Motif Name	Consensus	P-value	Log P-value	q-value (Benjamini)	# of Target Sequences with Motif(of 4267)	% of Target Sequences with Motif	# of Background Sequences with Motif(of 21057)	% of Background Sequences with Motif
ABF1/SacCer-Promoters/Homer	CGTRNAAARTGA	1e-226	-5.210e+02	0.0000	1473.0	34.52%	3101.7	14.73%
REB1/SacCer-Promoters/Homer	KCCGGGTAAYRR	1e-176	-4.072e+02	0.0000	929.0	21.77%	1647.9	7.82%
RLR1?/SacCer-Promoters/Homer	WTTTTCYYTTTT	1e-69	-1.594e+02	0.0000	1976.0	46.31%	7002.1	33.25%
c-Myc(bHLH)/LNCAP-cMyc-ChIP-Seq(Unpublished)/Homer	VCCACGTG	1e-58	-1.346e+02	0.0000	580.0	13.59%	1394.9	6.62%
SeqBias: CG-repeat	CGCGCGCGCG	1e-46	-1.074e+02	0.0000	753.0	17.65%	2176.2	10.33%
bHLHE40(bHLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer	KCACGTGMCN	1e-44	-1.018e+02	0.0000	428.0	10.03%	1011.8	4.80%
SFP1/SacCer-Promoters/Homer	DDAAAAATTTTY	1e-44	-1.017e+02	0.0000	638.0	14.95%	1770.2	8.41%
n-Myc(bHLH)/mES-nMyc-ChIP-Seq(GSE11431)/Homer	VRCCACGTGG	1e-42	-9.885e+01	0.0000	652.0	15.28%	1840.2	8.74%
Cbf1(bHLH)/Yeast-Cbf1-ChIP-Seq(GSE29506)/Homer	TCACGTGAYH	1e-41	-9.515e+01	0.0000	403.0	9.44%	954.5	4.53%
DPL-1(E2F)/cElegans-Adult-ChIP-Seq(modEncode)/Homer	TAGCGCGC	1e-40	-9.298e+01	0.0000	1045.0	24.49%	3466.9	16.46%
CLOCK(bHLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer	GHCACGTG	1e-39	-9.138e+01	0.0000	558.0	13.08%	1529.8	7.26%
Usf2(bHLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer	GTCACGTGGT	1e-34	-7.904e+01	0.0000	379.0	8.88%	944.7	4.49%
USF1(bHLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer	SGTCACGTGR	1e-33	-7.612e+01	0.0000	462.0	10.83%	1259.9	5.98%
Max(bHLH)/K562-Max-ChIP-Seq(GSE31477)/Homer	RCCACGTGGYYN	1e-31	-7.140e+01	0.0000	577.0	13.52%	1727.6	8.20%
E-box(bHLH)/Promoter/Homer	SSGGTCACGTGA	1e-28	-6.552e+01	0.0000	133.0	3.12%	209.3	0.99%
TOD6?/SacCer-Promoters/Homer	GCGATGAGMT	1e-28	-6.499e+01	0.0000	358.0	8.39%	940.9	4.47%
IBL1(bHLH)/Seedling-IBL1-ChIP-Seq(GSE51120)/Homer	CACGTGCC	1e-25	-5.854e+01	0.0000	1298.0	30.42%	4925.1	23.39%
E-box/Arabidopsis-Promoters/Homer	GCCACGTG	1e-25	-5.821e+01	0.0000	502.0	11.76%	1527.5	7.25%
PIF5ox(bHLH)/Arabidopsis-PIF5ox-ChIP-Seq(GSE35062)/Homer	BCACGTGVDN	1e-25	-5.765e+01	0.0000	843.0	19.76%	2934.5	13.93%
TATA-box/SacCer-Promoters/Homer	BBHWTATATA	1e-23	-5.336e+01	0.0000	1892.0	44.34%	7760.2	36.85%
Pho2(bHLH)/Yeast-Pho2-ChIP-Seq(GSE29506)/Homer	CCCACGTGCT	1e-22	-5.291e+01	0.0000	416.0	9.75%	1230.0	5.84%
SPCH(bHLH)/Seedling-SPCH-ChIP-Seq(GSE57497)/Homer	WNBCACGTGA	1e-22	-5.124e+01	0.0000	1046.0	24.51%	3888.9	18.47%
PIF4(bHLH)/Seedling-PIF4-ChIP-Seq(GSE35315)/Homer	NNBCACGTGN	1e-21	-5.030e+01	0.0000	930.0	21.80%	3389.7	16.09%
FHY3(FAR1)/Arabidopsis-FHY3-ChIP-Seq(GSE30711)/Homer	HHCACGCGCBTN	1e-20	-4.746e+01	0.0000	396.0	9.28%	1191.5	5.66%
E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer	GGCGGGAAAH	1e-18	-4.369e+01	0.0000	762.0	17.86%	2736.9	13.00%
Egr2(Zf)/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer	NGCGTGGGCGGR	1e-17	-4.008e+01	0.0000	128.0	3.00%	266.8	1.27%
NPAS2(bHLH)/Liver-NPAS2-ChIP-Seq(GSE39860)/Homer	KCCACGTGAC	1e-16	-3.714e+01	0.0000	770.0	18.05%	2849.1	13.53%
BMAL1(bHLH)/Liver-Bmal1-ChIP-Seq(GSE39860)/Homer	GNCACGTG	1e-14	-3.443e+01	0.0000	1368.0	32.06%	5598.8	26.58%
MITF(bHLH)/MastCells-MITF-ChIP-Seq(GSE48085)/Homer	RTCATGTGAC	1e-13	-3.129e+01	0.0000	749.0	17.55%	2834.3	13.46%
Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo_et_al.)/Homer	TBGCACGCAA	1e-13	-3.120e+01	0.0000	1007.0	23.60%	3991.5	18.95%
KLF14(Zf)/HEK293-KLF14.GFP-ChIP-Seq(GSE58341)/Homer	RGKGGGCGKGGC	1e-13	-3.115e+01	0.0000	529.0	12.40%	1882.2	8.94%
c-Myc(bHLH)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	VVCCACGTGG	1e-12	-2.893e+01	0.0000	332.0	7.78%	1086.2	5.16%
KLF10(Zf)/HEK293-KLF10.GFP-ChIP-Seq(GSE58341)/Homer	GGGGGTGTGTCC	1e-11	-2.610e+01	0.0000	234.0	5.48%	720.0	3.42%
ZNF467(Zf)/HEK293-ZNF467.GFP-ChIP-Seq(GSE58341)/Homer	TGGGGAAGGGCM	1e-10	-2.470e+01	0.0000	295.0	6.91%	975.7	4.63%
GAGA-repeat/Arabidopsis-Promoters/Homer	CTCTCTCTCY	1e-10	-2.449e+01	0.0000	501.0	11.74%	1843.1	8.75%
KLF5(Zf)/LoVo-KLF5-ChIP-Seq(GSE49402)/Homer	DGGGYGKGGC	1e-10	-2.336e+01	0.0000	446.0	10.45%	1621.8	7.70%
Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer	GGGGGGGG	1e-9	-2.138e+01	0.0000	270.0	6.33%	905.3	4.30%
SUT1?/SacCer-Promoters/Homer	CCCCGCGC	1e-9	-2.129e+01	0.0000	2858.0	66.98%	13161.3	62.49%
SeqBias: TA-repeat	TATATATATA	1e-8	-1.907e+01	0.0000	3751.0	87.91%	17868.2	84.84%
HIF-1b(HLH)/T47D-HIF1b-ChIP-Seq(GSE59937)/Homer	RTACGTGC	1e-7	-1.777e+01	0.0000	1552.0	36.37%	6820.6	32.39%
Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer	TGCGTGGGYG	1e-7	-1.766e+01	0.0000	282.0	6.61%	994.4	4.72%
Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer	GCCACACCCA	1e-7	-1.627e+01	0.0000	143.0	3.35%	442.6	2.10%
Pho4(bHLH)/Yeast-Pho4-ChIP-Seq(GSE29506)/Homer	AAGCACGTGBGD	1e-7	-1.618e+01	0.0000	140.0	3.28%	431.5	2.05%
HIF-1a(bHLH)/MCF7-HIF1a-ChIP-Seq(GSE28352)/Homer	TACGTGCV	1e-6	-1.581e+01	0.0000	458.0	10.73%	1780.6	8.45%
Klf9(Zf)/GBM-Klf9-ChIP-Seq(GSE62211)/Homer	GCCACRCCCACY	1e-6	-1.545e+01	0.0000	122.0	2.86%	367.3	1.74%
HIF2a(bHLH)/785_O-HIF2a-ChIP-Seq(GSE34871)/Homer	GCACGTACCC	1e-6	-1.476e+01	0.0000	683.0	16.01%	2813.1	13.36%
PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	MGGAAGTGAAAC	1e-6	-1.449e+01	0.0000	1361.0	31.90%	5996.5	28.47%
Pax8(Paired,Homeobox)/Thyroid-Pax8-ChIP-Seq(GSE26938)/Homer	GTCATGCHTGRCTGS	1e-5	-1.220e+01	0.0000	129.0	3.02%	421.8	2.00%
