Motif Name	Consensus	P-value	Log P-value	q-value (Benjamini)	# of Target Sequences with Motif(of 2448)	% of Target Sequences with Motif	# of Background Sequences with Motif(of 2536)	% of Background Sequences with Motif
PABPC1(?)/MEL-PABC1-CLIP-Seq(GSE69755)/Homer	HAATAAAGNN	1e-11	-2.744e+01	0.0000	435.0	17.77%	274.1	10.81%
FoxL2(Forkhead)/Ovary-FoxL2-ChIP-Seq(GSE60858)/Homer	WWTRTAAACAVG	1e-8	-1.943e+01	0.0000	171.0	6.99%	85.8	3.39%
FOXA1(Forkhead)/MCF7-FOXA1-ChIP-Seq(GSE26831)/Homer	WAAGTAAACA	1e-8	-1.891e+01	0.0000	196.0	8.01%	105.2	4.15%
FOXA1(Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WAAGTAAACA	1e-7	-1.787e+01	0.0000	222.0	9.07%	128.0	5.05%
SeqBias: TA-repeat	TATATATATA	1e-7	-1.758e+01	0.0000	728.0	29.74%	580.6	22.91%
PHA-4(Forkhead)/cElegans-Embryos-PHA4-ChIP-Seq(modEncode)/Homer	KTGTTTGC	1e-7	-1.692e+01	0.0000	488.0	19.93%	360.5	14.22%
FOXM1(Forkhead)/MCF7-FOXM1-ChIP-Seq(GSE72977)/Homer	TRTTTACTTW	1e-5	-1.313e+01	0.0001	192.0	7.84%	119.0	4.70%
ZNF416(Zf)/HEK293-ZNF416.GFP-ChIP-Seq(GSE58341)/Homer	WDNCTGGGCA	1e-4	-1.117e+01	0.0007	172.0	7.03%	108.3	4.27%
Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq(GSE22178)/Homer	MAATCACTGC	1e-4	-9.605e+00	0.0029	105.0	4.29%	59.6	2.35%
Oct6(POU,Homeobox)/NPC-Oct6-ChIP-Seq(GSE35496)/Homer	WATGCAAATGAG	1e-4	-9.249e+00	0.0037	72.0	2.94%	35.6	1.41%
Brn1(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	TATGCWAATBAV	1e-3	-8.411e+00	0.0078	57.0	2.33%	26.0	1.03%
Rbpj1(?)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	HTTTCCCASG	1e-3	-8.207e+00	0.0088	151.0	6.17%	101.8	4.02%
Tcf4(HMG)/Hct116-Tcf4-ChIP-Seq(SRA012054)/Homer	ASATCAAAGGVA	1e-3	-7.661e+00	0.0140	59.0	2.41%	29.0	1.15%
PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	MGGAAGTGAAAC	1e-3	-7.644e+00	0.0140	139.0	5.68%	93.3	3.68%
GABPA(ETS)/Jurkat-GABPa-ChIP-Seq(GSE17954)/Homer	RACCGGAAGT	1e-3	-7.222e+00	0.0189	67.0	2.74%	36.8	1.45%
IBL1(bHLH)/Seedling-IBL1-ChIP-Seq(GSE51120)/Homer	CACGTGCC	1e-3	-7.132e+00	0.0193	146.0	5.96%	101.9	4.02%
Srebp2(bHLH)/HepG2-Srebp2-ChIP-Seq(GSE31477)/Homer	CGGTCACSCCAC	1e-3	-7.099e+00	0.0193	23.0	0.94%	7.0	0.28%
FOXA1:AR(Forkhead,NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	AGTAAACAAAAAAGAACAND	1e-3	-6.994e+00	0.0197	15.0	0.61%	2.4	0.09%
Foxo1(Forkhead)/RAW-Foxo1-ChIP-Seq(Fan_et_al.)/Homer	CTGTTTAC	1e-2	-6.902e+00	0.0205	204.0	8.33%	153.6	6.06%
ETV1(ETS)/GIST48-ETV1-ChIP-Seq(GSE22441)/Homer	AACCGGAAGT	1e-2	-6.752e+00	0.0226	98.0	4.00%	62.8	2.48%
Usf2(bHLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer	GTCACGTGGT	1e-2	-6.398e+00	0.0307	47.0	1.92%	23.9	0.94%
Unknown6/Drosophila-Promoters/Homer	AATTTTAAAA	1e-2	-6.317e+00	0.0318	150.0	6.13%	108.7	4.29%
PIF4(bHLH)/Seedling-PIF4-ChIP-Seq(GSE35315)/Homer	NNBCACGTGN	1e-2	-6.228e+00	0.0332	130.0	5.31%	91.4	3.61%
bHLHE40(bHLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer	KCACGTGMCN	1e-2	-6.105e+00	0.0360	32.0	1.31%	13.7	0.54%
IRF4(IRF)/GM12878-IRF4-ChIP-Seq(GSE32465)/Homer	ACTGAAACCA	1e-2	-6.065e+00	0.0360	54.0	2.21%	29.8	1.18%
PU.1:IRF8(ETS:IRF)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	GGAAGTGAAAST	1e-2	-5.914e+00	0.0402	27.0	1.10%	10.6	0.42%
E-box/Arabidopsis-Promoters/Homer	GCCACGTG	1e-2	-5.890e+00	0.0402	40.0	1.63%	19.3	0.76%
HIF-1b(HLH)/T47D-HIF1b-ChIP-Seq(GSE59937)/Homer	RTACGTGC	1e-2	-5.870e+00	0.0402	81.0	3.31%	51.1	2.02%
c-Myc(bHLH)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	VVCCACGTGG	1e-2	-5.855e+00	0.0402	52.0	2.12%	28.4	1.12%
Foxa2(Forkhead)/Liver-Foxa2-ChIP-Seq(GSE25694)/Homer	CYTGTTTACWYW	1e-2	-5.641e+00	0.0458	98.0	4.00%	66.9	2.64%
Oct4(POU,Homeobox)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAW	1e-2	-5.593e+00	0.0465	75.0	3.06%	47.3	1.87%
GATA:SCL(Zf,bHLH)/Ter119-SCL-ChIP-Seq(GSE18720)/Homer	CRGCTGBNGNSNNSAGATAA	1e-2	-5.230e+00	0.0647	12.0	0.49%	2.9	0.11%
Pho2(bHLH)/Yeast-Pho2-ChIP-Seq(GSE29506)/Homer	CCCACGTGCT	1e-2	-4.816e+00	0.0950	30.0	1.23%	14.8	0.58%
Bcl6(Zf)/Liver-Bcl6-ChIP-Seq(GSE31578)/Homer	NNNCTTTCCAGGAAA	1e-2	-4.767e+00	0.0969	119.0	4.86%	88.2	3.48%
FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer	NYYTGTTTACHN	1e-2	-4.761e+00	0.0969	57.0	2.33%	35.6	1.40%
AR-halfsite(NR)/LNCaP-AR-ChIP-Seq(GSE27824)/Homer	CCAGGAACAG	1e-2	-4.728e+00	0.0969	344.0	14.05%	298.2	11.77%
SeqBias: GA-repeat	GAGAGAGAGA	1e-2	-4.704e+00	0.0969	851.0	34.76%	800.0	31.57%
