	GGCGGGAARN	1e-2	-5.145e+00	0.0278	255.0	6.02%	1047.5	5.13%
Ets1-distal(ETS)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	MACAGGAAGT	1e-2	-5.062e+00	0.0299	201.0	4.74%	809.9	3.97%
Six1(Homeobox)/Myoblast-Six1-ChIP-Chip(GSE20150)/Homer	GKVTCADRTTWC	1e-2	-5.017e+00	0.0309	302.0	7.12%	1261.0	6.18%
Fra1(bZIP)/BT549-Fra1-ChIP-Seq(GSE46166)/Homer	NNATGASTCATH	1e-2	-4.921e+00	0.0336	475.0	11.21%	2051.6	10.05%
AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	VTGACTCATC	1e-2	-4.873e+00	0.0348	583.0	13.75%	2550.8	12.50%
ETS(ETS)/Promoter/Homer	AACCGGAAGT	1e-2	-4.788e+00	0.0375	321.0	7.57%	1353.2	6.63%
Trl(Zf)/S2-GAGAfactor-ChIP-Seq(GSE40646)/Homer	RGAGAGAG	1e-2	-4.747e+00	0.0386	1597.0	37.67%	7327.5	35.91%
CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	AYAGTGCCMYCTRGTGGCCA	1e-2	-4.713e+00	0.0395	42.0	0.99%	136.4	0.67%
Tbox:Smad(T-box,MAD)/ESCd5-Smad2_3-ChIP-Seq(GSE29422)/Homer	AGGTGHCAGACA	1e-2	-4.703e+00	0.0395	100.0	2.36%	376.0	1.84%
Srebp2(bHLH)/HepG2-Srebp2-ChIP-Seq(GSE31477)/Homer	CGGTCACSCCAC	1e-2	-4.612e+00	0.0427	71.0	1.67%	255.3	1.25%
ZNF711(Zf)/SHSY5Y-ZNF711-ChIP-Seq(GSE20673)/Homer	AGGCCTAG	1e-2	-4.610e+00	0.0427	750.0	17.69%	3336.3	16.35%
X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	GGTTGCCATGGCAA	1e-1	-4.530e+00	0.0454	121.0	2.85%	469.0	2.30%
ZNF519(Zf)/HEK293-ZNF519.GFP-ChIP-Seq(GSE58341)/Homer	GAGSCCGAGC	1e-1	-4.499e+00	0.0463	50.0	1.18%	170.2	0.83%
PAX5(Paired,Homeobox),condensed/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GTCACGCTCSCTGM	1e-1	-4.434e+00	0.0489	75.0	1.77%	274.8	1.35%
NFkB-p65-Rel(RHD)/ThioMac-LPS-Expression(GSE23622)/Homer	GGAAATTCCC	1e-1	-4.385e+00	0.0507	59.0	1.39%	208.5	1.02%
Sox2(HMG)/mES-Sox2-ChIP-Seq(GSE11431)/Homer	BCCATTGTTC	1e-1	-4.306e+00	0.0544	1299.0	30.64%	5935.9	29.09%
Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer	BAACAGCTGT	1e-1	-4.292e+00	0.0546	333.0	7.86%	1422.1	6.97%
Unknown-ESC-element(?)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	CACAGCAGGGGG	1e-1	-4.093e+00	0.0659	173.0	4.08%	706.9	3.46%
BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer	CNNBRGCGCCCCCTGSTGGC	1e-1	-4.064e+00	0.0671	37.0	0.87%	122.1	0.60%
REST-NRSF(Zf)/Jurkat-NRSF-ChIP-Seq/Homer	GGMGCTGTCCATGGTGCTGA	1e-1	-3.974e+00	0.0728	2.0	0.05%	1.9	0.01%
Unknown1(NR/Ini-like)/Drosophila-Promoters/Homer	MYGGTCACACTG	1e-1	-3.804e+00	0.0853	154.0	3.63%	628.0	3.08%
PAX5(Paired,Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GCAGCCAAGCRTGACH	1e-1	-3.770e+00	0.0874	195.0	4.60%	812.2	3.98%
Sp1(Zf)/Promoter/Homer	GGCCCCGCCCCC	1e-1	-3.584e+00	0.1043	49.0	1.16%	176.6	0.87%
Pbx3(Homeobox)/GM12878-PBX3-ChIP-Seq(GSE32465)/Homer	SCTGTCAMTCAN	1e-1	-3.506e+00	0.1117	123.0	2.90%	497.5	2.44%
Tcfcp2l1(CP2)/mES-Tcfcp2l1-ChIP-Seq(GSE11431)/Homer	NRAACCRGTTYRAACCRGYT	1e-1	-3.396e+00	0.1234	81.0	1.91%	315.8	1.55%
AP-2alpha(AP2)/Hela-AP2alpha-ChIP-Seq(GSE31477)/Homer	ATGCCCTGAGGC	1e-1	-3.308e+00	0.1336	155.0	3.66%	644.1	3.16%
ARE(NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	RGRACASNSTGTYCYB	1e-1	-3.285e+00	0.1354	126.0	2.97%	515.4	2.53%
Stat3(Stat)/mES-Stat3-ChIP-Seq(GSE11431)/Homer	CTTCCGGGAA	1e-1	-3.232e+00	0.1414	447.0	10.54%	1985.4	9.73%
Rfx1(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	KGTTGCCATGGCAA	1e-1	-3.151e+00	0.1521	171.0	4.03%	720.4	3.53%
NF1:FOXA1(CTF,Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WNTGTTTRYTTTGGCA	1e-1	-3.095e+00	0.1593	72.0	1.70%	281.2	1.38%
TR4(NR),DR1/Hela-TR4-ChIP-Seq(GSE24685)/Homer	GAGGTCAAAGGTCA	1e-1	-3.086e+00	0.1593	43.0	1.01%	157.5	0.77%
GAGA-repeat/SacCer-Promoters/Homer	CTYTCTYTCTCTCTC	1e-1	-2.901e+00	0.1899	3258.0	76.86%	15468.5	75.80%
ZFX(Zf)/mES-Zfx-ChIP-Seq(GSE11431)/Homer	AGGCCTRG	1e-1	-2.869e+00	0.1944	459.0	10.83%	2057.8	10.08%
ZNF692(Zf)/HEK293-ZNF692.GFP-ChIP-Seq(GSE58341)/Homer	GTGGGCCCCA	1e-1	-2.853e+00	0.1958	47.0	1.11%	177.8	0.87%
MyoG(bHLH)/C2C12-MyoG-ChIP-Seq(GSE36024)/Homer	AACAGCTG	1e-1	-2.841e+00	0.1965	448.0	10.57%	2007.2	9.84%
Smad2(MAD)/ES-SMAD2-ChIP-Seq(GSE29422)/Homer	CTGTCTGG	1e-1	-2.769e+00	0.2093	955.0	22.53%	4397.6	21.55%
THRa(NR)/C17.2-THRa-ChIP-Seq(GSE38347)/Homer	GGTCANYTGAGGWCA	1e-1	-2.697e+00	0.2229	140.0	3.30%	593.0	2.91%
IRF1(IRF)/PBMC-IRF1-ChIP-Seq(GSE43036)/Homer	GAAAGTGAAAGT	1e-1	-2.689e+00	0.2229	220.0	5.19%	957.2	4.69%