PAX5(Paired,Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GCAGCCAAGCRTGACH	1e-5	-1.201e+01	0.0000	210.0	4.92%	758.1	3.60%
RXR(NR),DR1/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer	TAGGGCAAAGGTCA	1e-5	-1.177e+01	0.0001	497.0	11.65%	2028.7	9.63%
FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer	NYYTGTTTACHN	1e-5	-1.153e+01	0.0001	730.0	17.11%	3103.7	14.74%
EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer	NWGGGTGTGGCY	1e-4	-1.131e+01	0.0001	95.0	2.23%	294.1	1.40%
E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer	VDTTTCCCGCCA	1e-4	-1.109e+01	0.0001	118.0	2.77%	387.9	1.84%
E2F1(E2F)/Hela-E2F1-ChIP-Seq(GSE22478)/Homer	CWGGCGGGAA	1e-4	-1.041e+01	0.0002	176.0	4.12%	634.1	3.01%
E2F(E2F)/Hela-CellCycle-Expression/Homer	TTSGCGCGAAAA	1e-4	-9.938e+00	0.0003	118.0	2.77%	398.6	1.89%
PPARE(NR),DR1/3T3L1-Pparg-ChIP-Seq(GSE13511)/Homer	TGACCTTTGCCCCA	1e-4	-9.796e+00	0.0004	482.0	11.30%	2002.3	9.51%
CRE(bZIP)/Promoter/Homer	CSGTGACGTCAC	1e-4	-9.524e+00	0.0005	179.0	4.19%	658.1	3.12%
PAX5(Paired,Homeobox),condensed/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GTCACGCTCSCTGM	1e-4	-9.240e+00	0.0006	79.0	1.85%	248.8	1.18%
ZBTB33(Zf)/GM12878-ZBTB33-ChIP-Seq(GSE32465)/Homer	GGVTCTCGCGAGAAC	1e-3	-8.854e+00	0.0009	50.0	1.17%	140.4	0.67%
SpiB(ETS)/OCILY3-SPIB-ChIP-Seq(GSE56857)/Homer	AAAGRGGAAGTG	1e-3	-8.248e+00	0.0017	270.0	6.33%	1076.4	5.11%
NRF(NRF)/Promoter/Homer	STGCGCATGCGC	1e-3	-8.178e+00	0.0018	80.0	1.87%	261.1	1.24%
GAGA-repeat/SacCer-Promoters/Homer	CTYTCTYTCTCTCTC	1e-3	-8.110e+00	0.0019	3341.0	78.30%	16020.9	76.07%
Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer	NRYTTCCGGY	1e-3	-7.992e+00	0.0021	949.0	22.24%	4237.5	20.12%
Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer	HACTTCCGGY	1e-3	-7.818e+00	0.0024	788.0	18.47%	3480.1	16.52%
NRF1(NRF)/MCF7-NRF1-ChIP-Seq(Unpublished)/Homer	CTGCGCATGCGC	1e-3	-7.506e+00	0.0033	41.0	0.96%	115.6	0.55%
Trl(Zf)/S2-GAGAfactor-ChIP-Seq(GSE40646)/Homer	RGAGAGAG	1e-2	-6.752e+00	0.0069	1590.0	37.26%	7375.7	35.02%
BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer	DATGASTCAT	1e-2	-6.434e+00	0.0093	538.0	12.61%	2349.9	11.16%
Tbet(T-box)/CD8-Tbet-ChIP-Seq(GSE33802)/Homer	AGGTGTGAAM	1e-2	-6.323e+00	0.0102	1051.0	24.63%	4788.9	22.74%
Dorsal(RHD)/Embryo-dl-ChIP-Seq(GSE65441)/Homer	GGGAAAAMCCCG	1e-2	-6.142e+00	0.0121	202.0	4.73%	812.6	3.86%
TR4(NR),DR1/Hela-TR4-ChIP-Seq(GSE24685)/Homer	GAGGTCAAAGGTCA	1e-2	-6.040e+00	0.0132	49.0	1.15%	157.0	0.75%
p53(p53)/Saos-p53-ChIP-Seq(GSE15780)/Homer	RRCATGYCYRGRCATGYYYN	1e-2	-5.953e+00	0.0140	62.0	1.45%	209.4	0.99%
p53(p53)/Saos-p53-ChIP-Seq/Homer	RRCATGYCYRGRCATGYYYN	1e-2	-5.953e+00	0.0140	62.0	1.45%	209.4	0.99%
AP-2alpha(AP2)/Hela-AP2alpha-ChIP-Seq(GSE31477)/Homer	ATGCCCTGAGGC	1e-2	-5.842e+00	0.0154	156.0	3.66%	613.5	2.91%
ERE(NR),IR3/MCF7-ERa-ChIP-Seq(Unpublished)/Homer	VAGGTCACNSTGACC	1e-2	-5.642e+00	0.0185	113.0	2.65%	428.6	2.04%
GATA:SCL(Zf,bHLH)/Ter119-SCL-ChIP-Seq(GSE18720)/Homer	CRGCTGBNGNSNNSAGATAA	1e-2	-5.532e+00	0.0204	105.0	2.46%	395.4	1.88%
EFL-1(E2F)/cElegans-L1-EFL1-ChIP-Seq(modEncode)/Homer	TGCAARYGCGCTCYA	1e-2	-5.461e+00	0.0216	23.0	0.54%	61.4	0.29%
PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer	GSCTGTCACTCA	1e-2	-5.423e+00	0.0222	30.0	0.70%	87.1	0.41%
Srebp2(bHLH)/HepG2-Srebp2-ChIP-Seq(GSE31477)/Homer	CGGTCACSCCAC	1e-2	-5.206e+00	0.0272	70.0	1.64%	250.4	1.19%
CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	AYAGTGCCMYCTRGTGGCCA	1e-2	-4.988e+00	0.0334	41.0	0.96%	133.8	0.64%
ARE(NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	RGRACASNSTGTYCYB	1e-1	-4.552e+00	0.0510	120.0	2.81%	476.7	2.26%
RFX(HTH)/K562-RFX3-ChIP-Seq(SRA012198)/Homer	CGGTTGCCATGGCAAC	1e-1	-4.468e+00	0.0548	70.0	1.64%	259.8	1.23%
Unknown-ESC-element(?)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	CACAGCAGGGGG	1e-1	-4.407e+00	0.0575	164.0	3.84%	676.4	3.21%
Tbox:Smad(T-box,MAD)/ESCd5-Smad2_3-ChIP-Seq(GSE29422)/Homer	AGGTGHCAGACA	1e-1	-4.355e+00	0.0599	95.0	2.23%	369.7	1.76%
TATA-box/Drosophila-Promoters/Homer	CTATAAAAGCSV	1e-1	-4.255e+00	0.0654	196.0	4.59%	825.7	3.92%
Fosl2(bZIP)/3T3L1-Fosl2-ChIP-Seq(GSE56872)/Homer	NATGASTCABNN	1e-1	-4.183e+00	0.0694	168.0	3.94%	699.8	3.32%
AP-2gamma(AP2)/MCF7-TFAP2C-ChIP-Seq(GSE21234)/Homer	SCCTSAGGSCAW	1e-1	-4.140e+00	0.0717	225.0	5.27%	961.2	4.56%
ZNF519(Zf)/HEK293-ZNF519.GFP-ChIP-Seq(GSE58341)/Homer	GAGSCCGAGC	1e-1	-4.088e+00	0.0746	46.0	1.08%	162.2	0.77%
REST-NRSF(Zf)/Jurkat-NRSF-ChIP-Seq/Homer	GGMGCTGTCCATGGTGCTGA	1e-1	-4.020e+00	0.0789	2.0	0.05%	1.2	0.01%
GEI-11(Myb?)/cElegans-L4-GEI11-ChIP-Seq(modEncode)/Homer	CCGACAYYTYACGGG	1e-1	-3.967e+00	0.0824	37.0	0.87%	126.4	0.60%
Zic(Zf)/Cerebellum-ZIC1.2-ChIP-Seq(GSE60731)/Homer	CCTGCTGAGH	1e-1	-3.925e+00	0.0849	368.0	8.62%	1634.0	7.76%
NFkB-p50,p52(RHD)/Monocyte-p50-ChIP-Chip(Schreiber_et_al.)/Homer	GGGGGAATCCCC	1e-1	-3.725e+00	0.1026	34.0	0.80%	116.3	0.55%
BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer	CNNBRGCGCCCCCTGSTGGC	1e-1	-3.648e+00	0.1096	36.0	0.84%	125.8	0.60%
Stat3(Stat)/mES-Stat3-ChIP-Seq(GSE11431)/Homer	CTTCCGGGAA	1e-1	-3.627e+00	0.1107	441.0	10.34%	1990.8	9.45%
Fli1(ETS)/CD8-FLI-ChIP-Seq(GSE20898)/Homer	NRYTTCCGGH	1e-1	-3.419e+00	0.1348	1223.0	28.66%	5768.6	27.39%
ETS(ETS)/Promoter/Homer	AACCGGAAGT	1e-1	-3.247e+00	0.1585	307.0	7.19%	1371.4	6.51%
Fra1(bZIP)/BT549-Fra1-ChIP-Seq(GSE46166)/Homer	NNATGASTCATH	1e-1	-3.226e+00	0.1602	461.0	10.80%	2102.2	9.98%