GAGA-repeat/SacCer-Promoters/Homer	CTYTCTYTCTCTCTC	1e-2	-4.669e+00	0.0969	514.0	21.00%	464.3	18.32%
Bapx1(Homeobox)/VertebralCol-Bapx1-ChIP-Seq(GSE36672)/Homer	TTRAGTGSYK	1e-2	-4.634e+00	0.0969	254.0	10.38%	213.4	8.42%
RUNX1(Runt)/Jurkat-RUNX1-ChIP-Seq(GSE29180)/Homer	AAACCACARM	1e-1	-4.559e+00	0.1013	94.0	3.84%	67.6	2.67%
Pho4(bHLH)/Yeast-Pho4-ChIP-Seq(GSE29506)/Homer	AAGCACGTGBGD	1e-1	-4.483e+00	0.1067	22.0	0.90%	9.0	0.36%
LXRE(NR),DR4/RAW-LXRb.biotin-ChIP-Seq(GSE21512)/Homer	RGGTTACTANAGGTCA	1e-1	-4.476e+00	0.1067	19.0	0.78%	7.5	0.29%
c-Myc(bHLH)/LNCAP-cMyc-ChIP-Seq(Unpublished)/Homer	VCCACGTG	1e-1	-4.449e+00	0.1067	33.0	1.35%	17.8	0.70%
SeqBias: polyC-repeat	CCCCCCCCCC	1e-1	-4.439e+00	0.1067	1956.0	79.90%	1957.8	77.25%
KLF5(Zf)/LoVo-KLF5-ChIP-Seq(GSE49402)/Homer	DGGGYGKGGC	1e-1	-4.420e+00	0.1067	91.0	3.72%	65.3	2.58%
EWS:FLI1-fusion(ETS)/SK_N_MC-EWS:FLI1-ChIP-Seq(SRA014231)/Homer	VACAGGAAAT	1e-1	-4.375e+00	0.1067	38.0	1.55%	21.7	0.86%
IRF2(IRF)/Erythroblas-IRF2-ChIP-Seq(GSE36985)/Homer	GAAASYGAAASY	1e-1	-4.366e+00	0.1067	14.0	0.57%	4.4	0.17%
Max(bHLH)/K562-Max-ChIP-Seq(GSE31477)/Homer	RCCACGTGGYYN	1e-1	-4.308e+00	0.1085	54.0	2.21%	34.6	1.36%
SeqBias: G/A bias	RRRRRRRRRR	1e-1	-4.295e+00	0.1085	2397.0	97.92%	2455.4	96.89%
n-Myc(bHLH)/mES-nMyc-ChIP-Seq(GSE11431)/Homer	VRCCACGTGG	1e-1	-4.255e+00	0.1099	55.0	2.25%	36.0	1.42%
CLOCK(bHLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer	GHCACGTG	1e-1	-4.223e+00	0.1112	50.0	2.04%	31.7	1.25%
CEBP:AP1(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	DRTGTTGCAA	1e-1	-4.170e+00	0.1150	84.0	3.43%	60.6	2.39%
RUNX-AML(Runt)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	GCTGTGGTTW	1e-1	-4.164e+00	0.1150	63.0	2.57%	42.6	1.68%
TATA-box/Drosophila-Promoters/Homer	CTATAAAAGCSV	1e-1	-4.100e+00	0.1187	10.0	0.41%	2.0	0.08%
RORgt(NR)/EL4-RORgt.Flag-ChIP-Seq(GSE56019)/Homer	AAYTAGGTCA	1e-1	-4.076e+00	0.1194	15.0	0.61%	5.8	0.23%
HIF-1a(bHLH)/MCF7-HIF1a-ChIP-Seq(GSE28352)/Homer	TACGTGCV	1e-1	-4.021e+00	0.1239	25.0	1.02%	12.3	0.49%
Stat3(Stat)/mES-Stat3-ChIP-Seq(GSE11431)/Homer	CTTCCGGGAA	1e-1	-3.928e+00	0.1336	39.0	1.59%	23.4	0.92%
BMAL1(bHLH)/Liver-Bmal1-ChIP-Seq(GSE39860)/Homer	GNCACGTG	1e-1	-3.840e+00	0.1434	168.0	6.86%	138.7	5.47%
ERG(ETS)/VCaP-ERG-ChIP-Seq(GSE14097)/Homer	ACAGGAAGTG	1e-1	-3.798e+00	0.1470	120.0	4.90%	95.0	3.75%
c-Jun-CRE(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	ATGACGTCATCY	1e-1	-3.790e+00	0.1470	36.0	1.47%	21.6	0.85%
Chop(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	ATTGCATCAT	1e-1	-3.789e+00	0.1470	27.0	1.10%	14.6	0.58%
LHY(Myb)/Seedling-LHY-ChIP-Seq(GSE52175)/Homer	ADAAATATCT	1e-1	-3.784e+00	0.1470	190.0	7.76%	159.3	6.29%
PRDM1(Zf)/Hela-PRDM1-ChIP-Seq(GSE31477)/Homer	ACTTTCACTTTC	1e-1	-3.730e+00	0.1474	54.0	2.21%	36.4	1.44%
Srebp1a(bHLH)/HepG2-Srebp1a-ChIP-Seq(GSE31477)/Homer	RTCACSCCAY	1e-1	-3.689e+00	0.1488	28.0	1.14%	15.7	0.62%
Atf4(bZIP)/MEF-Atf4-ChIP-Seq(GSE35681)/Homer	MTGATGCAAT	1e-1	-3.689e+00	0.1488	28.0	1.14%	15.4	0.61%
Mef2d(MADS)/Retina-Mef2d-ChIP-Seq(GSE61391)/Homer	GCTATTTTTAGC	1e-1	-3.675e+00	0.1488	24.0	0.98%	12.2	0.48%
LIN-39(Homeobox)/cElegans.L3-LIN39-ChIP-Seq(modEncode)/Homer	ATGATTRATG	1e-1	-3.635e+00	0.1524	192.0	7.84%	162.3	6.40%
Reverb(NR),DR2/RAW-Reverba.biotin-ChIP-Seq(GSE45914)/Homer	GTRGGTCASTGGGTCA	1e-1	-3.628e+00	0.1524	14.0	0.57%	5.0	0.20%
Cdx2(Homeobox)/mES-Cdx2-ChIP-Seq(GSE14586)/Homer	GYMATAAAAH	1e-1	-3.612e+00	0.1524	121.0	4.94%	96.2	3.79%
Tcf3(HMG)/mES-Tcf3-ChIP-Seq(GSE11724)/Homer	ASWTCAAAGG	1e-1	-3.467e+00	0.1725	26.0	1.06%	14.9	0.59%
VDR(NR),DR3/GM10855-VDR+vitD-ChIP-Seq(GSE22484)/Homer	ARAGGTCANWGAGTTCANNN	1e-1	-3.422e+00	0.1779	15.0	0.61%	6.5	0.26%
Etv2(ETS)/ES-ER71-ChIP-Seq(GSE59402)/Homer(0.967)	NNAYTTCCTGHN	1e-1	-3.413e+00	0.1779	71.0	2.90%	52.9	2.09%
GATA(Zf),IR3/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NNNNNBAGATAWYATCTVHN	1e-1	-3.366e+00	0.1830	32.0	1.31%	19.9	0.79%
IRF1(IRF)/PBMC-IRF1-ChIP-Seq(GSE43036)/Homer	GAAAGTGAAAGT	1e-1	-3.342e+00	0.1850	19.0	0.78%	9.6	0.38%
Oct2(POU,Homeobox)/Bcell-Oct2-ChIP-Seq(GSE21512)/Homer	ATATGCAAAT	1e-1	-3.317e+00	0.1871	51.0	2.08%	35.4	1.40%
E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer	GGCGGGAARN	1e-1	-3.300e+00	0.1878	33.0	1.35%	20.5	0.81%
Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer	SCCTAGCAACAG	1e-1	-3.156e+00	0.2141	25.0	1.02%	14.8	0.58%