GEI-11(Myb?)/cElegans-L4-GEI11-ChIP-Seq(modEncode)/Homer	CCGACAYYTYACGGG	1e-1	-2.611e+00	0.2389	34.0	0.80%	125.8	0.62%
E-box/Drosophila-Promoters/Homer	AACAGCTGTTHN	1e-1	-2.547e+00	0.2525	138.0	3.26%	587.3	2.88%
ERG(ETS)/VCaP-ERG-ChIP-Seq(GSE14097)/Homer	ACAGGAAGTG	1e-1	-2.543e+00	0.2525	1091.0	25.74%	5058.1	24.79%
ZNF416(Zf)/HEK293-ZNF416.GFP-ChIP-Seq(GSE58341)/Homer	WDNCTGGGCA	1e-1	-2.518e+00	0.2558	431.0	10.17%	1943.8	9.52%
E2A(bHLH)/proBcell-E2A-ChIP-Seq(GSE21978)/Homer	DNRCAGCTGY	1e-1	-2.516e+00	0.2558	624.0	14.72%	2849.0	13.96%
PRDM1(Zf)/Hela-PRDM1-ChIP-Seq(GSE31477)/Homer	ACTTTCACTTTC	1e-1	-2.515e+00	0.2558	638.0	15.05%	2915.2	14.28%
GLI3(Zf)/Limb-GLI3-ChIP-Chip(GSE11077)/Homer	CGTGGGTGGTCC	1e-1	-2.489e+00	0.2569	46.0	1.09%	178.9	0.88%
Tbet(T-box)/CD8-Tbet-ChIP-Seq(GSE33802)/Homer	AGGTGTGAAM	1e-1	-2.468e+00	0.2604	1028.0	24.25%	4765.0	23.35%
NFkB-p50,p52(RHD)/Monocyte-p50-ChIP-Chip(Schreiber_et_al.)/Homer	GGGGGAATCCCC	1e-1	-2.433e+00	0.2675	33.0	0.78%	123.0	0.60%
Pknox1(Homeobox)/ES-Prep1-ChIP-Seq(GSE63282)/Homer	SCTGTCAVTCAV	1e-1	-2.332e+00	0.2935	127.0	3.00%	544.0	2.67%
ELF1(ETS)/Jurkat-ELF1-ChIP-Seq(SRA014231)/Homer	AVCCGGAAGT	1e0	-2.273e+00	0.3089	525.0	12.38%	2397.9	11.75%
Atf3(bZIP)/GBM-ATF3-ChIP-Seq(GSE33912)/Homer	DATGASTCATHN	1e0	-2.256e+00	0.3120	498.0	11.75%	2271.7	11.13%
ETS1(ETS)/Jurkat-ETS1-ChIP-Seq(GSE17954)/Homer	ACAGGAAGTG	1e0	-2.248e+00	0.3121	795.0	18.75%	3674.2	18.00%
GABPA(ETS)/Jurkat-GABPa-ChIP-Seq(GSE17954)/Homer	RACCGGAAGT	1e0	-2.237e+00	0.3129	737.0	17.39%	3400.3	16.66%
Bach1(bZIP)/K562-Bach1-ChIP-Seq(GSE31477)/Homer	AWWNTGCTGAGTCAT	1e0	-2.098e+00	0.3572	28.0	0.66%	106.4	0.52%
DMRT1(DM)/Testis-DMRT1-ChIP-Seq(GSE64892)/Homer	TWGHWACAWTGTWDC	1e0	-1.929e+00	0.4197	326.0	7.69%	1481.5	7.26%
GFY-Staf(?,Zf)/Promoter/Homer	RACTACAATTCCCAGAAKGC	1e0	-1.922e+00	0.4197	15.0	0.35%	53.7	0.26%
Brachyury(T-box)/Mesoendoderm-Brachyury-ChIP-exo(GSE54963)/Homer	ANTTMRCASBNNNGTGYKAAN	1e0	-1.896e+00	0.4274	223.0	5.26%	1001.8	4.91%
Tlx?(NR)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	CTGGCAGSCTGCCA	1e0	-1.824e+00	0.4557	108.0	2.55%	471.2	2.31%
MafK(bZIP)/C2C12-MafK-ChIP-Seq(GSE36030)/Homer	GCTGASTCAGCA	1e0	-1.803e+00	0.4620	95.0	2.24%	412.3	2.02%
Jun-AP1(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	GATGASTCATCN	1e0	-1.762e+00	0.4781	79.0	1.86%	340.4	1.67%
ZNF675(Zf)/HEK293-ZNF675.GFP-ChIP-Seq(GSE58341)/Homer	ARGAGGMCAAAATGW	1e0	-1.747e+00	0.4817	146.0	3.44%	649.6	3.18%
LIN-15B(Zf)/cElegans-L3-LIN15B-ChIP-Seq(modEncode)/Homer	CARTGGAGCGCRYTTGCATT	1e0	-1.740e+00	0.4817	6.0	0.14%	18.7	0.09%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	RGGTCADNNAGAGGTCAV	1e0	-1.622e+00	0.5384	4.0	0.09%	11.8	0.06%
ETS:RUNX(ETS,Runt)/Jurkat-RUNX1-ChIP-Seq(GSE17954)/Homer	RCAGGATGTGGT	1e0	-1.595e+00	0.5494	36.0	0.85%	149.3	0.73%
ZNF528(Zf)/HEK293-ZNF528.GFP-ChIP-Seq(GSE58341)/Homer	AGAAATGACTTCCCT	1e0	-1.577e+00	0.5550	6.0	0.14%	19.5	0.10%
FOXA1:AR(Forkhead,NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	AGTAAACAAAAAAGAACAND	1e0	-1.557e+00	0.5626	91.0	2.15%	401.5	1.97%
PGR(NR)/EndoStromal-PGR-ChIP-Seq(GSE69539)/Homer	AAGAACATWHTGTTC	1e0	-1.553e+00	0.5626	219.0	5.17%	998.6	4.89%
Tbx20(T-box)/Heart-Tbx20-ChIP-Seq(GSE29636)/Homer	GGTGYTGACAGS	1e0	-1.492e+00	0.5922	180.0	4.25%	818.6	4.01%
NF1(CTF)/LNCAP-NF1-ChIP-Seq(Unpublished)/Homer	CYTGGCABNSTGCCAR	1e0	-1.484e+00	0.5931	120.0	2.83%	538.7	2.64%
AP-2gamma(AP2)/MCF7-TFAP2C-ChIP-Seq(GSE21234)/Homer	SCCTSAGGSCAW	1e0	-1.450e+00	0.6092	223.0	5.26%	1022.9	5.01%
Etv2(ETS)/ES-ER71-ChIP-Seq(GSE59402)/Homer(0.967)	NNAYTTCCTGHN	1e0	-1.418e+00	0.6246	658.0	15.52%	3087.2	15.13%
GATA3(Zf),DR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATGKDGAGATAAG	1e0	-1.377e+00	0.6470	139.0	3.28%	631.1	3.09%
RBPJ:Ebox(?,bHLH)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	GGGRAARRGRMCAGMTG	1e0	-1.337e+00	0.6686	119.0	2.81%	539.4	2.64%
GFX(?)/Promoter/Homer	ATTCTCGCGAGA	1e0	-1.318e+00	0.6769	13.0	0.31%	51.1	0.25%
ZNF189(Zf)/HEK293-ZNF189.GFP-ChIP-Seq(GSE58341)/Homer	TGGAACAGMA	1e0	-1.306e+00	0.6807	632.0	14.91%	2973.5	14.57%
Fox:Ebox(Forkhead,bHLH)/Panc1-Foxa2-ChIP-Seq(GSE47459)/Homer	NNNVCTGWGYAAACASN	1e0	-1.305e+00	0.6807	841.0	19.84%	3971.8	19.46%
Hnf1(Homeobox)/Liver-Foxa2-Chip-Seq(GSE25694)/Homer	GGTTAAWCATTAA	1e0	-1.255e+00	0.7072	229.0	5.40%	1061.4	5.20%