ELF1(ETS)/Jurkat-ELF1-ChIP-Seq(SRA014231)/Homer	AVCCGGAAGT	1e-1	-3.193e+00	0.1638	516.0	12.09%	2366.6	11.24%
ZNF711(Zf)/SHSY5Y-ZNF711-ChIP-Seq(GSE20673)/Homer	AGGCCTAG	1e-1	-3.173e+00	0.1653	694.0	16.26%	3221.6	15.30%
Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer	GTTGCCATGGCAACM	1e-1	-3.100e+00	0.1761	72.0	1.69%	288.6	1.37%
SeqBias: A/T bias	WWWWWWWWWW	1e-1	-3.096e+00	0.1761	4266.0	99.98%	21036.7	99.89%
p63(p53)/Keratinocyte-p63-ChIP-Seq(GSE17611)/Homer	NNDRCATGYCYNRRCATGYH	1e-1	-3.074e+00	0.1771	180.0	4.22%	783.0	3.72%
Ets1-distal(ETS)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	MACAGGAAGT	1e-1	-3.039e+00	0.1816	180.0	4.22%	783.8	3.72%
Six1(Homeobox)/Myoblast-Six1-ChIP-Chip(GSE20150)/Homer	GKVTCADRTTWC	1e-1	-2.921e+00	0.2025	293.0	6.87%	1317.5	6.26%
THRa(NR)/C17.2-THRa-ChIP-Seq(GSE38347)/Homer	GGTCANYTGAGGWCA	1e-1	-2.877e+00	0.2096	143.0	3.35%	616.8	2.93%
Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer	SCCTAGCAACAG	1e-1	-2.828e+00	0.2179	238.0	5.58%	1061.6	5.04%
GABPA(ETS)/Jurkat-GABPa-ChIP-Seq(GSE17954)/Homer	RACCGGAAGT	1e-1	-2.799e+00	0.2222	717.0	16.80%	3353.7	15.92%
E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer	GGCGGGAARN	1e-1	-2.679e+00	0.2482	239.0	5.60%	1071.2	5.09%
Bach1(bZIP)/K562-Bach1-ChIP-Seq(GSE31477)/Homer	AWWNTGCTGAGTCAT	1e-1	-2.668e+00	0.2485	29.0	0.68%	106.2	0.50%
AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	VTGACTCATC	1e-1	-2.601e+00	0.2634	551.0	12.91%	2565.0	12.18%
ZNF143|STAF(Zf)/CUTLL-ZNF143-ChIP-Seq(GSE29600)/Homer	ATTTCCCAGVAKSCY	1e-1	-2.582e+00	0.2660	108.0	2.53%	462.3	2.20%
ZNF692(Zf)/HEK293-ZNF692.GFP-ChIP-Seq(GSE58341)/Homer	GTGGGCCCCA	1e-1	-2.540e+00	0.2749	49.0	1.15%	195.2	0.93%
Unknown3/Arabidopsis-Promoters/Homer	AYTAAACCGG	1e-1	-2.523e+00	0.2771	474.0	11.11%	2198.4	10.44%
GLI3(Zf)/Limb-GLI3-ChIP-Chip(GSE11077)/Homer	CGTGGGTGGTCC	1e-1	-2.429e+00	0.3019	45.0	1.05%	179.1	0.85%
Sp1(Zf)/Promoter/Homer	GGCCCCGCCCCC	1e-1	-2.409e+00	0.3053	42.0	0.98%	166.6	0.79%
ETS:RUNX(ETS,Runt)/Jurkat-RUNX1-ChIP-Seq(GSE17954)/Homer	RCAGGATGTGGT	1e-1	-2.376e+00	0.3126	36.0	0.84%	140.9	0.67%
Pbx3(Homeobox)/GM12878-PBX3-ChIP-Seq(GSE32465)/Homer	SCTGTCAMTCAN	1e-1	-2.324e+00	0.3265	118.0	2.77%	515.1	2.45%
LIN-15B(Zf)/cElegans-L3-LIN15B-ChIP-Seq(modEncode)/Homer	CARTGGAGCGCRYTTGCATT	1e-1	-2.305e+00	0.3300	5.0	0.12%	12.1	0.06%
DMRT1(DM)/Testis-DMRT1-ChIP-Seq(GSE64892)/Homer	TWGHWACAWTGTWDC	1e0	-2.293e+00	0.3311	341.0	7.99%	1572.5	7.47%
Tcfcp2l1(CP2)/mES-Tcfcp2l1-ChIP-Seq(GSE11431)/Homer	NRAACCRGTTYRAACCRGYT	1e0	-2.112e+00	0.3936	73.0	1.71%	312.4	1.48%
Foxa2(Forkhead)/Liver-Foxa2-ChIP-Seq(GSE25694)/Homer	CYTGTTTACWYW	1e0	-2.057e+00	0.4124	1081.0	25.33%	5175.9	24.58%
FOXA1:AR(Forkhead,NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	AGTAAACAAAAAAGAACAND	1e0	-2.053e+00	0.4124	102.0	2.39%	448.9	2.13%
NFkB-p65-Rel(RHD)/ThioMac-LPS-Expression(GSE23622)/Homer	GGAAATTCCC	1e0	-2.027e+00	0.4177	51.0	1.20%	213.3	1.01%
Etv2(ETS)/ES-ER71-ChIP-Seq(GSE59402)/Homer(0.967)	NNAYTTCCTGHN	1e0	-1.970e+00	0.4386	644.0	15.09%	3053.7	14.50%
ZNF675(Zf)/HEK293-ZNF675.GFP-ChIP-Seq(GSE58341)/Homer	ARGAGGMCAAAATGW	1e0	-1.927e+00	0.4544	138.0	3.23%	621.2	2.95%
Sox2(HMG)/mES-Sox2-ChIP-Seq(GSE11431)/Homer	BCCATTGTTC	1e0	-1.907e+00	0.4600	1271.0	29.79%	6118.6	29.05%
Unknown1/Arabidopsis-Promoters/Homer	RGGGTAWWWTHGTAA	1e0	-1.907e+00	0.4600	148.0	3.47%	669.8	3.18%
ZNF189(Zf)/HEK293-ZNF189.GFP-ChIP-Seq(GSE58341)/Homer	TGGAACAGMA	1e0	-1.887e+00	0.4616	609.0	14.27%	2889.4	13.72%
IRF1(IRF)/PBMC-IRF1-ChIP-Seq(GSE43036)/Homer	GAAAGTGAAAGT	1e0	-1.863e+00	0.4690	217.0	5.09%	999.1	4.74%
GRE(NR),IR3/RAW264.7-GRE-ChIP-Seq(Unpublished)/Homer	VAGRACAKWCTGTYC	1e0	-1.825e+00	0.4835	172.0	4.03%	786.3	3.73%
ZNF41(Zf)/HEK293-ZNF41.GFP-ChIP-Seq(GSE58341)/Homer	CCTCATGGTGYCYTWYTCCCTTGTG	1e0	-1.672e+00	0.5591	20.0	0.47%	79.0	0.38%
PRDM1(Zf)/Hela-PRDM1-ChIP-Seq(GSE31477)/Homer	ACTTTCACTTTC	1e0	-1.641e+00	0.5726	627.0	14.69%	2995.6	14.22%
OCT:OCT(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	ATGAATATTCATGAG	1e0	-1.602e+00	0.5906	13.0	0.30%	49.5	0.24%
Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer	BAACAGCTGT	1e0	-1.570e+00	0.6052	305.0	7.15%	1437.1	6.82%
Fox:Ebox(Forkhead,bHLH)/Panc1-Foxa2-ChIP-Seq(GSE47459)/Homer	NNNVCTGWGYAAACASN	1e0	-1.559e+00	0.6074	852.0	19.97%	4100.7	19.47%
GRE(NR),IR3/A549-GR-ChIP-Seq(GSE32465)/Homer	NRGVACABNVTGTYCY	1e0	-1.547e+00	0.6103	71.0	1.66%	317.8	1.51%
Smad2(MAD)/ES-SMAD2-ChIP-Seq(GSE29422)/Homer	CTGTCTGG	1e0	-1.492e+00	0.6402	902.0	21.14%	4351.6	20.66%
ZNF528(Zf)/HEK293-ZNF528.GFP-ChIP-Seq(GSE58341)/Homer	AGAAATGACTTCCCT	1e0	-1.484e+00	0.6407	5.0	0.12%	16.3	0.08%
Unknown1(NR/Ini-like)/Drosophila-Promoters/Homer	MYGGTCACACTG	1e0	-1.432e+00	0.6698	132.0	3.09%	611.3	2.90%
EBNA1(EBV-virus)/Raji-EBNA1-ChIP-Seq(GSE30709)/Homer	GGYAGCAYDTGCTDCCCNNN	1e0	-1.431e+00	0.6698	8.0	0.19%	29.8	0.14%
YY1(Zf)/Promoter/Homer	CAAGATGGCGGC	1e0	-1.336e+00	0.7269	53.0	1.24%	238.5	1.13%
EBF(EBF)/proBcell-EBF-ChIP-Seq(GSE21978)/Homer	DGTCCCYRGGGA	1e0	-1.314e+00	0.7374	41.0	0.96%	182.5	0.87%
Reverb(NR),DR2/RAW-Reverba.biotin-ChIP-Seq(GSE45914)/Homer	GTRGGTCASTGGGTCA	1e0	-1.275e+00	0.7618	31.0	0.73%	136.2	0.65%
Atf3(bZIP)/GBM-ATF3-ChIP-Seq(GSE33912)/Homer	DATGASTCATHN	1e0	-1.262e+00	0.7661	482.0	11.30%	2319.3	11.01%
GFY(?)/Promoter/Homer	ACTACAATTCCC	1e0	-1.214e+00	0.7980	32.0	0.75%	142.2	0.68%