CHR(?)/Hela-CellCycle-Expression/Homer	SRGTTTCAAA	1e-1	-3.095e+00	0.2246	76.0	3.10%	58.5	2.31%
Sox4(HMG)/proB-Sox4-ChIP-Seq(GSE50066)/Homer	YCTTTGTTCC	1e-1	-3.021e+00	0.2388	80.0	3.27%	62.8	2.48%
NF1:FOXA1(CTF,Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WNTGTTTRYTTTGGCA	1e-1	-2.866e+00	0.2753	6.0	0.25%	1.3	0.05%
HIF2a(bHLH)/785_O-HIF2a-ChIP-Seq(GSE34871)/Homer	GCACGTACCC	1e-1	-2.787e+00	0.2942	25.0	1.02%	15.2	0.60%
GATA3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATAASR	1e-1	-2.767e+00	0.2967	198.0	8.09%	175.7	6.93%
Pax7(Paired,Homeobox),longest/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	NTAATTDGCYAATTANNWWD	1e-1	-2.737e+00	0.3020	9.0	0.37%	4.0	0.16%
EHF(ETS)/LoVo-EHF-ChIP-Seq(GSE49402)/Homer	AVCAGGAAGT	1e-1	-2.661e+00	0.3220	109.0	4.45%	91.2	3.60%
NPAS2(bHLH)/Liver-NPAS2-ChIP-Seq(GSE39860)/Homer	KCCACGTGAC	1e-1	-2.617e+00	0.3325	98.0	4.00%	81.5	3.21%
RUNX2(Runt)/PCa-RUNX2-ChIP-Seq(GSE33889)/Homer	NWAACCACADNN	1e-1	-2.568e+00	0.3450	63.0	2.57%	49.5	1.95%
ZNF143|STAF(Zf)/CUTLL-ZNF143-ChIP-Seq(GSE29600)/Homer	ATTTCCCAGVAKSCY	1e-1	-2.567e+00	0.3450	29.0	1.18%	19.6	0.77%
ZNF467(Zf)/HEK293-ZNF467.GFP-ChIP-Seq(GSE58341)/Homer	TGGGGAAGGGCM	1e-1	-2.535e+00	0.3485	65.0	2.66%	51.8	2.05%
bZIP:IRF(bZIP,IRF)/Th17-BatF-ChIP-Seq(GSE39756)/Homer	NAGTTTCABTHTGACTNW	1e-1	-2.510e+00	0.3535	46.0	1.88%	34.4	1.36%
ISRE(IRF)/ThioMac-LPS-Expression(GSE23622)/Homer	AGTTTCASTTTC	1e-1	-2.508e+00	0.3535	7.0	0.29%	2.6	0.10%
X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	GGTTGCCATGGCAA	1e-1	-2.508e+00	0.3535	7.0	0.29%	2.2	0.09%
GSC(Homeobox)/FrogEmbryos-GSC-ChIP-Seq(DRA000576)/Homer	RGGATTAR	1e-1	-2.489e+00	0.3535	224.0	9.15%	203.6	8.03%
Mef2c(MADS)/GM12878-Mef2c-ChIP-Seq(GSE32465)/Homer	DCYAAAAATAGM	1e-1	-2.422e+00	0.3695	73.0	2.98%	59.9	2.36%
Ets1-distal(ETS)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	MACAGGAAGT	1e-1	-2.407e+00	0.3707	26.0	1.06%	17.7	0.70%
Erra(NR)/HepG2-Erra-ChIP-Seq(GSE31477)/Homer	CAAAGGTCAG	1e-1	-2.323e+00	0.3991	174.0	7.11%	156.0	6.16%
Unknown4/Drosophila-Promoters/Homer	AAAAATACCRMA	1e0	-2.284e+00	0.4107	29.0	1.18%	20.3	0.80%
Fox:Ebox(Forkhead,bHLH)/Panc1-Foxa2-ChIP-Seq(GSE47459)/Homer	NNNVCTGWGYAAACASN	1e0	-2.277e+00	0.4107	87.0	3.55%	73.3	2.89%
ELT-3(Gata)/cElegans-L1-ELT3-ChIP-Seq(modEncode)/Homer	AWTGATAAGA	1e0	-2.212e+00	0.4325	63.0	2.57%	51.8	2.04%
SeqBias: CA-repeat	CACACACACA	1e0	-2.148e+00	0.4563	549.0	22.43%	532.1	21.00%
Sox10(HMG)/SciaticNerve-Sox3-ChIP-Seq(GSE35132)/Homer	CCWTTGTYYB	1e0	-2.147e+00	0.4563	165.0	6.74%	150.0	5.92%
Pax8(Paired,Homeobox)/Thyroid-Pax8-ChIP-Seq(GSE26938)/Homer	GTCATGCHTGRCTGS	1e0	-2.121e+00	0.4593	26.0	1.06%	18.1	0.71%
RUNX(Runt)/HPC7-Runx1-ChIP-Seq(GSE22178)/Homer	SAAACCACAG	1e0	-2.079e+00	0.4743	47.0	1.92%	37.3	1.47%
KLF14(Zf)/HEK293-KLF14.GFP-ChIP-Seq(GSE58341)/Homer	RGKGGGCGKGGC	1e0	-2.061e+00	0.4786	125.0	5.11%	111.2	4.39%
Unknown(Homeobox)/Limb-p300-ChIP-Seq/Homer	SSCMATWAAA	1e0	-2.027e+00	0.4902	83.0	3.39%	71.7	2.83%
SeqBias: C/A-bias	MMMMMMMMMM	1e0	-2.012e+00	0.4929	2338.0	95.51%	2402.1	94.79%
Mouse_Recombination_Hotspot(Zf)/Testis-DMC1-ChIP-Seq(GSE24438)/Homer	ACTYKNATTCGTGNTACTTC	1e0	-2.001e+00	0.4938	10.0	0.41%	5.2	0.20%
DMRT1(DM)/Testis-DMRT1-ChIP-Seq(GSE64892)/Homer	TWGHWACAWTGTWDC	1e0	-2.000e+00	0.4938	30.0	1.23%	22.9	0.90%
EGL-5(Homeobox)/cElegans-L3-EGL5-ChIP-Seq(modEncode)/Homer	ATTTAATGGG	1e0	-1.980e+00	0.4947	209.0	8.54%	194.3	7.67%
Fli1(ETS)/CD8-FLI-ChIP-Seq(GSE20898)/Homer	NRYTTCCGGH	1e0	-1.869e+00	0.5478	66.0	2.70%	56.2	2.22%
caudal(Homeobox)/Drosophila-Embryos-ChIP-Chip(modEncode)/Homer	GGYCATAAAW	1e0	-1.849e+00	0.5535	124.0	5.07%	112.7	4.45%
AMYB(HTH)/Testes-AMYB-ChIP-Seq(GSE44588)/Homer	TGGCAGTTGG	1e0	-1.840e+00	0.5537	94.0	3.84%	83.1	3.28%
Pit1(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGMATATDC	1e0	-1.835e+00	0.5537	188.0	7.68%	175.5	6.92%
PAX5(Paired,Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GCAGCCAAGCRTGACH	1e0	-1.818e+00	0.5561	19.0	0.78%	13.8	0.55%
Atf7(bZIP)/3T3L1-Atf7-ChIP-Seq(GSE56872)/Homer	NGRTGACGTCAY	1e0	-1.784e+00	0.5700	58.0	2.37%	49.5	1.95%
Phox2a(Homeobox)/Neuron-Phox2a-ChIP-Seq(GSE31456)/Homer	YTAATYNRATTA	1e0	-1.776e+00	0.5700	59.0	2.41%	50.6	2.00%
STAT5(Stat)/mCD4+-Stat5-ChIP-Seq(GSE12346)/Homer	RTTTCTNAGAAA	1e0	-1.773e+00	0.5700	30.0	1.23%	23.9	0.94%