SeqBias: G/A bias	RRRRRRRRRR	1e0	-1.247e+00	0.7087	4239.0	100.00%	20401.8	99.97%
RARg(NR)/ES-RARg-ChIP-Seq(GSE30538)/Homer	AGGTCAAGGTCA	1e0	-1.239e+00	0.7094	13.0	0.31%	52.9	0.26%
Unknown1/Arabidopsis-Promoters/Homer	RGGGTAWWWTHGTAA	1e0	-1.237e+00	0.7094	143.0	3.37%	656.8	3.22%
ZNF264(Zf)/HEK293-ZNF264.GFP-ChIP-Seq(GSE58341)/Homer	RGGGCACTAACY	1e0	-1.196e+00	0.7315	536.0	12.64%	2525.7	12.38%
GRE(NR),IR3/RAW264.7-GRE-ChIP-Seq(Unpublished)/Homer	VAGRACAKWCTGTYC	1e0	-1.143e+00	0.7665	178.0	4.20%	826.5	4.05%
Foxa2(Forkhead)/Liver-Foxa2-ChIP-Seq(GSE25694)/Homer	CYTGTTTACWYW	1e0	-1.100e+00	0.7955	1043.0	24.60%	4961.2	24.31%
DMRT6(DM)/Testis-DMRT6-ChIP-Seq(GSE60440)/Homer	YDGHTACAWTGTADC	1e0	-1.087e+00	0.8003	238.0	5.61%	1114.6	5.46%
Rbpj1(?)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	HTTTCCCASG	1e0	-1.082e+00	0.8003	937.0	22.10%	4455.6	21.83%
Atoh1(bHLH)/Cerebellum-Atoh1-ChIP-Seq(GSE22111)/Homer	VNRVCAGCTGGY	1e0	-1.080e+00	0.8003	580.0	13.68%	2746.4	13.46%
Reverb(NR),DR2/RAW-Reverba.biotin-ChIP-Seq(GSE45914)/Homer	GTRGGTCASTGGGTCA	1e0	-1.021e+00	0.8401	32.0	0.75%	144.0	0.71%
Srebp1a(bHLH)/HepG2-Srebp1a-ChIP-Seq(GSE31477)/Homer	RTCACSCCAY	1e0	-1.007e+00	0.8463	133.0	3.14%	620.9	3.04%
ETV1(ETS)/GIST48-ETV1-ChIP-Seq(GSE22441)/Homer	AACCGGAAGT	1e0	-1.000e+00	0.8473	1086.0	25.62%	5180.2	25.38%
Sox15(HMG)/CPA-Sox15-ChIP-Seq(GSE62909)/Homer	RAACAATGGN	1e0	-9.912e-01	0.8499	1437.0	33.90%	6867.5	33.65%
PAX6(Paired,Homeobox)/Forebrain-Pax6-ChIP-Seq(GSE66961)/Homer	NGTGTTCAVTSAAGCGKAAA	1e0	-8.414e-01	0.9814	85.0	2.01%	400.3	1.96%
GRE(NR),IR3/A549-GR-ChIP-Seq(GSE32465)/Homer	NRGVACABNVTGTYCY	1e0	-7.708e-01	1.0000	73.0	1.72%	346.6	1.70%
Tcf21(bHLH)/ArterySmoothMuscle-Tcf21-ChIP-Seq(GSE61369)/Homer	NAACAGCTGG	1e0	-7.544e-01	1.0000	421.0	9.93%	2018.6	9.89%
PU.1:IRF8(ETS:IRF)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	GGAAGTGAAAST	1e0	-7.489e-01	1.0000	188.0	4.44%	899.2	4.41%
Sox4(HMG)/proB-Sox4-ChIP-Seq(GSE50066)/Homer	YCTTTGTTCC	1e0	-7.414e-01	1.0000	975.0	23.00%	4684.1	22.95%
Unknown3/Arabidopsis-Promoters/Homer	AYTAAACCGG	1e0	-7.172e-01	1.0000	459.0	10.83%	2205.6	10.81%
Tcf12(bHLH)/GM12878-Tcf12-ChIP-Seq(GSE32465)/Homer	VCAGCTGYTG	1e0	-7.059e-01	1.0000	397.0	9.37%	1908.4	9.35%
Ascl1(bHLH)/NeuralTubes-Ascl1-ChIP-Seq(GSE55840)/Homer	NNVVCAGCTGBN	1e0	-6.905e-01	1.0000	686.0	16.18%	3301.5	16.18%
Unknown3/Drosophila-Promoters/Homer	ACVAKCTGGCAGCGC	1e0	-6.777e-01	1.0000	43.0	1.01%	206.9	1.01%
RBFox2(?)/Heart-RBFox2-CLIP-Seq(GSE57926)/Homer	TGCATGCA	1e0	-6.650e-01	1.0000	1642.0	38.74%	7908.2	38.75%
EWS:FLI1-fusion(ETS)/SK_N_MC-EWS:FLI1-ChIP-Seq(SRA014231)/Homer	VACAGGAAAT	1e0	-6.595e-01	1.0000	432.0	10.19%	2082.6	10.20%
NF-E2(bZIP)/K562-NFE2-ChIP-Seq(GSE31477)/Homer	GATGACTCAGCA	1e0	-6.563e-01	1.0000	18.0	0.42%	86.1	0.42%
ZBTB18(Zf)/HEK293-ZBTB18.GFP-ChIP-Seq(GSE58341)/Homer	AACATCTGGA	1e0	-6.525e-01	1.0000	237.0	5.59%	1143.4	5.60%
Oct4:Sox17(POU,Homeobox,HMG)/F9-Sox17-ChIP-Seq(GSE44553)/Homer	CCATTGTATGCAAAT	1e0	-6.497e-01	1.0000	216.0	5.10%	1042.8	5.11%
ZNF41(Zf)/HEK293-ZNF41.GFP-ChIP-Seq(GSE58341)/Homer	CCTCATGGTGYCYTWYTCCCTTGTG	1e0	-6.294e-01	1.0000	16.0	0.38%	77.7	0.38%
ZSCAN22(Zf)/HEK293-ZSCAN22.GFP-ChIP-Seq(GSE58341)/Homer	SMCAGTCWGAKGGAGGAGGC	1e0	-5.776e-01	1.0000	8.0	0.19%	39.7	0.19%
FoxL2(Forkhead)/Ovary-FoxL2-ChIP-Seq(GSE60858)/Homer	WWTRTAAACAVG	1e0	-5.477e-01	1.0000	1382.0	32.60%	6680.1	32.73%
EBNA1(EBV-virus)/Raji-EBNA1-ChIP-Seq(GSE30709)/Homer	GGYAGCAYDTGCTDCCCNNN	1e0	-5.261e-01	1.0000	6.0	0.14%	30.2	0.15%
YY1(Zf)/Promoter/Homer	CAAGATGGCGGC	1e0	-5.075e-01	1.0000	49.0	1.16%	243.8	1.19%
EBF(EBF)/proBcell-EBF-ChIP-Seq(GSE21978)/Homer	DGTCCCYRGGGA	1e0	-5.044e-01	1.0000	40.0	0.94%	199.4	0.98%
Smad4(MAD)/ESC-SMAD4-ChIP-Seq(GSE29422)/Homer	VBSYGTCTGG	1e0	-4.960e-01	1.0000	919.0	21.68%	4458.5	21.85%
SPDEF(ETS)/VCaP-SPDEF-ChIP-Seq(SRA014231)/Homer	ASWTCCTGBT	1e0	-4.516e-01	1.0000	868.0	20.48%	4221.8	20.69%
ZNF322(Zf)/HEK293-ZNF322.GFP-ChIP-Seq(GSE58341)/Homer	GAGCCTGGTACTGWGCCTGR	1e0	-4.387e-01	1.0000	47.0	1.11%	237.4	1.16%
EBF1(EBF)/Near-E2A-ChIP-Seq(GSE21512)/Homer	GTCCCCWGGGGA	1e0	-4.357e-01	1.0000	226.0	5.33%	1113.1	5.45%
SeqBias: polyA-repeat	AAAAAAAAAA	1e0	-4.155e-01	1.0000	4239.0	100.00%	20405.5	99.99%
 Ik-1	NHTTGGGAATRCC	1e0	-4.155e-01	1.0000	4239.0	100.00%	20405.7	99.99%