Jun-AP1(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	GATGASTCATCN	1e0	-1.181e+00	0.8195	73.0	1.71%	338.8	1.61%
ERG(ETS)/VCaP-ERG-ChIP-Seq(GSE14097)/Homer	ACAGGAAGTG	1e0	-1.171e+00	0.8221	1058.0	24.79%	5151.5	24.46%
ZNF322(Zf)/HEK293-ZNF322.GFP-ChIP-Seq(GSE58341)/Homer	GAGCCTGGTACTGWGCCTGR	1e0	-1.166e+00	0.8221	48.0	1.12%	219.3	1.04%
X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	GGTTGCCATGGCAA	1e0	-1.088e+00	0.8811	98.0	2.30%	462.6	2.20%
E-box/Drosophila-Promoters/Homer	AACAGCTGTTHN	1e0	-1.059e+00	0.9007	119.0	2.79%	565.1	2.68%
RBPJ:Ebox(?,bHLH)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	GGGRAARRGRMCAGMTG	1e0	-1.053e+00	0.9007	121.0	2.84%	575.9	2.73%
ZSCAN22(Zf)/HEK293-ZSCAN22.GFP-ChIP-Seq(GSE58341)/Homer	SMCAGTCWGAKGGAGGAGGC	1e0	-1.037e+00	0.9088	8.0	0.19%	33.0	0.16%
MyoG(bHLH)/C2C12-MyoG-ChIP-Seq(GSE36024)/Homer	AACAGCTG	1e0	-1.029e+00	0.9095	412.0	9.66%	1997.7	9.49%
RARg(NR)/ES-RARg-ChIP-Seq(GSE30538)/Homer	AGGTCAAGGTCA	1e0	-1.007e+00	0.9243	12.0	0.28%	52.5	0.25%
PU.1:IRF8(ETS:IRF)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	GGAAGTGAAAST	1e0	-9.943e-01	0.9298	183.0	4.29%	880.5	4.18%
MafK(bZIP)/C2C12-MafK-ChIP-Seq(GSE36030)/Homer	GCTGASTCAGCA	1e0	-9.897e-01	0.9298	87.0	2.04%	413.8	1.96%
EWS:FLI1-fusion(ETS)/SK_N_MC-EWS:FLI1-ChIP-Seq(SRA014231)/Homer	VACAGGAAAT	1e0	-9.583e-01	0.9515	418.0	9.80%	2033.0	9.65%
Pknox1(Homeobox)/ES-Prep1-ChIP-Seq(GSE63282)/Homer	SCTGTCAVTCAV	1e0	-9.432e-01	0.9598	118.0	2.77%	566.1	2.69%
NF1:FOXA1(CTF,Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WNTGTTTRYTTTGGCA	1e0	-9.267e-01	0.9696	64.0	1.50%	305.0	1.45%
Hnf1(Homeobox)/Liver-Foxa2-Chip-Seq(GSE25694)/Homer	GGTTAAWCATTAA	1e0	-9.174e-01	0.9725	240.0	5.62%	1164.0	5.53%
SeqBias: GCW-triplet	GCWGCWGCWGCW	1e0	-8.463e-01	1.0000	4263.0	99.91%	21035.6	99.88%
ZNF317(Zf)/HEK293-ZNF317.GFP-ChIP-Seq(GSE58341)/Homer	GTCWGCTGTYYCTCT	1e0	-8.458e-01	1.0000	50.0	1.17%	239.2	1.14%
ETS1(ETS)/Jurkat-ETS1-ChIP-Seq(GSE17954)/Homer	ACAGGAAGTG	1e0	-8.426e-01	1.0000	741.0	17.37%	3635.0	17.26%
DMRT6(DM)/Testis-DMRT6-ChIP-Seq(GSE60440)/Homer	YDGHTACAWTGTADC	1e0	-8.409e-01	1.0000	240.0	5.62%	1170.7	5.56%
ZNF264(Zf)/HEK293-ZNF264.GFP-ChIP-Seq(GSE58341)/Homer	RGGGCACTAACY	1e0	-8.301e-01	1.0000	516.0	12.09%	2528.5	12.01%
Rfx1(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	KGTTGCCATGGCAA	1e0	-8.238e-01	1.0000	145.0	3.40%	705.6	3.35%
SeqBias: polyA-repeat	AAAAAAAAAA	1e0	-8.105e-01	1.0000	4267.0	100.00%	21056.9	99.98%
Sox4(HMG)/proB-Sox4-ChIP-Seq(GSE50066)/Homer	YCTTTGTTCC	1e0	-8.037e-01	1.0000	952.0	22.31%	4679.1	22.22%
p53(p53)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	ACATGCCCGGGCAT	1e0	-7.864e-01	1.0000	1.0	0.02%	3.7	0.02%
NF1(CTF)/LNCAP-NF1-ChIP-Seq(Unpublished)/Homer	CYTGGCABNSTGCCAR	1e0	-7.531e-01	1.0000	104.0	2.44%	508.9	2.42%
Mef2d(MADS)/Retina-Mef2d-ChIP-Seq(GSE61391)/Homer	GCTATTTTTAGC	1e0	-7.512e-01	1.0000	342.0	8.01%	1680.0	7.98%
ZFX(Zf)/mES-Zfx-ChIP-Seq(GSE11431)/Homer	AGGCCTRG	1e0	-7.185e-01	1.0000	407.0	9.54%	2004.5	9.52%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	RGGTCADNNAGAGGTCAV	1e0	-7.131e-01	1.0000	3.0	0.07%	13.6	0.06%
Atoh1(bHLH)/Cerebellum-Atoh1-ChIP-Seq(GSE22111)/Homer	VNRVCAGCTGGY	1e0	-6.996e-01	1.0000	532.0	12.47%	2624.0	12.46%
ETV1(ETS)/GIST48-ETV1-ChIP-Seq(GSE22441)/Homer	AACCGGAAGT	1e0	-6.450e-01	1.0000	1048.0	24.56%	5179.1	24.59%
Ascl1(bHLH)/NeuralTubes-Ascl1-ChIP-Seq(GSE55840)/Homer	NNVVCAGCTGBN	1e0	-6.386e-01	1.0000	656.0	15.37%	3244.7	15.41%
SeqBias: G/A bias	RRRRRRRRRR	1e0	-6.079e-01	1.0000	4267.0	100.00%	21057.6	99.99%
PGR(NR)/EndoStromal-PGR-ChIP-Seq(GSE69539)/Homer	AAGAACATWHTGTTC	1e0	-6.071e-01	1.0000	202.0	4.73%	1003.7	4.77%
SPDEF(ETS)/VCaP-SPDEF-ChIP-Seq(SRA014231)/Homer	ASWTCCTGBT	1e0	-5.943e-01	1.0000	834.0	19.55%	4131.5	19.62%
GFY-Staf(?,Zf)/Promoter/Homer	RACTACAATTCCCAGAAKGC	1e0	-5.877e-01	1.0000	13.0	0.30%	65.1	0.31%
FOXA1(Forkhead)/MCF7-FOXA1-ChIP-Seq(GSE26831)/Homer	WAAGTAAACA	1e0	-5.854e-01	1.0000	1437.0	33.68%	7112.6	33.77%
T1ISRE(IRF)/ThioMac-Ifnb-Expression/Homer	ACTTTCGTTTCT	1e0	-5.609e-01	1.0000	20.0	0.47%	101.2	0.48%
HEB(bHLH)/mES-Heb-ChIP-Seq(GSE53233)/Homer	VCAGCTGBNN	1e0	-5.077e-01	1.0000	821.0	19.24%	4083.3	19.39%
Brachyury(T-box)/Mesoendoderm-Brachyury-ChIP-exo(GSE54963)/Homer	ANTTMRCASBNNNGTGYKAAN	1e0	-5.059e-01	1.0000	211.0	4.94%	1058.7	5.03%
Tbx20(T-box)/Heart-Tbx20-ChIP-Seq(GSE29636)/Homer	GGTGYTGACAGS	1e0	-5.056e-01	1.0000	165.0	3.87%	829.3	3.94%
Tcf12(bHLH)/GM12878-Tcf12-ChIP-Seq(GSE32465)/Homer	VCAGCTGYTG	1e0	-4.984e-01	1.0000	376.0	8.81%	1879.6	8.92%
ZNF416(Zf)/HEK293-ZNF416.GFP-ChIP-Seq(GSE58341)/Homer	WDNCTGGGCA	1e0	-4.804e-01	1.0000	396.0	9.28%	1981.7	9.41%
ZBTB18(Zf)/HEK293-ZBTB18.GFP-ChIP-Seq(GSE58341)/Homer	AACATCTGGA	1e0	-4.778e-01	1.0000	221.0	5.18%	1111.3	5.28%
Esrrb(NR)/mES-Esrrb-ChIP-Seq(GSE11431)/Homer	KTGACCTTGA	1e0	-4.703e-01	1.0000	444.0	10.41%	2221.4	10.55%
GFX(?)/Promoter/Homer	ATTCTCGCGAGA	1e0	-4.677e-01	1.0000	11.0	0.26%	58.2	0.28%
Smad4(MAD)/ESC-SMAD4-ChIP-Seq(GSE29422)/Homer	VBSYGTCTGG	1e0	-4.136e-01	1.0000	873.0	20.46%	4361.8	20.71%
STAT5(Stat)/mCD4+-Stat5-ChIP-Seq(GSE12346)/Homer	RTTTCTNAGAAA	1e0	-3.959e-01	1.0000	315.0	7.38%	1591.7	7.56%
Srebp1a(bHLH)/HepG2-Srebp1a-ChIP-Seq(GSE31477)/Homer	RTCACSCCAY	1e0	-3.928e-01	1.0000	118.0	2.77%	606.0	2.88%
RUNX2(Runt)/PCa-RUNX2-ChIP-Seq(GSE33889)/Homer	NWAACCACADNN	1e0	-3.867e-01	1.0000	630.0	14.76%	3161.8	15.01%