Meis1(Homeobox)/MastCells-Meis1-ChIP-Seq(GSE48085)/Homer	VGCTGWCAVB	1e0	-1.738e+00	0.5818	129.0	5.27%	118.8	4.69%
CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	AYAGTGCCMYCTRGTGGCCA	1e0	-1.733e+00	0.5818	4.0	0.16%	1.9	0.08%
NRF(NRF)/Promoter/Homer	STGCGCATGCGC	1e0	-1.733e+00	0.5818	4.0	0.16%	1.4	0.06%
MafF(bZIP)/HepG2-MafF-ChIP-Seq(GSE31477)/Homer	HWWGTCAGCAWWTTT	1e0	-1.720e+00	0.5818	33.0	1.35%	26.4	1.04%
CEBP:CEBP(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	NTNATGCAAYMNNHTGMAAY	1e0	-1.720e+00	0.5818	14.0	0.57%	10.0	0.39%
ELF5(ETS)/T47D-ELF5-ChIP-Seq(GSE30407)/Homer	ACVAGGAAGT	1e0	-1.690e+00	0.5856	51.0	2.08%	43.0	1.70%
Pdx1(Homeobox)/Islet-Pdx1-ChIP-Seq(SRA008281)/Homer	YCATYAATCA	1e0	-1.658e+00	0.5996	120.0	4.90%	110.4	4.36%
OCT4-SOX2-TCF-NANOG(POU,Homeobox,HMG)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAACAATG	1e0	-1.652e+00	0.5996	25.0	1.02%	19.2	0.76%
ZNF136(Zf)/HEK293-ZNF136.GFP-ChIP-Seq(GSE58341)/Homer	YTKGATAHAGTATTCTWGGTNGGCA	1e0	-1.644e+00	0.5996	9.0	0.37%	5.9	0.23%
Zfp809(Zf)/ES-Zfp809-ChIP-Seq(GSE70799)/Homer	GGGGCTYGKCTGGGA	1e0	-1.644e+00	0.5996	9.0	0.37%	5.3	0.21%
STAT1(Stat)/HelaS3-STAT1-ChIP-Seq(GSE12782)/Homer	NATTTCCNGGAAAT	1e0	-1.633e+00	0.5996	26.0	1.06%	20.1	0.79%
MafK(bZIP)/C2C12-MafK-ChIP-Seq(GSE36030)/Homer	GCTGASTCAGCA	1e0	-1.604e+00	0.6079	17.0	0.69%	12.6	0.50%
Mef2a(MADS)/HL1-Mef2a.biotin-ChIP-Seq(GSE21529)/Homer	CYAAAAATAG	1e0	-1.600e+00	0.6079	65.0	2.66%	57.3	2.26%
THRa(NR)/C17.2-THRa-ChIP-Seq(GSE38347)/Homer	GGTCANYTGAGGWCA	1e0	-1.583e+00	0.6112	45.0	1.84%	38.3	1.51%
HOXA2(Homeobox)/mES-Hoxa2-ChIP-Seq(Donaldson_et_al.)/Homer	GYCATCMATCAT	1e0	-1.578e+00	0.6112	10.0	0.41%	6.5	0.26%
AARE(HLH)/mES-cMyc-ChIP-Seq/Homer	GATTGCATCA	1e0	-1.549e+00	0.6230	5.0	0.20%	2.2	0.09%
HOXD13(Homeobox)/Chicken-Hoxd13-ChIP-Seq(GSE38910)/Homer	NCYAATAAAA	1e0	-1.528e+00	0.6316	163.0	6.66%	154.6	6.10%
Rfx1(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	KGTTGCCATGGCAA	1e0	-1.483e+00	0.6557	12.0	0.49%	8.6	0.34%
DMRT6(DM)/Testis-DMRT6-ChIP-Seq(GSE60440)/Homer	YDGHTACAWTGTADC	1e0	-1.439e+00	0.6801	25.0	1.02%	20.0	0.79%
PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer	ADGGYAGYAGCATCT	1e0	-1.425e+00	0.6841	26.0	1.06%	21.8	0.86%
HOXA9(Homeobox)/HSC-Hoxa9-ChIP-Seq(GSE33509)/Homer	GGCCATAAATCA	1e0	-1.423e+00	0.6841	84.0	3.43%	77.1	3.04%
ZNF528(Zf)/HEK293-ZNF528.GFP-ChIP-Seq(GSE58341)/Homer	AGAAATGACTTCCCT	1e0	-1.421e+00	0.6841	2.0	0.08%	0.0	0.00%
Pit1+1bp(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGCATAATTCA	1e0	-1.385e+00	0.6969	55.0	2.25%	49.1	1.94%
p63(p53)/Keratinocyte-p63-ChIP-Seq(GSE17611)/Homer	NNDRCATGYCYNRRCATGYH	1e0	-1.368e+00	0.7042	16.0	0.65%	12.8	0.50%
TCFL2(HMG)/K562-TCF7L2-ChIP-Seq(GSE29196)/Homer	ACWTCAAAGG	1e0	-1.366e+00	0.7042	7.0	0.29%	4.6	0.18%
Stat3+il21(Stat)/CD4-Stat3-ChIP-Seq(GSE19198)/Homer	SVYTTCCNGGAARB	1e0	-1.304e+00	0.7398	42.0	1.72%	37.0	1.46%
Sox6(HMG)/Myotubes-Sox6-ChIP-Seq(GSE32627)/Homer	CCATTGTTNY	1e0	-1.304e+00	0.7398	163.0	6.66%	157.4	6.21%
Unknown2/Drosophila-Promoters/Homer	CATCMCTA	1e0	-1.300e+00	0.7398	122.0	4.98%	116.7	4.61%
Fra1(bZIP)/BT549-Fra1-ChIP-Seq(GSE46166)/Homer	NNATGASTCATH	1e0	-1.295e+00	0.7398	44.0	1.80%	39.2	1.55%
ETS(ETS)/Promoter/Homer	AACCGGAAGT	1e0	-1.241e+00	0.7610	10.0	0.41%	7.1	0.28%
ERE(NR),IR3/MCF7-ERa-ChIP-Seq(Unpublished)/Homer	VAGGTCACNSTGACC	1e0	-1.241e+00	0.7610	10.0	0.41%	7.8	0.31%
Hoxc9(Homeobox)/Ainv15-Hoxc9-ChIP-Seq(GSE21812)/Homer	GGCCATAAATCA	1e0	-1.241e+00	0.7610	67.0	2.74%	62.5	2.47%
Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer	GCCACACCCA	1e0	-1.240e+00	0.7610	26.0	1.06%	23.0	0.91%
ETS1(ETS)/Jurkat-ETS1-ChIP-Seq(GSE17954)/Homer	ACAGGAAGTG	1e0	-1.236e+00	0.7610	71.0	2.90%	66.6	2.63%
STAT4(Stat)/CD4-Stat4-ChIP-Seq(GSE22104)/Homer	NYTTCCWGGAAR	1e0	-1.226e+00	0.7610	83.0	3.39%	78.8	3.11%
Bach2(bZIP)/OCILy7-Bach2-ChIP-Seq(GSE44420)/Homer	TGCTGAGTCA	1e0	-1.215e+00	0.7610	11.0	0.45%	8.4	0.33%
IRF:BATF(IRF:bZIP)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	CTTTCANTATGACTV	1e0	-1.215e+00	0.7610	11.0	0.45%	8.5	0.33%
Atf2(bZIP)/3T3L1-Atf2-ChIP-Seq(GSE56872)/Homer	NRRTGACGTCAT	1e0	-1.204e+00	0.7610	32.0	1.31%	28.4	1.12%
USF1(bHLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer	SGTCACGTGR	1e0	-1.191e+00	0.7610	35.0	1.43%	31.7	1.25%
SFP1/SacCer-Promoters/Homer	DDAAAAATTTTY	1e0	-1.161e+00	0.7766	14.0	0.57%	12.0	0.47%