OCT:OCT(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	ATGAATATTCATGAG	1e0	-3.751e-01	1.0000	9.0	0.21%	49.1	0.24%
ZNF317(Zf)/HEK293-ZNF317.GFP-ChIP-Seq(GSE58341)/Homer	GTCWGCTGTYYCTCT	1e0	-3.746e-01	1.0000	47.0	1.11%	241.4	1.18%
STAT1(Stat)/HelaS3-STAT1-ChIP-Seq(GSE12782)/Homer	NATTTCCNGGAAAT	1e0	-3.691e-01	1.0000	347.0	8.19%	1712.6	8.39%
Zfp809(Zf)/ES-Zfp809-ChIP-Seq(GSE70799)/Homer	GGGGCTYGKCTGGGA	1e0	-3.660e-01	1.0000	22.0	0.52%	116.3	0.57%
p53(p53)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	ACATGCCCGGGCAT	1e0	-3.390e-01	1.0000	1.0	0.02%	6.6	0.03%
OCT4-SOX2-TCF-NANOG(POU,Homeobox,HMG)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAACAATG	1e0	-3.186e-01	1.0000	296.0	6.98%	1472.8	7.22%
FOXA1(Forkhead)/MCF7-FOXA1-ChIP-Seq(GSE26831)/Homer	WAAGTAAACA	1e0	-3.077e-01	1.0000	1385.0	32.67%	6758.1	33.12%
OCT:OCT(POU,Homeobox,IR1)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATWATTCATGA	1e0	-2.798e-01	1.0000	33.0	0.78%	177.9	0.87%
Bach2(bZIP)/OCILy7-Bach2-ChIP-Seq(GSE44420)/Homer	TGCTGAGTCA	1e0	-2.772e-01	1.0000	71.0	1.67%	369.6	1.81%
ETS:E-box(ETS,bHLH)/HPC7-Scl-ChIP-Seq(GSE22178)/Homer	AGGAARCAGCTG	1e0	-2.575e-01	1.0000	36.0	0.85%	194.8	0.95%
T1ISRE(IRF)/ThioMac-Ifnb-Expression/Homer	ACTTTCGTTTCT	1e0	-2.570e-01	1.0000	14.0	0.33%	80.5	0.39%
RORgt(NR)/EL4-RORgt.Flag-ChIP-Seq(GSE56019)/Homer	AAYTAGGTCA	1e0	-2.289e-01	1.0000	99.0	2.34%	516.0	2.53%
SeqBias: GCW-triplet	GCWGCWGCWGCW	1e0	-2.288e-01	1.0000	4235.0	99.91%	20392.8	99.93%
HRE(HSF)/HepG2-HSF1-ChIP-Seq(GSE31477)/Homer	BSTTCTRGAABVTTCYAGAA	1e0	-2.270e-01	1.0000	83.0	1.96%	435.8	2.14%
Nur77(NR)/K562-NR4A1-ChIP-Seq(GSE31363)/Homer	TGACCTTTNCNT	1e0	-2.167e-01	1.0000	186.0	4.39%	950.5	4.66%
NFAT:AP1(RHD,bZIP)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	SARTGGAAAAWRTGAGTCAB	1e0	-2.124e-01	1.0000	153.0	3.61%	787.8	3.86%
SeqBias: C/A-bias	MMMMMMMMMM	1e0	-2.077e-01	1.0000	4239.0	100.00%	20407.5	100.00%
Meis1(Homeobox)/MastCells-Meis1-ChIP-Seq(GSE48085)/Homer	VGCTGWCAVB	1e0	-2.069e-01	1.0000	1055.0	24.89%	5198.3	25.47%
Pax7(Paired,Homeobox),longest/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	NTAATTDGCYAATTANNWWD	1e0	-1.730e-01	1.0000	63.0	1.49%	341.2	1.67%
Unknown2/Arabidopsis-Promoters/Homer	AAACGACGTCGTTTT	1e0	-1.728e-01	1.0000	28.0	0.66%	160.9	0.79%
NeuroD1(bHLH)/Islet-NeuroD1-ChIP-Seq(GSE30298)/Homer	GCCATCTGTT	1e0	-1.547e-01	1.0000	386.0	9.11%	1954.5	9.58%
STAT5(Stat)/mCD4+-Stat5-ChIP-Seq(GSE12346)/Homer	RTTTCTNAGAAA	1e0	-1.541e-01	1.0000	315.0	7.43%	1604.9	7.86%
GFY(?)/Promoter/Homer	ACTACAATTCCC	1e0	-1.447e-01	1.0000	25.0	0.59%	147.6	0.72%
TATA-Box(TBP)/Promoter/Homer	CCTTTTAWAGSC	1e0	-1.443e-01	1.0000	1629.0	38.43%	8009.6	39.25%
MafA(bZIP)/Islet-MafA-ChIP-Seq(GSE30298)/Homer	TGCTGACTCA	1e0	-1.367e-01	1.0000	449.0	10.59%	2271.3	11.13%
ZNF382(Zf)/HEK293-ZNF382.GFP-ChIP-Seq(GSE58341)/Homer	GNCTGTASTRNTGBCTCHTT	1e0	-1.310e-01	1.0000	13.0	0.31%	83.9	0.41%
ZNF165(Zf)/WHIM12-ZNF165-ChIP-Seq(GSE65937)/Homer	AAGGKGRCGCAGGCA	1e0	-1.309e-01	1.0000	21.0	0.50%	127.0	0.62%
Ptf1a(bHLH)/Panc1-Ptf1a-ChIP-Seq(GSE47459)/Homer	ACAGCTGTTN	1e0	-1.277e-01	1.0000	1253.0	29.56%	6199.3	30.38%
ZNF669(Zf)/HEK293-ZNF669.GFP-ChIP-Seq(GSE58341)/Homer	GARTGGTCATCGCCC	1e0	-1.265e-01	1.0000	45.0	1.06%	255.5	1.25%
Sox9(HMG)/Limb-SOX9-ChIP-Seq(GSE73225)/Homer	AGGVNCCTTTGT	1e0	-1.238e-01	1.0000	766.0	18.07%	3831.5	18.77%
PU.1(ETS)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	AGAGGAAGTG	1e0	-1.229e-01	1.0000	257.0	6.06%	1327.0	6.50%
PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer	ADGGYAGYAGCATCT	1e0	-1.212e-01	1.0000	417.0	9.84%	2120.1	10.39%
RUNX2(Runt)/PCa-RUNX2-ChIP-Seq(GSE33889)/Homer	NWAACCACADNN	1e0	-1.204e-01	1.0000	644.0	15.19%	3236.0	15.86%
CEBP:CEBP(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	NTNATGCAAYMNNHTGMAAY	1e0	-1.189e-01	1.0000	205.0	4.84%	1069.5	5.24%
RUNX-AML(Runt)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	GCTGTGGTTW	1e0	-1.176e-01	1.0000	468.0	11.04%	2373.5	11.63%
FXR(NR),IR1/Liver-FXR-ChIP-Seq(Chong_et_al.)/Homer	AGGTCANTGACCTB	1e0	-1.081e-01	1.0000	171.0	4.03%	902.7	4.42%
SEP3(MADS)/Arabidoposis-Flower-Sep3-ChIP-Seq/Homer	CCAAAAAGGG	1e0	-1.049e-01	1.0000	2010.0	47.42%	9875.3	48.39%
FOXA1(Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WAAGTAAACA	1e0	-1.047e-01	1.0000	1583.0	37.34%	7814.8	38.29%