OCT:OCT(POU,Homeobox,IR1)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATWATTCATGA	1e0	-3.632e-01	1.0000	33.0	0.77%	176.1	0.84%
FOXA1(Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WAAGTAAACA	1e0	-3.399e-01	1.0000	1654.0	38.76%	8249.9	39.17%
Znf263(Zf)/K562-Znf263-ChIP-Seq(GSE31477)/Homer	CVGTSCTCCC	1e0	-3.381e-01	1.0000	638.0	14.95%	3212.4	15.25%
Meis1(Homeobox)/MastCells-Meis1-ChIP-Seq(GSE48085)/Homer	VGCTGWCAVB	1e0	-3.372e-01	1.0000	1022.0	23.95%	5120.8	24.31%
PAX6(Paired,Homeobox)/Forebrain-Pax6-ChIP-Seq(GSE66961)/Homer	NGTGTTCAVTSAAGCGKAAA	1e0	-3.260e-01	1.0000	76.0	1.78%	399.2	1.90%
Pax7(Paired,Homeobox),long/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCHGATTAC	1e0	-3.018e-01	1.0000	57.0	1.34%	304.8	1.45%
AARE(HLH)/mES-cMyc-ChIP-Seq/Homer	GATTGCATCA	1e0	-2.965e-01	1.0000	149.0	3.49%	773.5	3.67%
Unknown3/Drosophila-Promoters/Homer	ACVAKCTGGCAGCGC	1e0	-2.951e-01	1.0000	36.0	0.84%	196.5	0.93%
Tlx?(NR)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	CTGGCAGSCTGCCA	1e0	-2.905e-01	1.0000	89.0	2.09%	469.6	2.23%
Rbpj1(?)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	HTTTCCCASG	1e0	-2.822e-01	1.0000	895.0	20.97%	4506.7	21.40%
EBF1(EBF)/Near-E2A-ChIP-Seq(GSE21512)/Homer	GTCCCCWGGGGA	1e0	-2.792e-01	1.0000	213.0	4.99%	1099.6	5.22%
CEBP:CEBP(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	NTNATGCAAYMNNHTGMAAY	1e0	-2.578e-01	1.0000	216.0	5.06%	1118.1	5.31%
RBFox2(?)/Heart-RBFox2-CLIP-Seq(GSE57926)/Homer	TGCATGCA	1e0	-2.533e-01	1.0000	1588.0	37.22%	7954.8	37.77%
Sox9(HMG)/Limb-SOX9-ChIP-Seq(GSE73225)/Homer	AGGVNCCTTTGT	1e0	-2.511e-01	1.0000	764.0	17.90%	3864.4	18.35%
GATA3(Zf),DR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATGKDGAGATAAG	1e0	-2.450e-01	1.0000	129.0	3.02%	679.1	3.22%
PAX3:FKHR-fusion(Paired,Homeobox)/Rh4-PAX3:FKHR-ChIP-Seq(GSE19063)/Homer	ACCRTGACTAATTNN	1e0	-2.433e-01	1.0000	315.0	7.38%	1620.5	7.69%
Oct4:Sox17(POU,Homeobox,HMG)/F9-Sox17-ChIP-Seq(GSE44553)/Homer	CCATTGTATGCAAAT	1e0	-2.308e-01	1.0000	212.0	4.97%	1103.0	5.24%
NF-E2(bZIP)/K562-NFE2-ChIP-Seq(GSE31477)/Homer	GATGACTCAGCA	1e0	-2.299e-01	1.0000	15.0	0.35%	90.0	0.43%
Zfp809(Zf)/ES-Zfp809-ChIP-Seq(GSE70799)/Homer	GGGGCTYGKCTGGGA	1e0	-2.173e-01	1.0000	20.0	0.47%	117.4	0.56%
OCT4-SOX2-TCF-NANOG(POU,Homeobox,HMG)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAACAATG	1e0	-2.163e-01	1.0000	302.0	7.08%	1561.2	7.41%
ETS:E-box(ETS,bHLH)/HPC7-Scl-ChIP-Seq(GSE22178)/Homer	AGGAARCAGCTG	1e0	-2.079e-01	1.0000	35.0	0.82%	198.1	0.94%
 Ik-1	NHTTGGGAATRCC	1e0	-2.026e-01	1.0000	4267.0	100.00%	21060.7	100.00%
Sox15(HMG)/CPA-Sox15-ChIP-Seq(GSE62909)/Homer	RAACAATGGN	1e0	-1.981e-01	1.0000	1419.0	33.26%	7142.0	33.91%
PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer	ADGGYAGYAGCATCT	1e0	-1.850e-01	1.0000	409.0	9.59%	2109.4	10.02%
CArG(MADS)/PUER-Srf-ChIP-Seq(Sullivan_et_al.)/Homer	CCATATATGGNM	1e0	-1.713e-01	1.0000	396.0	9.28%	2048.9	9.73%
PCF/Arabidopsis-Promoters/Homer	NNWWWTGGGCYTDDN	1e0	-1.706e-01	1.0000	311.0	7.29%	1619.3	7.69%
Nur77(NR)/K562-NR4A1-ChIP-Seq(GSE31363)/Homer	TGACCTTTNCNT	1e0	-1.687e-01	1.0000	181.0	4.24%	959.0	4.55%
IRF2(IRF)/Erythroblas-IRF2-ChIP-Seq(GSE36985)/Homer	GAAASYGAAASY	1e0	-1.649e-01	1.0000	134.0	3.14%	719.8	3.42%
ELF5(ETS)/T47D-ELF5-ChIP-Seq(GSE30407)/Homer	ACVAGGAAGT	1e0	-1.598e-01	1.0000	687.0	16.10%	3514.3	16.69%
FOXM1(Forkhead)/MCF7-FOXM1-ChIP-Seq(GSE72977)/Homer	TRTTTACTTW	1e0	-1.592e-01	1.0000	1341.0	31.43%	6774.9	32.17%
Brn2(POU,Homeobox)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATATTC	1e0	-1.589e-01	1.0000	169.0	3.96%	900.8	4.28%
NeuroD1(bHLH)/Islet-NeuroD1-ChIP-Seq(GSE30298)/Homer	GCCATCTGTT	1e0	-1.442e-01	1.0000	364.0	8.53%	1896.1	9.00%
STAT1(Stat)/HelaS3-STAT1-ChIP-Seq(GSE12782)/Homer	NATTTCCNGGAAAT	1e0	-1.308e-01	1.0000	332.0	7.78%	1739.6	8.26%
GATA(Zf),IR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NAGATWNBNATCTNN	1e0	-1.218e-01	1.0000	111.0	2.60%	610.8	2.90%
E2A(bHLH)/proBcell-E2A-ChIP-Seq(GSE21978)/Homer	DNRCAGCTGY	1e0	-1.215e-01	1.0000	567.0	13.29%	2930.6	13.91%
Pax7(Paired,Homeobox),longest/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	NTAATTDGCYAATTANNWWD	1e0	-1.201e-01	1.0000	68.0	1.59%	385.4	1.83%
ZNF165(Zf)/WHIM12-ZNF165-ChIP-Seq(GSE65937)/Homer	AAGGKGRCGCAGGCA	1e0	-1.191e-01	1.0000	20.0	0.47%	126.8	0.60%
RUNX(Runt)/HPC7-Runx1-ChIP-Seq(GSE22178)/Homer	SAAACCACAG	1e0	-1.163e-01	1.0000	522.0	12.23%	2706.6	12.85%
Tcf21(bHLH)/ArterySmoothMuscle-Tcf21-ChIP-Seq(GSE61369)/Homer	NAACAGCTGG	1e0	-1.054e-01	1.0000	373.0	8.74%	1958.4	9.30%
Unknown2/Arabidopsis-Promoters/Homer	AAACGACGTCGTTTT	1e0	-1.044e-01	1.0000	27.0	0.63%	167.3	0.79%
RUNX-AML(Runt)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	GCTGTGGTTW	1e0	-9.367e-02	1.0000	441.0	10.34%	2309.0	10.96%
Mef2a(MADS)/HL1-Mef2a.biotin-ChIP-Seq(GSE21529)/Homer	CYAAAAATAG	1e0	-9.208e-02	1.0000	620.0	14.53%	3214.5	15.26%
FXR(NR),IR1/Liver-FXR-ChIP-Seq(Chong_et_al.)/Homer	AGGTCANTGACCTB	1e0	-9.042e-02	1.0000	170.0	3.98%	926.8	4.40%
Brn1(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	TATGCWAATBAV	1e0	-8.328e-02	1.0000	387.0	9.07%	2041.5	9.69%
Bach2(bZIP)/OCILy7-Bach2-ChIP-Seq(GSE44420)/Homer	TGCTGAGTCA	1e0	-8.310e-02	1.0000	63.0	1.48%	368.0	1.75%
PU.1(ETS)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	AGAGGAAGTG	1e0	-8.239e-02	1.0000	244.0	5.72%	1311.1	6.23%
FoxL2(Forkhead)/Ovary-FoxL2-ChIP-Seq(GSE60858)/Homer	WWTRTAAACAVG	1e0	-7.860e-02	1.0000	1399.0	32.79%	7121.1	33.81%