SeqBias: CG bias	SSSSSSSSSS	1e0	-1.143e+00	0.7860	857.0	35.01%	870.9	34.36%
OCT:OCT(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	ATGAATATTCATGAG	1e0	-1.116e+00	0.8024	4.0	0.16%	2.6	0.10%
TOD6?/SacCer-Promoters/Homer	GCGATGAGMT	1e0	-1.083e+00	0.8244	24.0	0.98%	21.8	0.86%
Bach1(bZIP)/K562-Bach1-ChIP-Seq(GSE31477)/Homer	AWWNTGCTGAGTCAT	1e0	-1.066e+00	0.8331	5.0	0.20%	3.0	0.12%
SPCH(bHLH)/Seedling-SPCH-ChIP-Seq(GSE57497)/Homer	WNBCACGTGA	1e0	-1.051e+00	0.8406	88.0	3.59%	85.9	3.39%
MITF(bHLH)/MastCells-MITF-ChIP-Seq(GSE48085)/Homer	RTCATGTGAC	1e0	-1.050e+00	0.8406	86.0	3.51%	83.5	3.29%
JunD(bZIP)/K562-JunD-ChIP-Seq/Homer	ATGACGTCATCN	1e0	-1.033e+00	0.8406	6.0	0.25%	4.4	0.17%
PAX5(Paired,Homeobox),condensed/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GTCACGCTCSCTGM	1e0	-1.033e+00	0.8406	6.0	0.25%	4.5	0.18%
Pitx1(Homeobox)/Chicken-Pitx1-ChIP-Seq(GSE38910)/Homer	TAATCCCN	1e0	-1.012e+00	0.8527	589.0	24.06%	598.1	23.60%
Mef2b(MADS)/HEK293-Mef2b.V5-ChIP-Seq(GSE67450)/Homer	GCTATTTTTGGM	1e0	-9.945e-01	0.8624	112.0	4.58%	110.9	4.37%
ZNF317(Zf)/HEK293-ZNF317.GFP-ChIP-Seq(GSE58341)/Homer	GTCWGCTGTYYCTCT	1e0	-9.815e-01	0.8633	9.0	0.37%	7.5	0.30%
Pax7(Paired,Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCAATTA	1e0	-9.815e-01	0.8633	9.0	0.37%	7.2	0.28%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	AGGTCAAGGTCA	1e0	-9.715e-01	0.8668	10.0	0.41%	8.4	0.33%
PIF5ox(bHLH)/Arabidopsis-PIF5ox-ChIP-Seq(GSE35062)/Homer	BCACGTGVDN	1e0	-9.657e-01	0.8668	82.0	3.35%	80.3	3.17%
E2F1(E2F)/Hela-E2F1-ChIP-Seq(GSE22478)/Homer	CWGGCGGGAA	1e0	-9.635e-01	0.8668	11.0	0.45%	9.7	0.38%
Unknown1/Arabidopsis-Promoters/Homer	RGGGTAWWWTHGTAA	1e0	-9.570e-01	0.8668	12.0	0.49%	10.2	0.40%
NFAT:AP1(RHD,bZIP)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	SARTGGAAAAWRTGAGTCAB	1e0	-9.473e-01	0.8668	14.0	0.57%	12.8	0.50%
ZNF675(Zf)/HEK293-ZNF675.GFP-ChIP-Seq(GSE58341)/Homer	ARGAGGMCAAAATGW	1e0	-9.473e-01	0.8668	14.0	0.57%	12.4	0.49%
ZNF519(Zf)/HEK293-ZNF519.GFP-ChIP-Seq(GSE58341)/Homer	GAGSCCGAGC	1e0	-9.473e-01	0.8668	14.0	0.57%	12.1	0.48%
Tbx20(T-box)/Heart-Tbx20-ChIP-Seq(GSE29636)/Homer	GGTGYTGACAGS	1e0	-9.380e-01	0.8668	17.0	0.69%	15.0	0.59%
E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer	GGCGGGAAAH	1e0	-9.380e-01	0.8668	17.0	0.69%	15.9	0.63%
Hoxb4(Homeobox)/ES-Hoxb4-ChIP-Seq(GSE34014)/Homer	TGATTRATGGCY	1e0	-9.340e-01	0.8668	19.0	0.78%	17.6	0.69%
Unknown4/Arabidopsis-Promoters/Homer	CKTCKTCTTY	1e0	-8.832e-01	0.8939	78.0	3.19%	77.9	3.08%
Lhx1(Homeobox)/EmbryoCarcinoma-Lhx1-ChIP-Seq(GSE70957)/Homer	NNYTAATTAR	1e0	-8.661e-01	0.9043	157.0	6.41%	158.3	6.25%
Gata4(Zf)/Heart-Gata4-ChIP-Seq(GSE35151)/Homer	NBWGATAAGR	1e0	-8.609e-01	0.9043	111.0	4.53%	111.4	4.39%
AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	VTGACTCATC	1e0	-8.528e-01	0.9063	57.0	2.33%	56.1	2.21%
Nkx3.1(Homeobox)/LNCaP-Nkx3.1-ChIP-Seq(GSE28264)/Homer	AAGCACTTAA	1e0	-8.526e-01	0.9063	223.0	9.11%	227.0	8.96%
ZBTB18(Zf)/HEK293-ZBTB18.GFP-ChIP-Seq(GSE58341)/Homer	AACATCTGGA	1e0	-8.017e-01	0.9434	28.0	1.14%	27.5	1.09%
SpiB(ETS)/OCILY3-SPIB-ChIP-Seq(GSE56857)/Homer	AAAGRGGAAGTG	1e0	-7.764e-01	0.9624	17.0	0.69%	16.4	0.65%
Klf9(Zf)/GBM-Klf9-ChIP-Seq(GSE62211)/Homer	GCCACRCCCACY	1e0	-7.737e-01	0.9624	16.0	0.65%	15.5	0.61%
Jun-AP1(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	GATGASTCATCN	1e0	-7.653e-01	0.9627	13.0	0.53%	12.9	0.51%
ZNF322(Zf)/HEK293-ZNF322.GFP-ChIP-Seq(GSE58341)/Homer	GAGCCTGGTACTGWGCCTGR	1e0	-7.526e-01	0.9627	9.0	0.37%	8.7	0.35%
GATA3(Zf),DR8/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATSTNDNNDSAGATAASN	1e0	-7.526e-01	0.9627	9.0	0.37%	8.6	0.34%
Egr2(Zf)/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer	NGCGTGGGCGGR	1e0	-7.526e-01	0.9627	9.0	0.37%	8.7	0.34%
RBFox2(?)/Heart-RBFox2-CLIP-Seq(GSE57926)/Homer	TGCATGCA	1e0	-7.435e-01	0.9634	206.0	8.42%	211.5	8.35%
ABF1/SacCer-Promoters/Homer	CGTRNAAARTGA	1e0	-7.410e-01	0.9634	6.0	0.25%	5.5	0.22%
FHY3(FAR1)/Arabidopsis-FHY3-ChIP-Seq(GSE30711)/Homer	HHCACGCGCBTN	1e0	-7.410e-01	0.9634	6.0	0.25%	5.6	0.22%
ZNF382(Zf)/HEK293-ZNF382.GFP-ChIP-Seq(GSE58341)/Homer	GNCTGTASTRNTGBCTCHTT	1e0	-7.410e-01	0.9634	6.0	0.25%	5.8	0.23%
Atf1(bZIP)/K562-ATF1-ChIP-Seq(GSE31477)/Homer	GATGACGTCA	1e0	-7.279e-01	0.9634	72.0	2.94%	73.0	2.88%
PU.1(ETS)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	AGAGGAAGTG	1e0	-7.108e-01	0.9700	34.0	1.39%	34.5	1.36%