LXRE(NR),DR4/RAW-LXRb.biotin-ChIP-Seq(GSE21512)/Homer	RGGTTACTANAGGTCA	1e0	-9.841e-02	1.0000	19.0	0.45%	120.0	0.59%
SeqBias: A/T bias	WWWWWWWWWW	1e0	-9.689e-02	1.0000	4232.0	99.83%	20385.5	99.89%
IRF:BATF(IRF:bZIP)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	CTTTCANTATGACTV	1e0	-9.519e-02	1.0000	144.0	3.40%	770.2	3.77%
Hoxb4(Homeobox)/ES-Hoxb4-ChIP-Seq(GSE34014)/Homer	TGATTRATGGCY	1e0	-9.501e-02	1.0000	245.0	5.78%	1278.3	6.26%
E2A(bHLH),near_PU.1/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	NVCACCTGBN	1e0	-9.038e-02	1.0000	653.0	15.40%	3298.9	16.17%
NFkB-p65(RHD)/GM12787-p65-ChIP-Seq(GSE19485)/Homer	WGGGGATTTCCC	1e0	-8.996e-02	1.0000	286.0	6.75%	1485.5	7.28%
Pax7(Paired,Homeobox),long/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCHGATTAC	1e0	-8.705e-02	1.0000	51.0	1.20%	294.1	1.44%
Ap4(bHLH)/AML-Tfap4-ChIP-Seq(GSE45738)/Homer	NAHCAGCTGD	1e0	-8.017e-02	1.0000	480.0	11.32%	2453.8	12.02%
Unknown4/Drosophila-Promoters/Homer	AAAAATACCRMA	1e0	-7.384e-02	1.0000	328.0	7.74%	1703.9	8.35%
HRE(HSF)/Striatum-HSF1-ChIP-Seq(GSE38000)/Homer	TTCTAGAABNTTCTA	1e0	-6.866e-02	1.0000	195.0	4.60%	1039.4	5.09%
PCF/Arabidopsis-Promoters/Homer	NNWWWTGGGCYTDDN	1e0	-6.766e-02	1.0000	307.0	7.24%	1602.5	7.85%
Gata1(Zf)/K562-GATA1-ChIP-Seq(GSE18829)/Homer	SAGATAAGRV	1e0	-6.742e-02	1.0000	811.0	19.13%	4091.7	20.05%
Znf263(Zf)/K562-Znf263-ChIP-Seq(GSE31477)/Homer	CVGTSCTCCC	1e0	-6.044e-02	1.0000	661.0	15.59%	3361.5	16.47%
Pax7(Paired,Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCAATTA	1e0	-6.002e-02	1.0000	220.0	5.19%	1170.2	5.73%
Esrrb(NR)/mES-Esrrb-ChIP-Seq(GSE11431)/Homer	KTGACCTTGA	1e0	-5.446e-02	1.0000	446.0	10.52%	2305.0	11.29%
Pit1+1bp(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGCATAATTCA	1e0	-5.331e-02	1.0000	662.0	15.62%	3373.6	16.53%
MyoD(bHLH)/Myotube-MyoD-ChIP-Seq(GSE21614)/Homer	RRCAGCTGYTSY	1e0	-5.207e-02	1.0000	349.0	8.23%	1823.9	8.94%
AARE(HLH)/mES-cMyc-ChIP-Seq/Homer	GATTGCATCA	1e0	-4.794e-02	1.0000	145.0	3.42%	796.5	3.90%
ISRE(IRF)/ThioMac-LPS-Expression(GSE23622)/Homer	AGTTTCASTTTC	1e0	-4.476e-02	1.0000	70.0	1.65%	408.2	2.00%
HOXA2(Homeobox)/mES-Hoxa2-ChIP-Seq(Donaldson_et_al.)/Homer	GYCATCMATCAT	1e0	-4.386e-02	1.0000	141.0	3.33%	778.0	3.81%
Mef2a(MADS)/HL1-Mef2a.biotin-ChIP-Seq(GSE21529)/Homer	CYAAAAATAG	1e0	-4.201e-02	1.0000	615.0	14.51%	3155.0	15.46%
CArG(MADS)/PUER-Srf-ChIP-Seq(Sullivan_et_al.)/Homer	CCATATATGGNM	1e0	-3.832e-02	1.0000	387.0	9.13%	2026.8	9.93%
VDR(NR),DR3/GM10855-VDR+vitD-ChIP-Seq(GSE22484)/Homer	ARAGGTCANWGAGTTCANNN	1e0	-3.779e-02	1.0000	82.0	1.93%	475.5	2.33%
ELF5(ETS)/T47D-ELF5-ChIP-Seq(GSE30407)/Homer	ACVAGGAAGT	1e0	-3.497e-02	1.0000	674.0	15.90%	3455.1	16.93%
Chop(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	ATTGCATCAT	1e0	-2.599e-02	1.0000	379.0	8.94%	2002.8	9.81%
Atf4(bZIP)/MEF-Atf4-ChIP-Seq(GSE35681)/Homer	MTGATGCAAT	1e0	-2.570e-02	1.0000	517.0	12.20%	2692.5	13.19%
TCFL2(HMG)/K562-TCF7L2-ChIP-Seq(GSE29196)/Homer	ACWTCAAAGG	1e0	-2.347e-02	1.0000	88.0	2.08%	517.2	2.53%
Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq(GSE22178)/Homer	MAATCACTGC	1e0	-2.334e-02	1.0000	433.0	10.21%	2277.0	11.16%
PAX3:FKHR-fusion(Paired,Homeobox)/Rh4-PAX3:FKHR-ChIP-Seq(GSE19063)/Homer	ACCRTGACTAATTNN	1e0	-2.214e-02	1.0000	299.0	7.05%	1606.0	7.87%
EHF(ETS)/LoVo-EHF-ChIP-Seq(GSE49402)/Homer	AVCAGGAAGT	1e0	-2.092e-02	1.0000	1144.0	26.99%	5792.0	28.38%
Sox10(HMG)/SciaticNerve-Sox3-ChIP-Seq(GSE35132)/Homer	CCWTTGTYYB	1e0	-1.777e-02	1.0000	1722.0	40.62%	8613.4	42.21%
Brn2(POU,Homeobox)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATATTC	1e0	-1.539e-02	1.0000	152.0	3.59%	863.5	4.23%
CTCF-SatelliteElement(Zf?)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	TGCAGTTCCMVNWRTGGCCA	1e0	-1.273e-02	1.0000	3.0	0.07%	39.1	0.19%
Gata2(Zf)/K562-GATA2-ChIP-Seq(GSE18829)/Homer	BBCTTATCTS	1e0	-1.033e-02	1.0000	920.0	21.70%	4731.5	23.19%
Foxo1(Forkhead)/RAW-Foxo1-ChIP-Seq(Fan_et_al.)/Homer	CTGTTTAC	1e0	-8.779e-03	1.0000	1722.0	40.62%	8655.6	42.41%
IRF2(IRF)/Erythroblas-IRF2-ChIP-Seq(GSE36985)/Homer	GAAASYGAAASY	1e0	-8.514e-03	1.0000	121.0	2.85%	714.2	3.50%
Brn1(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	TATGCWAATBAV	1e0	-8.133e-03	1.0000	360.0	8.49%	1949.7	9.55%
MafF(bZIP)/HepG2-MafF-ChIP-Seq(GSE31477)/Homer	HWWGTCAGCAWWTTT	1e0	-8.093e-03	1.0000	345.0	8.14%	1873.2	9.18%