Unknown4/Drosophila-Promoters/Homer	AAAAATACCRMA	1e0	-7.027e-02	1.0000	344.0	8.06%	1830.4	8.69%
IRF:BATF(IRF:bZIP)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	CTTTCANTATGACTV	1e0	-7.020e-02	1.0000	143.0	3.35%	794.6	3.77%
NFAT:AP1(RHD,bZIP)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	SARTGGAAAAWRTGAGTCAB	1e0	-6.848e-02	1.0000	153.0	3.59%	847.1	4.02%
Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq(GSE22178)/Homer	MAATCACTGC	1e0	-6.703e-02	1.0000	436.0	10.22%	2301.5	10.93%
Atf4(bZIP)/MEF-Atf4-ChIP-Seq(GSE35681)/Homer	MTGATGCAAT	1e0	-5.745e-02	1.0000	500.0	11.72%	2634.2	12.51%
HRE(HSF)/HepG2-HSF1-ChIP-Seq(GSE31477)/Homer	BSTTCTRGAABVTTCYAGAA	1e0	-5.535e-02	1.0000	76.0	1.78%	446.5	2.12%
NFAT(RHD)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	ATTTTCCATT	1e0	-5.324e-02	1.0000	1230.0	28.83%	6308.3	29.95%
ZNF415(Zf)/HEK293-ZNF415.GFP-ChIP-Seq(GSE58341)/Homer	GRTGMTRGAGCC	1e0	-5.323e-02	1.0000	215.0	5.04%	1178.2	5.59%
ISRE(IRF)/ThioMac-LPS-Expression(GSE23622)/Homer	AGTTTCASTTTC	1e0	-5.116e-02	1.0000	69.0	1.62%	411.0	1.95%
MafA(bZIP)/Islet-MafA-ChIP-Seq(GSE30298)/Homer	TGCTGACTCA	1e0	-4.895e-02	1.0000	422.0	9.89%	2245.9	10.66%
Zelda(Zf)/Embryo-zld-ChIP-Seq(GSE65441)/Homer	KBCTACCTGW	1e0	-3.559e-02	1.0000	301.0	7.05%	1638.7	7.78%
SEP3(MADS)/Arabidoposis-Flower-Sep3-ChIP-Seq/Homer	CCAAAAAGGG	1e0	-3.483e-02	1.0000	2018.0	47.29%	10251.5	48.68%
HOXA2(Homeobox)/mES-Hoxa2-ChIP-Seq(Donaldson_et_al.)/Homer	GYCATCMATCAT	1e0	-3.373e-02	1.0000	134.0	3.14%	768.5	3.65%
Ap4(bHLH)/AML-Tfap4-ChIP-Seq(GSE45738)/Homer	NAHCAGCTGD	1e0	-3.109e-02	1.0000	450.0	10.55%	2409.6	11.44%
ZNF136(Zf)/HEK293-ZNF136.GFP-ChIP-Seq(GSE58341)/Homer	YTKGATAHAGTATTCTWGGTNGGCA	1e0	-2.971e-02	1.0000	101.0	2.37%	595.9	2.83%
TATA-Box(TBP)/Promoter/Homer	CCTTTTAWAGSC	1e0	-2.896e-02	1.0000	1631.0	38.22%	8347.2	39.63%
ZNF382(Zf)/HEK293-ZNF382.GFP-ChIP-Seq(GSE58341)/Homer	GNCTGTASTRNTGBCTCHTT	1e0	-2.438e-02	1.0000	14.0	0.33%	110.6	0.53%
ZNF669(Zf)/HEK293-ZNF669.GFP-ChIP-Seq(GSE58341)/Homer	GARTGGTCATCGCCC	1e0	-2.021e-02	1.0000	37.0	0.87%	249.8	1.19%
Hoxb4(Homeobox)/ES-Hoxb4-ChIP-Seq(GSE34014)/Homer	TGATTRATGGCY	1e0	-1.815e-02	1.0000	228.0	5.34%	1283.0	6.09%
SeqBias: C/A-bias	MMMMMMMMMM	1e0	-1.811e-02	1.0000	4266.0	99.98%	21060.7	100.00%
MyoD(bHLH)/Myotube-MyoD-ChIP-Seq(GSE21614)/Homer	RRCAGCTGYTSY	1e0	-1.694e-02	1.0000	324.0	7.59%	1785.2	8.48%
LXRE(NR),DR4/RAW-LXRb.biotin-ChIP-Seq(GSE21512)/Homer	RGGTTACTANAGGTCA	1e0	-1.500e-02	1.0000	14.0	0.33%	115.2	0.55%
SOC1(MADS)/Seedling-SOC1-ChIP-Seq(GSE45846)/Homer	TWCCAWWTWTGG	1e0	-1.485e-02	1.0000	676.0	15.84%	3596.4	17.08%
Chop(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	ATTGCATCAT	1e0	-1.421e-02	1.0000	365.0	8.55%	2004.9	9.52%
bZIP:IRF(bZIP,IRF)/Th17-BatF-ChIP-Seq(GSE39756)/Homer	NAGTTTCABTHTGACTNW	1e0	-1.346e-02	1.0000	487.0	11.41%	2635.3	12.51%
RORgt(NR)/EL4-RORgt.Flag-ChIP-Seq(GSE56019)/Homer	AAYTAGGTCA	1e0	-1.298e-02	1.0000	85.0	1.99%	526.2	2.50%
Foxo1(Forkhead)/RAW-Foxo1-ChIP-Seq(Fan_et_al.)/Homer	CTGTTTAC	1e0	-9.270e-03	1.0000	1723.0	40.38%	8876.4	42.15%
CTCF-SatelliteElement(Zf?)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	TGCAGTTCCMVNWRTGGCCA	1e0	-9.207e-03	1.0000	3.0	0.07%	43.0	0.20%
Gata1(Zf)/K562-GATA1-ChIP-Seq(GSE18829)/Homer	SAGATAAGRV	1e0	-7.960e-03	1.0000	789.0	18.49%	4200.8	19.95%
Pax7(Paired,Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCAATTA	1e0	-6.925e-03	1.0000	225.0	5.27%	1295.2	6.15%
Unknown2/Drosophila-Promoters/Homer	CATCMCTA	1e0	-6.544e-03	1.0000	690.0	16.17%	3705.7	17.60%
Atf7(bZIP)/3T3L1-Atf7-ChIP-Seq(GSE56872)/Homer	NGRTGACGTCAY	1e0	-6.089e-03	1.0000	393.0	9.21%	2180.3	10.35%
Gata2(Zf)/K562-GATA2-ChIP-Seq(GSE18829)/Homer	BBCTTATCTS	1e0	-5.685e-03	1.0000	916.0	21.47%	4860.2	23.08%
Foxh1(Forkhead)/hESC-FOXH1-ChIP-Seq(GSE29422)/Homer	NNTGTGGATTSS	1e0	-5.256e-03	1.0000	754.0	17.67%	4041.2	19.19%
Atf2(bZIP)/3T3L1-Atf2-ChIP-Seq(GSE56872)/Homer	NRRTGACGTCAT	1e0	-4.121e-03	1.0000	215.0	5.04%	1256.4	5.97%
Nr5a2(NR)/mES-Nr5a2-ChIP-Seq(GSE19019)/Homer	BTCAAGGTCA	1e0	-4.116e-03	1.0000	287.0	6.73%	1638.8	7.78%
EHF(ETS)/LoVo-EHF-ChIP-Seq(GSE49402)/Homer	AVCAGGAAGT	1e0	-3.788e-03	1.0000	1120.0	26.25%	5910.8	28.07%
Pit1+1bp(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGCATAATTCA	1e0	-3.577e-03	1.0000	683.0	16.01%	3695.6	17.55%
c-Jun-CRE(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	ATGACGTCATCY	1e0	-3.056e-03	1.0000	176.0	4.12%	1054.3	5.01%
Nrf2(bZIP)/Lymphoblast-Nrf2-ChIP-Seq(GSE37589)/Homer	HTGCTGAGTCAT	1e0	-2.775e-03	1.0000	6.0	0.14%	74.9	0.36%
NFkB-p65(RHD)/GM12787-p65-ChIP-Seq(GSE19485)/Homer	WGGGGATTTCCC	1e0	-2.520e-03	1.0000	263.0	6.16%	1525.8	7.24%
Erra(NR)/HepG2-Erra-ChIP-Seq(GSE31477)/Homer	CAAAGGTCAG	1e0	-2.296e-03	1.0000	993.0	23.27%	5292.8	25.13%
Sox10(HMG)/SciaticNerve-Sox3-ChIP-Seq(GSE35132)/Homer	CCWTTGTYYB	1e0	-2.274e-03	1.0000	1680.0	39.37%	8739.1	41.50%
TCFL2(HMG)/K562-TCF7L2-ChIP-Seq(GSE29196)/Homer	ACWTCAAAGG	1e0	-2.231e-03	1.0000	84.0	1.97%	553.9	2.63%
Ptf1a(bHLH)/Panc1-Ptf1a-ChIP-Seq(GSE47459)/Homer	ACAGCTGTTN	1e0	-2.201e-03	1.0000	1172.0	27.47%	6199.0	29.43%
Stat3+il21(Stat)/CD4-Stat3-ChIP-Seq(GSE19198)/Homer	SVYTTCCNGGAARB	1e0	-2.098e-03	1.0000	545.0	12.77%	3006.8	14.28%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	AGGTCAAGGTCA	1e0	-2.030e-03	1.0000	35.0	0.82%	268.5	1.28%
Nr5a2(NR)/Pancreas-LRH1-ChIP-Seq(GSE34295)/Homer	BTCAAGGTCA	1e0	-1.995e-03	1.0000	418.0	9.80%	2348.6	11.15%