EBNA1(EBV-virus)/Raji-EBNA1-ChIP-Seq(GSE30709)/Homer	GGYAGCAYDTGCTDCCCNNN	1e0	-7.106e-01	0.9700	1.0	0.04%	0.0	0.00%
p53(p53)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	ACATGCCCGGGCAT	1e0	-7.106e-01	0.9700	1.0	0.04%	0.7	0.03%
GEI-11(Myb?)/cElegans-L4-GEI11-ChIP-Seq(modEncode)/Homer	CCGACAYYTYACGGG	1e0	-7.106e-01	0.9700	1.0	0.04%	0.0	0.00%
EFL-1(E2F)/cElegans-L1-EFL1-ChIP-Seq(modEncode)/Homer	TGCAARYGCGCTCYA	1e0	-7.106e-01	0.9700	1.0	0.04%	0.5	0.02%
RFX(HTH)/K562-RFX3-ChIP-Seq(SRA012198)/Homer	CGGTTGCCATGGCAAC	1e0	-7.106e-01	0.9700	1.0	0.04%	0.5	0.02%
ZNF41(Zf)/HEK293-ZNF41.GFP-ChIP-Seq(GSE58341)/Homer	CCTCATGGTGYCYTWYTCCCTTGTG	1e0	-7.106e-01	0.9700	1.0	0.04%	0.8	0.03%
Atf3(bZIP)/GBM-ATF3-ChIP-Seq(GSE33912)/Homer	DATGASTCATHN	1e0	-6.732e-01	0.9724	50.0	2.04%	51.8	2.04%
HNF4a(NR),DR1/HepG2-HNF4a-ChIP-Seq(GSE25021)/Homer	CARRGKBCAAAGTYCA	1e0	-6.555e-01	0.9801	20.0	0.82%	20.4	0.80%
PGR(NR)/EndoStromal-PGR-ChIP-Seq(GSE69539)/Homer	AAGAACATWHTGTTC	1e0	-6.555e-01	0.9801	20.0	0.82%	20.8	0.82%
KLF10(Zf)/HEK293-KLF10.GFP-ChIP-Seq(GSE58341)/Homer	GGGGGTGTGTCC	1e0	-6.447e-01	0.9859	18.0	0.74%	18.7	0.74%
Gata2(Zf)/K562-GATA2-ChIP-Seq(GSE18829)/Homer	BBCTTATCTS	1e0	-6.386e-01	0.9871	63.0	2.57%	65.6	2.59%
SPDEF(ETS)/VCaP-SPDEF-ChIP-Seq(SRA014231)/Homer	ASWTCCTGBT	1e0	-6.245e-01	0.9964	58.0	2.37%	60.2	2.38%
Lhx2(Homeobox)/HFSC-Lhx2-ChIP-Seq(GSE48068)/Homer	TAATTAGN	1e0	-6.192e-01	0.9969	152.0	6.21%	158.8	6.27%
Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo_et_al.)/Homer	TBGCACGCAA	1e0	-6.185e-01	0.9969	34.0	1.39%	35.4	1.40%
Sox3(HMG)/NPC-Sox3-ChIP-Seq(GSE33059)/Homer	CCWTTGTY	1e0	-5.982e-01	1.0000	164.0	6.70%	172.0	6.79%
Dorsal(RHD)/Embryo-dl-ChIP-Seq(GSE65441)/Homer	GGGAAAAMCCCG	1e0	-5.941e-01	1.0000	11.0	0.45%	11.3	0.45%
GRE(NR),IR3/RAW264.7-GRE-ChIP-Seq(Unpublished)/Homer	VAGRACAKWCTGTYC	1e0	-5.941e-01	1.0000	11.0	0.45%	11.9	0.47%
Zic(Zf)/Cerebellum-ZIC1.2-ChIP-Seq(GSE60731)/Homer	CCTGCTGAGH	1e0	-5.783e-01	1.0000	44.0	1.80%	46.5	1.83%
EWS:ERG-fusion(ETS)/CADO_ES1-EWS:ERG-ChIP-Seq(SRA014231)/Homer	ATTTCCTGTN	1e0	-5.564e-01	1.0000	57.0	2.33%	60.4	2.38%
Sp1(Zf)/Promoter/Homer	GGCCCCGCCCCC	1e0	-5.459e-01	1.0000	7.0	0.29%	7.5	0.30%
Esrrb(NR)/mES-Esrrb-ChIP-Seq(GSE11431)/Homer	KTGACCTTGA	1e0	-5.408e-01	1.0000	35.0	1.43%	37.0	1.46%
Zelda(Zf)/Embryo-zld-ChIP-Seq(GSE65441)/Homer	KBCTACCTGW	1e0	-5.361e-01	1.0000	34.0	1.39%	36.5	1.44%
PAX6(Paired,Homeobox)/Forebrain-Pax6-ChIP-Seq(GSE66961)/Homer	NGTGTTCAVTSAAGCGKAAA	1e0	-5.287e-01	1.0000	6.0	0.25%	6.0	0.24%
EBF1(EBF)/Near-E2A-ChIP-Seq(GSE21512)/Homer	GTCCCCWGGGGA	1e0	-5.229e-01	1.0000	65.0	2.66%	69.9	2.76%
Pax7(Paired,Homeobox),long/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCHGATTAC	1e0	-5.079e-01	1.0000	5.0	0.20%	5.6	0.22%
Tcfcp2l1(CP2)/mES-Tcfcp2l1-ChIP-Seq(GSE11431)/Homer	NRAACCRGTTYRAACCRGYT	1e0	-5.079e-01	1.0000	5.0	0.20%	5.9	0.23%
Sox15(HMG)/CPA-Sox15-ChIP-Seq(GSE62909)/Homer	RAACAATGGN	1e0	-5.024e-01	1.0000	113.0	4.62%	120.3	4.75%
Sox2(HMG)/mES-Sox2-ChIP-Seq(GSE11431)/Homer	BCCATTGTTC	1e0	-4.968e-01	1.0000	74.0	3.02%	79.1	3.12%
Brn2(POU,Homeobox)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATATTC	1e0	-4.850e-01	1.0000	13.0	0.53%	14.1	0.56%
ETS:E-box(ETS,bHLH)/HPC7-Scl-ChIP-Seq(GSE22178)/Homer	AGGAARCAGCTG	1e0	-4.816e-01	1.0000	4.0	0.16%	4.8	0.19%
Olig2(bHLH)/Neuron-Olig2-ChIP-Seq(GSE30882)/Homer	RCCATMTGTT	1e0	-4.750e-01	1.0000	157.0	6.41%	168.0	6.63%
ARE(NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	RGRACASNSTGTYCYB	1e0	-4.738e-01	1.0000	12.0	0.49%	13.7	0.54%
BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer	DATGASTCAT	1e0	-4.671e-01	1.0000	49.0	2.00%	53.8	2.12%
Tbx5(T-box)/HL1-Tbx5.biotin-ChIP-Seq(GSE21529)/Homer	AGGTGTCA	1e0	-4.622e-01	1.0000	292.0	11.93%	309.8	12.22%
SOC1(MADS)/Seedling-SOC1-ChIP-Seq(GSE45846)/Homer	TWCCAWWTWTGG	1e0	-4.574e-01	1.0000	33.0	1.35%	36.3	1.43%
EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer	NWGGGTGTGGCY	1e0	-4.479e-01	1.0000	10.0	0.41%	11.1	0.44%
EBF(EBF)/proBcell-EBF-ChIP-Seq(GSE21978)/Homer	DGTCCCYRGGGA	1e0	-4.479e-01	1.0000	10.0	0.41%	11.7	0.46%
Fosl2(bZIP)/3T3L1-Fosl2-ChIP-Seq(GSE56872)/Homer	NATGASTCABNN	1e0	-4.423e-01	1.0000	19.0	0.78%	22.0	0.87%
Unknown3/Arabidopsis-Promoters/Homer	AYTAAACCGG	1e0	-4.329e-01	1.0000	9.0	0.37%	10.6	0.42%
STAT6(Stat)/Macrophage-Stat6-ChIP-Seq(GSE38377)/Homer	TTCCKNAGAA	1e0	-4.196e-01	1.0000	51.0	2.08%	56.9	2.25%