RUNX(Runt)/HPC7-Runx1-ChIP-Seq(GSE22178)/Homer	SAAACCACAG	1e0	-8.087e-03	1.0000	532.0	12.55%	2816.9	13.80%
SOC1(MADS)/Seedling-SOC1-ChIP-Seq(GSE45846)/Homer	TWCCAWWTWTGG	1e0	-8.074e-03	1.0000	671.0	15.83%	3510.5	17.20%
Mef2d(MADS)/Retina-Mef2d-ChIP-Seq(GSE61391)/Homer	GCTATTTTTAGC	1e0	-7.672e-03	1.0000	305.0	7.20%	1671.8	8.19%
EWS:ERG-fusion(ETS)/CADO_ES1-EWS:ERG-ChIP-Seq(SRA014231)/Homer	ATTTCCTGTN	1e0	-6.677e-03	1.0000	590.0	13.92%	3114.1	15.26%
ZNF136(Zf)/HEK293-ZNF136.GFP-ChIP-Seq(GSE58341)/Homer	YTKGATAHAGTATTCTWGGTNGGCA	1e0	-6.619e-03	1.0000	95.0	2.24%	580.5	2.84%
NFAT(RHD)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	ATTTTCCATT	1e0	-6.088e-03	1.0000	1231.0	29.04%	6285.7	30.80%
ZNF415(Zf)/HEK293-ZNF415.GFP-ChIP-Seq(GSE58341)/Homer	GRTGMTRGAGCC	1e0	-5.903e-03	1.0000	217.0	5.12%	1226.1	6.01%
GATA(Zf),IR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NAGATWNBNATCTNN	1e0	-5.602e-03	1.0000	102.0	2.41%	621.1	3.04%
HNF4a(NR),DR1/HepG2-HNF4a-ChIP-Seq(GSE25021)/Homer	CARRGKBCAAAGTYCA	1e0	-2.144e-03	1.0000	205.0	4.84%	1189.1	5.83%
bZIP:IRF(bZIP,IRF)/Th17-BatF-ChIP-Seq(GSE39756)/Homer	NAGTTTCABTHTGACTNW	1e0	-1.609e-03	1.0000	464.0	10.95%	2531.2	12.40%
Stat3+il21(Stat)/CD4-Stat3-ChIP-Seq(GSE19198)/Homer	SVYTTCCNGGAARB	1e0	-1.465e-03	1.0000	558.0	13.16%	3011.0	14.75%
Zelda(Zf)/Embryo-zld-ChIP-Seq(GSE65441)/Homer	KBCTACCTGW	1e0	-1.446e-03	1.0000	294.0	6.94%	1663.1	8.15%
GATA3(Zf),DR8/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATSTNDNNDSAGATAASN	1e0	-1.432e-03	1.0000	90.0	2.12%	580.7	2.85%
Foxh1(Forkhead)/hESC-FOXH1-ChIP-Seq(GSE29422)/Homer	NNTGTGGATTSS	1e0	-1.375e-03	1.0000	737.0	17.39%	3911.9	19.17%
Otx2(Homeobox)/EpiLC-Otx2-ChIP-Seq(GSE56098)/Homer	NYTAATCCYB	1e0	-1.322e-03	1.0000	906.0	21.37%	4754.0	23.30%
Atf7(bZIP)/3T3L1-Atf7-ChIP-Seq(GSE56872)/Homer	NGRTGACGTCAY	1e0	-1.048e-03	1.0000	409.0	9.65%	2264.9	11.10%
Erra(NR)/HepG2-Erra-ChIP-Seq(GSE31477)/Homer	CAAAGGTCAG	1e0	-8.010e-04	1.0000	1024.0	24.16%	5359.2	26.26%
FOXM1(Forkhead)/MCF7-FOXM1-ChIP-Seq(GSE72977)/Homer	TRTTTACTTW	1e0	-7.320e-04	1.0000	1246.0	29.39%	6457.5	31.64%
Nrf2(bZIP)/Lymphoblast-Nrf2-ChIP-Seq(GSE37589)/Homer	HTGCTGAGTCAT	1e0	-5.000e-04	1.0000	4.0	0.09%	67.4	0.33%
Nr5a2(NR)/mES-Nr5a2-ChIP-Seq(GSE19019)/Homer	BTCAAGGTCA	1e0	-4.880e-04	1.0000	289.0	6.82%	1665.0	8.16%
PRDM14(Zf)/H1-PRDM14-ChIP-Seq(GSE22767)/Homer	RGGTCTCTAACY	1e0	-4.640e-04	1.0000	174.0	4.10%	1058.9	5.19%
Atf2(bZIP)/3T3L1-Atf2-ChIP-Seq(GSE56872)/Homer	NRRTGACGTCAT	1e0	-4.260e-04	1.0000	226.0	5.33%	1337.7	6.56%
HLH-1(bHLH)/cElegans-Embryo-HLH1-ChIP-Seq(modEncode)/Homer	RACAGCTGTTBH	1e0	-4.120e-04	1.0000	547.0	12.90%	2996.3	14.68%
PR(NR)/T47D-PR-ChIP-Seq(GSE31130)/Homer	VAGRACAKNCTGTBC	1e0	-2.840e-04	1.0000	1523.0	35.93%	7853.4	38.48%
STAT6(Stat)/Macrophage-Stat6-ChIP-Seq(GSE38377)/Homer	TTCCKNAGAA	1e0	-1.740e-04	1.0000	631.0	14.89%	3449.1	16.90%
SeqBias: CG bias	SSSSSSSSSS	1e0	-1.730e-04	1.0000	3536.0	83.42%	17423.8	85.38%
c-Jun-CRE(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	ATGACGTCATCY	1e0	-1.700e-04	1.0000	175.0	4.13%	1083.8	5.31%
CEBP:AP1(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	DRTGTTGCAA	1e0	-1.110e-04	1.0000	1097.0	25.88%	5796.0	28.40%
Mef2b(MADS)/HEK293-Mef2b.V5-ChIP-Seq(GSE67450)/Homer	GCTATTTTTGGM	1e0	-1.060e-04	1.0000	1217.0	28.71%	6391.1	31.32%
Mef2c(MADS)/GM12878-Mef2c-ChIP-Seq(GSE32465)/Homer	DCYAAAAATAGM	1e0	-1.010e-04	1.0000	665.0	15.69%	3638.7	17.83%
Nr5a2(NR)/Pancreas-LRH1-ChIP-Seq(GSE34295)/Homer	BTCAAGGTCA	1e0	-9.700e-05	1.0000	421.0	9.93%	2392.5	11.72%
Sox6(HMG)/Myotubes-Sox6-ChIP-Seq(GSE32627)/Homer	CCATTGTTNY	1e0	-6.800e-05	1.0000	2130.0	50.25%	10849.8	53.17%
ZBTB12(Zf)/HEK293-ZBTB12.GFP-ChIP-Seq(GSE58341)/Homer	NGNTCTAGAACCNGV	1e0	-6.100e-05	1.0000	213.0	5.02%	1308.3	6.41%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	AGGTCAAGGTCA	1e0	-5.200e-05	1.0000	28.0	0.66%	256.9	1.26%
Oct2(POU,Homeobox)/Bcell-Oct2-ChIP-Seq(GSE21512)/Homer	ATATGCAAAT	1e0	-2.400e-05	1.0000	405.0	9.55%	2344.8	11.49%
Olig2(bHLH)/Neuron-Olig2-ChIP-Seq(GSE30882)/Homer	RCCATMTGTT	1e0	-2.100e-05	1.0000	1398.0	32.98%	7340.6	35.97%
ELT-3(Gata)/cElegans-L1-ELT3-ChIP-Seq(modEncode)/Homer	AWTGATAAGA	1e0	-2.100e-05	1.0000	817.0	19.27%	4454.3	21.83%
TEAD4(TEA)/Tropoblast-Tead4-ChIP-Seq(GSE37350)/Homer	CCWGGAATGY	1e0	-1.900e-05	1.0000	617.0	14.56%	3443.7	16.87%