RUNX1(Runt)/Jurkat-RUNX1-ChIP-Seq(GSE29180)/Homer	AAACCACARM	1e0	-1.570e-03	1.0000	723.0	16.94%	3933.5	18.68%
E2A(bHLH),near_PU.1/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	NVCACCTGBN	1e0	-1.413e-03	1.0000	616.0	14.44%	3387.2	16.08%
HNF4a(NR),DR1/HepG2-HNF4a-ChIP-Seq(GSE25021)/Homer	CARRGKBCAAAGTYCA	1e0	-1.145e-03	1.0000	193.0	4.52%	1169.9	5.55%
VDR(NR),DR3/GM10855-VDR+vitD-ChIP-Seq(GSE22484)/Homer	ARAGGTCANWGAGTTCANNN	1e0	-9.840e-04	1.0000	69.0	1.62%	480.5	2.28%
HRE(HSF)/Striatum-HSF1-ChIP-Seq(GSE38000)/Homer	TTCTAGAABNTTCTA	1e0	-8.610e-04	1.0000	181.0	4.24%	1110.7	5.27%
GATA3(Zf),DR8/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATSTNDNNDSAGATAASN	1e0	-7.380e-04	1.0000	89.0	2.09%	600.0	2.85%
Mef2b(MADS)/HEK293-Mef2b.V5-ChIP-Seq(GSE67450)/Homer	GCTATTTTTGGM	1e0	-7.010e-04	1.0000	1233.0	28.90%	6557.4	31.14%
PR(NR)/T47D-PR-ChIP-Seq(GSE31130)/Homer	VAGRACAKNCTGTBC	1e0	-6.480e-04	1.0000	1514.0	35.48%	7971.3	37.85%
EWS:ERG-fusion(ETS)/CADO_ES1-EWS:ERG-ChIP-Seq(SRA014231)/Homer	ATTTCCTGTN	1e0	-3.010e-04	1.0000	572.0	13.41%	3212.5	15.25%
Atf1(bZIP)/K562-ATF1-ChIP-Seq(GSE31477)/Homer	GATGACGTCA	1e0	-2.640e-04	1.0000	825.0	19.33%	4523.8	21.48%
TEAD2(TEA)/Py2T-Tead2-ChIP-Seq(GSE55709)/Homer	CCWGGAATGY	1e0	-1.890e-04	1.0000	320.0	7.50%	1897.3	9.01%
Oct6(POU,Homeobox)/NPC-Oct6-ChIP-Seq(GSE35496)/Homer	WATGCAAATGAG	1e0	-1.420e-04	1.0000	482.0	11.30%	2764.4	13.13%
STAT6(Stat)/Macrophage-Stat6-ChIP-Seq(GSE38377)/Homer	TTCCKNAGAA	1e0	-1.410e-04	1.0000	621.0	14.55%	3491.6	16.58%
Mef2c(MADS)/GM12878-Mef2c-ChIP-Seq(GSE32465)/Homer	DCYAAAAATAGM	1e0	-1.240e-04	1.0000	694.0	16.26%	3875.0	18.40%
MafF(bZIP)/HepG2-MafF-ChIP-Seq(GSE31477)/Homer	HWWGTCAGCAWWTTT	1e0	-1.190e-04	1.0000	341.0	7.99%	2021.3	9.60%
Olig2(bHLH)/Neuron-Olig2-ChIP-Seq(GSE30882)/Homer	RCCATMTGTT	1e0	-9.200e-05	1.0000	1365.0	31.99%	7305.1	34.69%
PRDM14(Zf)/H1-PRDM14-ChIP-Seq(GSE22767)/Homer	RGGTCTCTAACY	1e0	-9.100e-05	1.0000	164.0	3.84%	1061.7	5.04%
Oct4(POU,Homeobox)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAW	1e0	-8.500e-05	1.0000	627.0	14.69%	3538.7	16.80%
Oct2(POU,Homeobox)/Bcell-Oct2-ChIP-Seq(GSE21512)/Homer	ATATGCAAAT	1e0	-7.500e-05	1.0000	417.0	9.77%	2438.4	11.58%
HLH-1(bHLH)/cElegans-Embryo-HLH1-ChIP-Seq(modEncode)/Homer	RACAGCTGTTBH	1e0	-6.500e-05	1.0000	523.0	12.26%	3002.1	14.25%
JunD(bZIP)/K562-JunD-ChIP-Seq/Homer	ATGACGTCATCN	1e0	-4.200e-05	1.0000	30.0	0.70%	278.6	1.32%
Otx2(Homeobox)/EpiLC-Otx2-ChIP-Seq(GSE56098)/Homer	NYTAATCCYB	1e0	-3.300e-05	1.0000	889.0	20.83%	4923.9	23.38%
TEAD4(TEA)/Tropoblast-Tead4-ChIP-Seq(GSE37350)/Homer	CCWGGAATGY	1e0	-1.900e-05	1.0000	597.0	13.99%	3425.4	16.26%
Pit1(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGMATATDC	1e0	-1.500e-05	1.0000	1772.0	41.53%	9411.0	44.69%
ZBTB12(Zf)/HEK293-ZBTB12.GFP-ChIP-Seq(GSE58341)/Homer	NGNTCTAGAACCNGV	1e0	-1.300e-05	1.0000	207.0	4.85%	1337.9	6.35%
CEBP:AP1(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	DRTGTTGCAA	1e0	-1.000e-05	1.0000	1085.0	25.43%	5967.6	28.34%
Nkx2.2(Homeobox)/NPC-Nkx2.2-ChIP-Seq(GSE61673)/Homer	BTBRAGTGSN	1e0	-8.000e-06	1.0000	1350.0	31.64%	7318.0	34.75%
Sox6(HMG)/Myotubes-Sox6-ChIP-Seq(GSE32627)/Homer	CCATTGTTNY	1e0	-3.000e-06	1.0000	2095.0	49.10%	11063.7	52.53%
BMYB(HTH)/Hela-BMYB-ChIP-Seq(GSE27030)/Homer	NHAACBGYYV	1e0	-3.000e-06	1.0000	1914.0	44.86%	10176.7	48.32%
Eomes(T-box)/H9-Eomes-ChIP-Seq(GSE26097)/Homer	ATTAACACCT	1e0	-3.000e-06	1.0000	1941.0	45.49%	10312.6	48.97%
Lhx2(Homeobox)/HFSC-Lhx2-ChIP-Seq(GSE48068)/Homer	TAATTAGN	1e0	-2.000e-06	1.0000	1651.0	38.69%	8884.5	42.19%
Mouse_Recombination_Hotspot(Zf)/Testis-DMC1-ChIP-Seq(GSE24438)/Homer	ACTYKNATTCGTGNTACTTC	1e0	-2.000e-06	1.0000	43.0	1.01%	397.3	1.89%
Nkx2.5(Homeobox)/HL1-Nkx2.5.biotin-ChIP-Seq(GSE21529)/Homer	RRSCACTYAA	1e0	-1.000e-06	1.0000	1562.0	36.61%	8462.8	40.18%
DREF/Drosophila-Promoters/Homer	AVYTATCGATAD	1e0	-0.000e+00	1.0000	75.0	1.76%	618.9	2.94%
IRF4(IRF)/GM12878-IRF4-ChIP-Seq(GSE32465)/Homer	ACTGAAACCA	1e0	-0.000e+00	1.0000	445.0	10.43%	2715.6	12.89%
Tcf4(HMG)/Hct116-Tcf4-ChIP-Seq(SRA012054)/Homer	ASATCAAAGGVA	1e0	-0.000e+00	1.0000	515.0	12.07%	3092.1	14.68%
PQM-1(?)/cElegans-L3-ChIP-Seq(modEncode)/Homer	ACTGATAAGA	1e0	-0.000e+00	1.0000	651.0	15.26%	3818.3	18.13%
Sox3(HMG)/NPC-Sox3-ChIP-Seq(GSE33059)/Homer	CCWTTGTY	1e0	-0.000e+00	1.0000	1932.0	45.28%	10344.7	49.12%
NF1-halfsite(CTF)/LNCaP-NF1-ChIP-Seq(Unpublished)/Homer	YTGCCAAG	1e0	-0.000e+00	1.0000	1145.0	26.83%	6404.4	30.41%
Bcl6(Zf)/Liver-Bcl6-ChIP-Seq(GSE31578)/Homer	NNNCTTTCCAGGAAA	1e0	-0.000e+00	1.0000	981.0	22.99%	5565.6	26.43%
AR-halfsite(NR)/LNCaP-AR-ChIP-Seq(GSE27824)/Homer	CCAGGAACAG	1e0	-0.000e+00	1.0000	1988.0	46.59%	10647.1	50.55%
Smad3(MAD)/NPC-Smad3-ChIP-Seq(GSE36673)/Homer	TWGTCTGV	1e0	-0.000e+00	1.0000	1412.0	33.09%	7785.3	36.97%
PHA-4(Forkhead)/cElegans-Embryos-PHA4-ChIP-Seq(modEncode)/Homer	KTGTTTGC	1e0	-0.000e+00	1.0000	2882.0	67.54%	15005.9	71.25%
CEBP(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	ATTGCGCAAC	1e0	-0.000e+00	1.0000	1220.0	28.59%	6812.0	32.34%
SeqBias: CG bias	SSSSSSSSSS	1e0	-0.000e+00	1.0000	3430.0	80.38%	17583.7	83.49%
AMYB(HTH)/Testes-AMYB-ChIP-Seq(GSE44588)/Homer	TGGCAGTTGG	1e0	-0.000e+00	1.0000	1635.0	38.32%	8931.1	42.41%
Lhx1(Homeobox)/EmbryoCarcinoma-Lhx1-ChIP-Seq(GSE70957)/Homer	NNYTAATTAR	1e0	-0.000e+00	1.0000	1676.0	39.28%	9140.9	43.40%
Unknown5/Drosophila-Promoters/Homer	GCTGATAASV	1e0	-0.000e+00	1.0000	800.0	18.75%	4675.4	22.20%