PQM-1(?)/cElegans-L3-ChIP-Seq(modEncode)/Homer	ACTGATAAGA	1e0	-4.185e-01	1.0000	38.0	1.55%	42.7	1.68%
SeqBias: GCW-triplet	GCWGCWGCWGCW	1e0	-4.085e-01	1.0000	2301.0	94.00%	2388.6	94.25%
OCT:OCT(POU,Homeobox,IR1)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATWATTCATGA	1e0	-3.938e-01	1.0000	2.0	0.08%	2.3	0.09%
Cbf1(bHLH)/Yeast-Cbf1-ChIP-Seq(GSE29506)/Homer	TCACGTGAYH	1e0	-3.865e-01	1.0000	22.0	0.90%	25.2	0.99%
TATA-box/SacCer-Promoters/Homer	BBHWTATATA	1e0	-3.638e-01	1.0000	102.0	4.17%	112.5	4.44%
Tgif1(Homeobox)/mES-Tgif1-ChIP-Seq(GSE55404)/Homer	YTGWCADY	1e0	-3.570e-01	1.0000	282.0	11.52%	303.4	11.97%
Pknox1(Homeobox)/ES-Prep1-ChIP-Seq(GSE63282)/Homer	SCTGTCAVTCAV	1e0	-3.554e-01	1.0000	11.0	0.45%	13.6	0.54%
GATA3(Zf),DR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATGKDGAGATAAG	1e0	-3.481e-01	1.0000	5.0	0.20%	6.8	0.27%
MYB(HTH)/ERMYB-Myb-ChIPSeq(GSE22095)/Homer	GGCVGTTR	1e0	-3.402e-01	1.0000	106.0	4.33%	117.2	4.62%
SeqBias: CG-repeat	CGCGCGCGCG	1e0	-3.360e-01	1.0000	54.0	2.21%	61.2	2.41%
SUT1?/SacCer-Promoters/Homer	CCCCGCGC	1e0	-3.326e-01	1.0000	537.0	21.94%	572.8	22.60%
STAT6(Stat)/CD4-Stat6-ChIP-Seq(GSE22104)/Homer	ABTTCYYRRGAA	1e0	-3.321e-01	1.0000	53.0	2.17%	60.0	2.37%
ZBTB12(Zf)/HEK293-ZBTB12.GFP-ChIP-Seq(GSE58341)/Homer	NGNTCTAGAACCNGV	1e0	-3.229e-01	1.0000	31.0	1.27%	36.5	1.44%
GRE(NR),IR3/A549-GR-ChIP-Seq(GSE32465)/Homer	NRGVACABNVTGTYCY	1e0	-3.161e-01	1.0000	4.0	0.16%	5.7	0.23%
RBPJ:Ebox(?,bHLH)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	GGGRAARRGRMCAGMTG	1e0	-3.106e-01	1.0000	21.0	0.86%	25.3	1.00%
NeuroD1(bHLH)/Islet-NeuroD1-ChIP-Seq(GSE30298)/Homer	GCCATCTGTT	1e0	-3.077e-01	1.0000	47.0	1.92%	55.0	2.17%
E-box/Drosophila-Promoters/Homer	AACAGCTGTTHN	1e0	-3.060e-01	1.0000	8.0	0.33%	10.3	0.40%
HLH-1(bHLH)/cElegans-Embryo-HLH1-ChIP-Seq(modEncode)/Homer	RACAGCTGTTBH	1e0	-3.058e-01	1.0000	37.0	1.51%	43.7	1.72%
NF1(CTF)/LNCAP-NF1-ChIP-Seq(Unpublished)/Homer	CYTGGCABNSTGCCAR	1e0	-3.022e-01	1.0000	20.0	0.82%	24.9	0.98%
Unknown-ESC-element(?)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	CACAGCAGGGGG	1e0	-2.975e-01	1.0000	27.0	1.10%	32.9	1.30%
RLR1?/SacCer-Promoters/Homer	WTTTTCYYTTTT	1e0	-2.873e-01	1.0000	73.0	2.98%	84.0	3.31%
Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer	GGGGGGGG	1e0	-2.873e-01	1.0000	73.0	2.98%	83.6	3.30%
GLI3(Zf)/Limb-GLI3-ChIP-Chip(GSE11077)/Homer	CGTGGGTGGTCC	1e0	-2.857e-01	1.0000	7.0	0.29%	9.8	0.39%
Nr5a2(NR)/mES-Nr5a2-ChIP-Seq(GSE19019)/Homer	BTCAAGGTCA	1e0	-2.837e-01	1.0000	25.0	1.02%	30.6	1.21%
YY1(Zf)/Promoter/Homer	CAAGATGGCGGC	1e0	-2.755e-01	1.0000	3.0	0.12%	4.5	0.18%
E-box(bHLH)/Promoter/Homer	SSGGTCACGTGA	1e0	-2.755e-01	1.0000	3.0	0.12%	5.0	0.20%
PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer	GSCTGTCACTCA	1e0	-2.755e-01	1.0000	3.0	0.12%	4.9	0.20%
BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer	CNNBRGCGCCCCCTGSTGGC	1e0	-2.628e-01	1.0000	6.0	0.25%	8.6	0.34%
GRHL2(CP2)/HBE-GRHL2-ChIP-Seq(GSE46194)/Homer	AAACYKGTTWDACMRGTTTB	1e0	-2.613e-01	1.0000	22.0	0.90%	27.1	1.07%
CEBP(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	ATTGCGCAAC	1e0	-2.595e-01	1.0000	64.0	2.61%	74.9	2.95%
Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer	HACTTCCGGY	1e0	-2.538e-01	1.0000	15.0	0.61%	19.7	0.78%
Brachyury(T-box)/Mesoendoderm-Brachyury-ChIP-exo(GSE54963)/Homer	ANTTMRCASBNNNGTGYKAAN	1e0	-2.538e-01	1.0000	15.0	0.61%	19.3	0.76%
Six1(Homeobox)/Myoblast-Six1-ChIP-Chip(GSE20150)/Homer	GKVTCADRTTWC	1e0	-2.533e-01	1.0000	21.0	0.86%	26.4	1.04%
HOXB13(Homeobox)/ProstateTumor-HOXB13-ChIP-Seq(GSE56288)/Homer	TTTTATKRGG	1e0	-2.522e-01	1.0000	129.0	5.27%	145.2	5.73%
ZNF711(Zf)/SHSY5Y-ZNF711-ChIP-Seq(GSE20673)/Homer	AGGCCTAG	1e0	-2.448e-01	1.0000	125.0	5.11%	141.3	5.58%
HRE(HSF)/HepG2-HSF1-ChIP-Seq(GSE31477)/Homer	BSTTCTRGAABVTTCYAGAA	1e0	-2.366e-01	1.0000	5.0	0.20%	7.7	0.30%
Nr5a2(NR)/Pancreas-LRH1-ChIP-Seq(GSE34295)/Homer	BTCAAGGTCA	1e0	-2.347e-01	1.0000	32.0	1.31%	40.0	1.58%
Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer	NRYTTCCGGY	1e0	-2.309e-01	1.0000	13.0	0.53%	17.4	0.69%
Tal1	CATCTG	1e0	-2.265e-01	1.0000	127.0	5.19%	144.6	5.71%
ZNF165(Zf)/WHIM12-ZNF165-ChIP-Seq(GSE65937)/Homer	AAGGKGRCGCAGGCA	1e0	-2.229e-01	1.0000	8.0	0.33%	11.2	0.44%
ELF1(ETS)/Jurkat-ELF1-ChIP-Seq(SRA014231)/Homer	AVCCGGAAGT	1e0	-2.087e-01	1.0000	16.0	0.65%	21.1	0.83%