Sox3(HMG)/NPC-Sox3-ChIP-Seq(GSE33059)/Homer	CCWTTGTY	1e0	-1.800e-05	1.0000	1972.0	46.52%	10139.4	49.68%
Unknown2/Drosophila-Promoters/Homer	CATCMCTA	1e0	-1.600e-05	1.0000	675.0	15.92%	3743.5	18.34%
Oct4(POU,Homeobox)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAW	1e0	-1.500e-05	1.0000	605.0	14.27%	3387.2	16.60%
Unknown(Homeobox)/Limb-p300-ChIP-Seq/Homer	SSCMATWAAA	1e0	-1.300e-05	1.0000	925.0	21.82%	5011.2	24.56%
Nkx2.2(Homeobox)/NPC-Nkx2.2-ChIP-Seq(GSE61673)/Homer	BTBRAGTGSN	1e0	-1.100e-05	1.0000	1376.0	32.46%	7254.6	35.55%
Cdx2(Homeobox)/mES-Cdx2-ChIP-Seq(GSE14586)/Homer	GYMATAAAAH	1e0	-1.100e-05	1.0000	1197.0	28.24%	6371.1	31.22%
PQM-1(?)/cElegans-L3-ChIP-Seq(modEncode)/Homer	ACTGATAAGA	1e0	-6.000e-06	1.0000	659.0	15.55%	3688.1	18.07%
Lhx2(Homeobox)/HFSC-Lhx2-ChIP-Seq(GSE48068)/Homer	TAATTAGN	1e0	-5.000e-06	1.0000	1621.0	38.24%	8480.7	41.56%
JunD(bZIP)/K562-JunD-ChIP-Seq/Homer	ATGACGTCATCN	1e0	-4.000e-06	1.0000	30.0	0.71%	292.3	1.43%
HOXA9(Homeobox)/HSC-Hoxa9-ChIP-Seq(GSE33509)/Homer	GGCCATAAATCA	1e0	-3.000e-06	1.0000	983.0	23.19%	5343.7	26.18%
Pit1(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGMATATDC	1e0	-3.000e-06	1.0000	1719.0	40.55%	8978.0	43.99%
Mouse_Recombination_Hotspot(Zf)/Testis-DMC1-ChIP-Seq(GSE24438)/Homer	ACTYKNATTCGTGNTACTTC	1e0	-1.000e-06	1.0000	38.0	0.90%	355.0	1.74%
TEAD2(TEA)/Py2T-Tead2-ChIP-Seq(GSE55709)/Homer	CCWGGAATGY	1e0	-1.000e-06	1.0000	303.0	7.15%	1868.9	9.16%
Unknown5/Drosophila-Promoters/Homer	GCTGATAASV	1e0	-1.000e-06	1.0000	820.0	19.34%	4557.0	22.33%
caudal(Homeobox)/Drosophila-Embryos-ChIP-Chip(modEncode)/Homer	GGYCATAAAW	1e0	-1.000e-06	1.0000	1410.0	33.26%	7500.7	36.75%
BMYB(HTH)/Hela-BMYB-ChIP-Seq(GSE27030)/Homer	NHAACBGYYV	1e0	-1.000e-06	1.0000	1943.0	45.84%	10098.8	49.49%
Lhx1(Homeobox)/EmbryoCarcinoma-Lhx1-ChIP-Seq(GSE70957)/Homer	NNYTAATTAR	1e0	-1.000e-06	1.0000	1651.0	38.95%	8687.3	42.57%
Tcf4(HMG)/Hct116-Tcf4-ChIP-Seq(SRA012054)/Homer	ASATCAAAGGVA	1e0	-0.000e+00	1.0000	519.0	12.24%	3029.4	14.84%
NF1-halfsite(CTF)/LNCaP-NF1-ChIP-Seq(Unpublished)/Homer	YTGCCAAG	1e0	-0.000e+00	1.0000	1194.0	28.17%	6454.1	31.63%
HOXB13(Homeobox)/ProstateTumor-HOXB13-ChIP-Seq(GSE56288)/Homer	TTTTATKRGG	1e0	-0.000e+00	1.0000	1586.0	37.41%	8403.3	41.18%
Atf1(bZIP)/K562-ATF1-ChIP-Seq(GSE31477)/Homer	GATGACGTCA	1e0	-0.000e+00	1.0000	830.0	19.58%	4651.0	22.79%
RUNX1(Runt)/Jurkat-RUNX1-ChIP-Seq(GSE29180)/Homer	AAACCACARM	1e0	-0.000e+00	1.0000	715.0	16.87%	4091.4	20.05%
Eomes(T-box)/H9-Eomes-ChIP-Seq(GSE26097)/Homer	ATTAACACCT	1e0	-0.000e+00	1.0000	1938.0	45.72%	10164.8	49.81%
Gata4(Zf)/Heart-Gata4-ChIP-Seq(GSE35151)/Homer	NBWGATAAGR	1e0	-0.000e+00	1.0000	1435.0	33.85%	7713.0	37.79%
IRF4(IRF)/GM12878-IRF4-ChIP-Seq(GSE32465)/Homer	ACTGAAACCA	1e0	-0.000e+00	1.0000	454.0	10.71%	2738.0	13.42%
STAT4(Stat)/CD4-Stat4-ChIP-Seq(GSE22104)/Homer	NYTTCCWGGAAR	1e0	-0.000e+00	1.0000	927.0	21.87%	5192.0	25.44%
Nkx2.5(Homeobox)/HL1-Nkx2.5.biotin-ChIP-Seq(GSE21529)/Homer	RRSCACTYAA	1e0	-0.000e+00	1.0000	1597.0	37.67%	8527.7	41.79%
AR-halfsite(NR)/LNCaP-AR-ChIP-Seq(GSE27824)/Homer	CCAGGAACAG	1e0	-0.000e+00	1.0000	2044.0	48.22%	10695.7	52.41%
CEBP(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	ATTGCGCAAC	1e0	-0.000e+00	1.0000	1201.0	28.33%	6587.0	32.28%
DREF/Drosophila-Promoters/Homer	AVYTATCGATAD	1e0	-0.000e+00	1.0000	67.0	1.58%	588.5	2.88%
GRHL2(CP2)/HBE-GRHL2-ChIP-Seq(GSE46194)/Homer	AAACYKGTTWDACMRGTTTB	1e0	-0.000e+00	1.0000	292.0	6.89%	1890.4	9.26%
AMYB(HTH)/Testes-AMYB-ChIP-Seq(GSE44588)/Homer	TGGCAGTTGG	1e0	-0.000e+00	1.0000	1648.0	38.88%	8794.1	43.09%
Hoxc9(Homeobox)/Ainv15-Hoxc9-ChIP-Seq(GSE21812)/Homer	GGCCATAAATCA	1e0	-0.000e+00	1.0000	743.0	17.53%	4273.0	20.94%
Pdx1(Homeobox)/Islet-Pdx1-ChIP-Seq(SRA008281)/Homer	YCATYAATCA	1e0	-0.000e+00	1.0000	1265.0	29.84%	6910.8	33.86%
Tal1	CATCTG	1e0	-0.000e+00	1.0000	874.0	20.62%	4955.6	24.28%
Bcl6(Zf)/Liver-Bcl6-ChIP-Seq(GSE31578)/Homer	NNNCTTTCCAGGAAA	1e0	-0.000e+00	1.0000	959.0	22.62%	5393.6	26.43%
Smad3(MAD)/NPC-Smad3-ChIP-Seq(GSE36673)/Homer	TWGTCTGV	1e0	-0.000e+00	1.0000	1441.0	33.99%	7802.9	38.24%
PHA-4(Forkhead)/cElegans-Embryos-PHA4-ChIP-Seq(modEncode)/Homer	KTGTTTGC	1e0	-0.000e+00	1.0000	2816.0	66.43%	14411.5	70.62%
Oct6(POU,Homeobox)/NPC-Oct6-ChIP-Seq(GSE35496)/Homer	WATGCAAATGAG	1e0	-0.000e+00	1.0000	437.0	10.31%	2712.8	13.29%