STAT4(Stat)/CD4-Stat4-ChIP-Seq(GSE22104)/Homer	NYTTCCWGGAAR	1e0	-0.000e+00	1.0000	927.0	21.72%	5340.8	25.36%
Nkx3.1(Homeobox)/LNCaP-Nkx3.1-ChIP-Seq(GSE28264)/Homer	AAGCACTTAA	1e0	-0.000e+00	1.0000	1720.0	40.31%	9407.1	44.67%
HOXA9(Homeobox)/HSC-Hoxa9-ChIP-Seq(GSE33509)/Homer	GGCCATAAATCA	1e0	-0.000e+00	1.0000	962.0	22.55%	5564.1	26.42%
Tal1	CATCTG	1e0	-0.000e+00	1.0000	830.0	19.45%	4891.3	23.23%
Gata4(Zf)/Heart-Gata4-ChIP-Seq(GSE35151)/Homer	NBWGATAAGR	1e0	-0.000e+00	1.0000	1410.0	33.04%	7883.4	37.43%
SeqBias: GA-repeat	GAGAGAGAGA	1e0	-0.000e+00	1.0000	3626.0	84.98%	18551.3	88.09%
HOXB13(Homeobox)/ProstateTumor-HOXB13-ChIP-Seq(GSE56288)/Homer	TTTTATKRGG	1e0	-0.000e+00	1.0000	1603.0	37.57%	8877.1	42.15%
ELT-3(Gata)/cElegans-L1-ELT3-ChIP-Seq(modEncode)/Homer	AWTGATAAGA	1e0	-0.000e+00	1.0000	791.0	18.54%	4714.8	22.39%
GATA(Zf),IR3/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NNNNNBAGATAWYATCTVHN	1e0	-0.000e+00	1.0000	127.0	2.98%	1024.4	4.86%
GRHL2(CP2)/HBE-GRHL2-ChIP-Seq(GSE46194)/Homer	AAACYKGTTWDACMRGTTTB	1e0	-0.000e+00	1.0000	269.0	6.30%	1871.4	8.89%
Pdx1(Homeobox)/Islet-Pdx1-ChIP-Seq(SRA008281)/Homer	YCATYAATCA	1e0	-0.000e+00	1.0000	1277.0	29.93%	7248.1	34.42%
Tbx5(T-box)/HL1-Tbx5.biotin-ChIP-Seq(GSE21529)/Homer	AGGTGTCA	1e0	-0.000e+00	1.0000	2002.0	46.92%	10917.2	51.84%
Cdx2(Homeobox)/mES-Cdx2-ChIP-Seq(GSE14586)/Homer	GYMATAAAAH	1e0	-0.000e+00	1.0000	1193.0	27.96%	6850.3	32.53%
STAT6(Stat)/CD4-Stat6-ChIP-Seq(GSE22104)/Homer	ABTTCYYRRGAA	1e0	-0.000e+00	1.0000	598.0	14.01%	3724.0	17.68%
GSC(Homeobox)/FrogEmbryos-GSC-ChIP-Seq(DRA000576)/Homer	RGGATTAR	1e0	-0.000e+00	1.0000	1369.0	32.08%	7755.6	36.82%
Hoxc9(Homeobox)/Ainv15-Hoxc9-ChIP-Seq(GSE21812)/Homer	GGCCATAAATCA	1e0	-0.000e+00	1.0000	732.0	17.15%	4451.4	21.14%
caudal(Homeobox)/Drosophila-Embryos-ChIP-Chip(modEncode)/Homer	GGYCATAAAW	1e0	-0.000e+00	1.0000	1402.0	32.86%	7941.1	37.71%
Unknown4/Arabidopsis-Promoters/Homer	CKTCKTCTTY	1e0	-0.000e+00	1.0000	1278.0	29.95%	7312.2	34.72%
Bapx1(Homeobox)/VertebralCol-Bapx1-ChIP-Seq(GSE36672)/Homer	TTRAGTGSYK	1e0	-0.000e+00	1.0000	1463.0	34.29%	8259.4	39.22%
Phox2a(Homeobox)/Neuron-Phox2a-ChIP-Seq(GSE31456)/Homer	YTAATYNRATTA	1e0	-0.000e+00	1.0000	653.0	15.30%	4066.2	19.31%
Initiator/Drosophila-Promoters/Homer	NTCAGTYG	1e0	-0.000e+00	1.0000	1704.0	39.93%	9504.6	45.13%
Unknown(Homeobox)/Limb-p300-ChIP-Seq/Homer	SSCMATWAAA	1e0	-0.000e+00	1.0000	885.0	20.74%	5308.7	25.21%
CRX(Homeobox)/Retina-Crx-ChIP-Seq(GSE20012)/Homer	GCTAATCC	1e0	-0.000e+00	1.0000	2326.0	54.51%	12609.2	59.87%
LHY(Myb)/Seedling-LHY-ChIP-Seq(GSE52175)/Homer	ADAAATATCT	1e0	-0.000e+00	1.0000	1722.0	40.36%	9652.6	45.83%
TEAD(TEA)/Fibroblast-PU.1-ChIP-Seq(Unpublished)/Homer	YCWGGAATGY	1e0	-0.000e+00	1.0000	495.0	11.60%	3296.7	15.65%
MYB(HTH)/ERMYB-Myb-ChIPSeq(GSE22095)/Homer	GGCVGTTR	1e0	-0.000e+00	1.0000	2206.0	51.70%	12106.7	57.48%
Tcf3(HMG)/mES-Tcf3-ChIP-Seq(GSE11724)/Homer	ASWTCAAAGG	1e0	-0.000e+00	1.0000	243.0	5.69%	1865.1	8.86%
NFY(CCAAT)/Promoter/Homer	RGCCAATSRG	1e0	-0.000e+00	1.0000	938.0	21.98%	5737.7	27.24%
Isl1(Homeobox)/Neuron-Isl1-ChIP-Seq(GSE31456)/Homer	CTAATKGV	1e0	-0.000e+00	1.0000	2122.0	49.73%	11745.1	55.77%
LIN-39(Homeobox)/cElegans.L3-LIN39-ChIP-Seq(modEncode)/Homer	ATGATTRATG	1e0	-0.000e+00	1.0000	1837.0	43.05%	10343.9	49.12%
PABPC1(?)/MEL-PABC1-CLIP-Seq(GSE69755)/Homer	HAATAAAGNN	1e0	-0.000e+00	1.0000	2642.0	61.92%	14265.9	67.74%
HOXD13(Homeobox)/Chicken-Hoxd13-ChIP-Seq(GSE38910)/Homer	NCYAATAAAA	1e0	-0.000e+00	1.0000	1571.0	36.82%	9053.1	42.99%
CHR(?)/Hela-CellCycle-Expression/Homer	SRGTTTCAAA	1e0	0.000e+00	1.0000	846.0	19.83%	5791.9	27.50%
GATA3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATAASR	1e0	0.000e+00	1.0000	2021.0	47.36%	11418.9	54.22%
HNF6(Homeobox)/Liver-Hnf6-ChIP-Seq(ERP000394)/Homer	NTATYGATCH	1e0	0.000e+00	1.0000	1104.0	25.87%	6945.2	32.98%
Lhx3(Homeobox)/Neuron-Lhx3-ChIP-Seq(GSE31456)/Homer	ADBTAATTAR	1e0	0.000e+00	1.0000	2298.0	53.86%	12785.0	60.71%
Nanog(Homeobox)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	RGCCATTAAC	1e0	0.000e+00	1.0000	3229.0	75.67%	18430.2	87.51%
Nkx2.1(Homeobox)/LungAC-Nkx2.1-ChIP-Seq(GSE43252)/Homer	RSCACTYRAG	1e0	0.000e+00	1.0000	1879.0	44.04%	10752.0	51.05%
Nkx6.1(Homeobox)/Islet-Nkx6.1-ChIP-Seq(GSE40975)/Homer	GKTAATGR	1e0	0.000e+00	1.0000	3214.0	75.32%	17685.6	83.97%
Pitx1(Homeobox)/Chicken-Pitx1-ChIP-Seq(GSE38910)/Homer	TAATCCCN	1e0	0.000e+00	1.0000	3139.0	73.56%	18009.5	85.51%
SCL(bHLH)/HPC7-Scl-ChIP-Seq(GSE13511)/Homer	AVCAGCTG	1e0	0.000e+00	1.0000	2001.0	46.89%	12345.7	58.62%
Tgif1(Homeobox)/mES-Tgif1-ChIP-Seq(GSE55404)/Homer	YTGWCADY	1e0	0.000e+00	1.0000	2247.0	52.66%	12531.2	59.50%
Tgif2(Homeobox)/mES-Tgif2-ChIP-Seq(GSE55404)/Homer	TGTCANYT	1e0	0.000e+00	1.0000	2349.0	55.05%	12944.0	61.46%
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%	1.2	0.01%
SeqBias: CA-repeat	CACACACACA	1e0	0.000e+00	1.0000	3109.0	72.86%	16851.1	80.01%
SeqBias: polyC-repeat	CCCCCCCCCC	1e0	0.000e+00	1.0000	4205.0	98.55%	21022.1	99.82%
Unknown6/Drosophila-Promoters/Homer	AATTTTAAAA	1e0	0.000e+00	1.0000	1295.0	30.35%	7704.0	36.58%
KANADI1(Myb)/Seedling-KAN1-ChIP-Seq(GSE48081)/Homer	ARGAATAWWN	1e0	0.000e+00	1.0000	2095.0	49.10%	11678.6	55.45%
CES-1(Homeobox)/cElegans-L1-CES1-ChIP-Seq(modEncode)/Homer	AAATTSAATTTN	1e0	0.000e+00	1.0000	949.0	22.24%	5926.2	28.14%
EGL-5(Homeobox)/cElegans-L3-EGL5-ChIP-Seq(modEncode)/Homer	ATTTAATGGG	1e0	0.000e+00	1.0000	1907.0	44.69%	11059.4	52.51%