HOXD13(Homeobox)/Chicken-Hoxd13-ChIP-Seq(GSE38910)/Homer	NCYAATAAAA	1e0	-0.000e+00	1.0000	1571.0	37.06%	8496.1	41.63%
GATA(Zf),IR3/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NNNNNBAGATAWYATCTVHN	1e0	-0.000e+00	1.0000	128.0	3.02%	1002.4	4.91%
Bapx1(Homeobox)/VertebralCol-Bapx1-ChIP-Seq(GSE36672)/Homer	TTRAGTGSYK	1e0	-0.000e+00	1.0000	1514.0	35.72%	8229.2	40.32%
STAT6(Stat)/CD4-Stat6-ChIP-Seq(GSE22104)/Homer	ABTTCYYRRGAA	1e0	-0.000e+00	1.0000	605.0	14.27%	3632.4	17.80%
GSC(Homeobox)/FrogEmbryos-GSC-ChIP-Seq(DRA000576)/Homer	RGGATTAR	1e0	-0.000e+00	1.0000	1372.0	32.37%	7563.7	37.06%
Nkx3.1(Homeobox)/LNCaP-Nkx3.1-ChIP-Seq(GSE28264)/Homer	AAGCACTTAA	1e0	-0.000e+00	1.0000	1714.0	40.43%	9307.7	45.61%
Tcf3(HMG)/mES-Tcf3-ChIP-Seq(GSE11724)/Homer	ASWTCAAAGG	1e0	-0.000e+00	1.0000	260.0	6.13%	1837.1	9.00%
LIN-39(Homeobox)/cElegans.L3-LIN39-ChIP-Seq(modEncode)/Homer	ATGATTRATG	1e0	-0.000e+00	1.0000	1819.0	42.91%	9838.2	48.21%
Isl1(Homeobox)/Neuron-Isl1-ChIP-Seq(GSE31456)/Homer	CTAATKGV	1e0	-0.000e+00	1.0000	2140.0	50.48%	11388.3	55.80%
Tbx5(T-box)/HL1-Tbx5.biotin-ChIP-Seq(GSE21529)/Homer	AGGTGTCA	1e0	-0.000e+00	1.0000	2025.0	47.77%	10850.3	53.17%
LHY(Myb)/Seedling-LHY-ChIP-Seq(GSE52175)/Homer	ADAAATATCT	1e0	-0.000e+00	1.0000	1685.0	39.75%	9206.9	45.12%
Phox2a(Homeobox)/Neuron-Phox2a-ChIP-Seq(GSE31456)/Homer	YTAATYNRATTA	1e0	-0.000e+00	1.0000	609.0	14.37%	3765.3	18.45%
Initiator/Drosophila-Promoters/Homer	NTCAGTYG	1e0	-0.000e+00	1.0000	1697.0	40.03%	9327.6	45.71%
Unknown4/Arabidopsis-Promoters/Homer	CKTCKTCTTY	1e0	-0.000e+00	1.0000	1261.0	29.75%	7177.0	35.17%
MYB(HTH)/ERMYB-Myb-ChIPSeq(GSE22095)/Homer	GGCVGTTR	1e0	-0.000e+00	1.0000	2227.0	52.54%	11901.1	58.32%
NFY(CCAAT)/Promoter/Homer	RGCCAATSRG	1e0	-0.000e+00	1.0000	964.0	22.74%	5719.4	28.03%
TEAD(TEA)/Fibroblast-PU.1-ChIP-Seq(Unpublished)/Homer	YCWGGAATGY	1e0	-0.000e+00	1.0000	473.0	11.16%	3176.2	15.56%
PABPC1(?)/MEL-PABC1-CLIP-Seq(GSE69755)/Homer	HAATAAAGNN	1e0	-0.000e+00	1.0000	2555.0	60.27%	13527.4	66.29%
CHR(?)/Hela-CellCycle-Expression/Homer	SRGTTTCAAA	1e0	0.000e+00	1.0000	845.0	19.93%	5542.3	27.16%
CRX(Homeobox)/Retina-Crx-ChIP-Seq(GSE20012)/Homer	GCTAATCC	1e0	0.000e+00	1.0000	2279.0	53.76%	12384.0	60.68%
GATA3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATAASR	1e0	0.000e+00	1.0000	2024.0	47.75%	11062.5	54.21%
HNF6(Homeobox)/Liver-Hnf6-ChIP-Seq(ERP000394)/Homer	NTATYGATCH	1e0	0.000e+00	1.0000	1118.0	26.37%	6674.5	32.71%
Lhx3(Homeobox)/Neuron-Lhx3-ChIP-Seq(GSE31456)/Homer	ADBTAATTAR	1e0	0.000e+00	1.0000	2250.0	53.08%	12287.0	60.21%
Nanog(Homeobox)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	RGCCATTAAC	1e0	0.000e+00	1.0000	3202.0	75.54%	17910.5	87.76%
Nkx2.1(Homeobox)/LungAC-Nkx2.1-ChIP-Seq(GSE43252)/Homer	RSCACTYRAG	1e0	0.000e+00	1.0000	1913.0	45.13%	10621.6	52.05%
Nkx6.1(Homeobox)/Islet-Nkx6.1-ChIP-Seq(GSE40975)/Homer	GKTAATGR	1e0	0.000e+00	1.0000	3138.0	74.03%	17122.0	83.90%
Pitx1(Homeobox)/Chicken-Pitx1-ChIP-Seq(GSE38910)/Homer	TAATCCCN	1e0	0.000e+00	1.0000	3093.0	72.97%	17486.8	85.69%
SCL(bHLH)/HPC7-Scl-ChIP-Seq(GSE13511)/Homer	AVCAGCTG	1e0	0.000e+00	1.0000	2047.0	48.29%	12156.2	59.57%
Tgif1(Homeobox)/mES-Tgif1-ChIP-Seq(GSE55404)/Homer	YTGWCADY	1e0	0.000e+00	1.0000	2239.0	52.82%	12368.6	60.61%
Tgif2(Homeobox)/mES-Tgif2-ChIP-Seq(GSE55404)/Homer	TGTCANYT	1e0	0.000e+00	1.0000	2368.0	55.86%	12749.7	62.48%
ZFP3(Zf)/HEK293-ZFP3.GFP-ChIP-Seq(GSE58341)/Homer	GGGTTTTGAAGGATGARTAGGAGTT	1e0	0.000e+00	1.0000	0.0	0.00%	1.2	0.01%
ZNF16(Zf)/HEK293-ZNF16.GFP-ChIP-Seq(GSE58341)/Homer	MACCTTCYATGGCTCCCTAKTGCCY	1e0	0.000e+00	1.0000	0.0	0.00%	0.7	0.00%
SeqBias: CA-repeat	CACACACACA	1e0	0.000e+00	1.0000	3136.0	73.98%	16577.8	81.23%
SeqBias: polyC-repeat	CCCCCCCCCC	1e0	0.000e+00	1.0000	4196.0	98.99%	20386.9	99.90%
SeqBias: GA-repeat	GAGAGAGAGA	1e0	0.000e+00	1.0000	3569.0	84.19%	18083.0	88.61%
Unknown6/Drosophila-Promoters/Homer	AATTTTAAAA	1e0	0.000e+00	1.0000	1215.0	28.66%	7158.2	35.08%
KANADI1(Myb)/Seedling-KAN1-ChIP-Seq(GSE48081)/Homer	ARGAATAWWN	1e0	0.000e+00	1.0000	2066.0	48.74%	11325.3	55.50%
CES-1(Homeobox)/cElegans-L1-CES1-ChIP-Seq(modEncode)/Homer	AAATTSAATTTN	1e0	0.000e+00	1.0000	914.0	21.56%	5594.8	27.42%
EGL-5(Homeobox)/cElegans-L3-EGL5-ChIP-Seq(modEncode)/Homer	ATTTAATGGG	1e0	0.000e+00	1.0000	1888.0	44.54%	10614.1	52.01%