ZNF669(Zf)/HEK293-ZNF669.GFP-ChIP-Seq(GSE58341)/Homer	GARTGGTCATCGCCC	1e0	-2.060e-01	1.0000	4.0	0.16%	6.8	0.27%
Nur77(NR)/K562-NR4A1-ChIP-Seq(GSE31363)/Homer	TGACCTTTNCNT	1e0	-2.037e-01	1.0000	7.0	0.29%	10.3	0.41%
PPARE(NR),DR1/3T3L1-Pparg-ChIP-Seq(GSE13511)/Homer	TGACCTTTGCCCCA	1e0	-2.033e-01	1.0000	48.0	1.96%	58.1	2.29%
CRX(Homeobox)/Retina-Crx-ChIP-Seq(GSE20012)/Homer	GCTAATCC	1e0	-1.986e-01	1.0000	325.0	13.28%	358.7	14.16%
ZNF692(Zf)/HEK293-ZNF692.GFP-ChIP-Seq(GSE58341)/Homer	GTGGGCCCCA	1e0	-1.914e-01	1.0000	10.0	0.41%	14.1	0.56%
PAX3:FKHR-fusion(Paired,Homeobox)/Rh4-PAX3:FKHR-ChIP-Seq(GSE19063)/Homer	ACCRTGACTAATTNN	1e0	-1.882e-01	1.0000	14.0	0.57%	19.7	0.78%
PR(NR)/T47D-PR-ChIP-Seq(GSE31130)/Homer	VAGRACAKNCTGTBC	1e0	-1.838e-01	1.0000	159.0	6.50%	182.0	7.18%
CES-1(Homeobox)/cElegans-L1-CES1-ChIP-Seq(modEncode)/Homer	AAATTSAATTTN	1e0	-1.762e-01	1.0000	64.0	2.61%	77.3	3.05%
GAGA-repeat/Arabidopsis-Promoters/Homer	CTCTCTCTCY	1e0	-1.738e-01	1.0000	99.0	4.04%	117.0	4.62%
GFY-Staf(?,Zf)/Promoter/Homer	RACTACAATTCCCAGAAKGC	1e0	-1.695e-01	1.0000	3.0	0.12%	5.9	0.23%
NF-E2(bZIP)/K562-NFE2-ChIP-Seq(GSE31477)/Homer	GATGACTCAGCA	1e0	-1.695e-01	1.0000	3.0	0.12%	5.2	0.20%
Nrf2(bZIP)/Lymphoblast-Nrf2-ChIP-Seq(GSE37589)/Homer	HTGCTGAGTCAT	1e0	-1.695e-01	1.0000	3.0	0.12%	5.2	0.20%
NFkB-p50,p52(RHD)/Monocyte-p50-ChIP-Chip(Schreiber_et_al.)/Homer	GGGGGAATCCCC	1e0	-1.592e-01	1.0000	5.0	0.20%	8.9	0.35%
HRE(HSF)/Striatum-HSF1-ChIP-Seq(GSE38000)/Homer	TTCTAGAABNTTCTA	1e0	-1.539e-01	1.0000	11.0	0.45%	16.5	0.65%
SeqBias: A/T bias	WWWWWWWWWW	1e0	-1.515e-01	1.0000	1855.0	75.78%	1952.7	77.05%
AP-2gamma(AP2)/MCF7-TFAP2C-ChIP-Seq(GSE21234)/Homer	SCCTSAGGSCAW	1e0	-1.466e-01	1.0000	54.0	2.21%	67.2	2.65%
Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer	GTTGCCATGGCAACM	1e0	-1.410e-01	1.0000	1.0	0.04%	2.8	0.11%
T1ISRE(IRF)/ThioMac-Ifnb-Expression/Homer	ACTTTCGTTTCT	1e0	-1.410e-01	1.0000	1.0	0.04%	2.1	0.08%
Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer	BAACAGCTGT	1e0	-1.273e-01	1.0000	25.0	1.02%	34.5	1.36%
ETS:RUNX(ETS,Runt)/Jurkat-RUNX1-ChIP-Seq(GSE17954)/Homer	RCAGGATGTGGT	1e0	-1.250e-01	1.0000	2.0	0.08%	4.2	0.17%
RARg(NR)/ES-RARg-ChIP-Seq(GSE30538)/Homer	AGGTCAAGGTCA	1e0	-1.250e-01	1.0000	2.0	0.08%	4.7	0.19%
p53(p53)/Saos-p53-ChIP-Seq/Homer	RRCATGYCYRGRCATGYYYN	1e0	-1.250e-01	1.0000	2.0	0.08%	4.9	0.19%
p53(p53)/Saos-p53-ChIP-Seq(GSE15780)/Homer	RRCATGYCYRGRCATGYYYN	1e0	-1.250e-01	1.0000	2.0	0.08%	4.9	0.19%
Nanog(Homeobox)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	RGCCATTAAC	1e0	-1.212e-01	1.0000	486.0	19.85%	538.0	21.23%
Unknown1(NR/Ini-like)/Drosophila-Promoters/Homer	MYGGTCACACTG	1e0	-1.146e-01	1.0000	8.0	0.33%	13.8	0.54%
REB1/SacCer-Promoters/Homer	KCCGGGTAAYRR	1e0	-1.059e-01	1.0000	5.0	0.20%	9.4	0.37%
Nkx6.1(Homeobox)/Islet-Nkx6.1-ChIP-Seq(GSE40975)/Homer	GKTAATGR	1e0	-1.008e-01	1.0000	382.0	15.60%	429.5	16.95%
Atoh1(bHLH)/Cerebellum-Atoh1-ChIP-Seq(GSE22111)/Homer	VNRVCAGCTGGY	1e0	-8.860e-02	1.0000	65.0	2.66%	83.1	3.28%
GATA(Zf),IR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NAGATWNBNATCTNN	1e0	-8.520e-02	1.0000	6.0	0.25%	11.0	0.43%
Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer	TGCGTGGGYG	1e0	-8.069e-02	1.0000	29.0	1.18%	41.5	1.64%
SeqBias: polyA-repeat	AAAAAAAAAA	1e0	-7.939e-02	1.0000	2256.0	92.16%	2361.1	93.17%
TR4(NR),DR1/Hela-TR4-ChIP-Seq(GSE24685)/Homer	GAGGTCAAAGGTCA	1e0	-7.066e-02	1.0000	2.0	0.08%	5.1	0.20%
E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer	VDTTTCCCGCCA	1e0	-7.066e-02	1.0000	2.0	0.08%	5.0	0.20%
ZSCAN22(Zf)/HEK293-ZSCAN22.GFP-ChIP-Seq(GSE58341)/Homer	SMCAGTCWGAKGGAGGAGGC	1e0	-6.919e-02	1.0000	1.0	0.04%	3.8	0.15%
Lhx3(Homeobox)/Neuron-Lhx3-ChIP-Seq(GSE31456)/Homer	ADBTAATTAR	1e0	-6.689e-02	1.0000	202.0	8.25%	239.3	9.44%
PRDM14(Zf)/H1-PRDM14-ChIP-Seq(GSE22767)/Homer	RGGTCTCTAACY	1e0	-5.652e-02	1.0000	16.0	0.65%	26.7	1.05%
Unknown5/Drosophila-Promoters/Homer	GCTGATAASV	1e0	-5.448e-02	1.0000	34.0	1.39%	49.7	1.96%
AP-2alpha(AP2)/Hela-AP2alpha-ChIP-Seq(GSE31477)/Homer	ATGCCCTGAGGC	1e0	-5.344e-02	1.0000	38.0	1.55%	54.1	2.13%
Gata1(Zf)/K562-GATA1-ChIP-Seq(GSE18829)/Homer	SAGATAAGRV	1e0	-4.857e-02	1.0000	45.0	1.84%	63.1	2.49%
BMYB(HTH)/Hela-BMYB-ChIP-Seq(GSE27030)/Homer	NHAACBGYYV	1e0	-4.542e-02	1.0000	87.0	3.55%	113.8	4.49%
ZNF189(Zf)/HEK293-ZNF189.GFP-ChIP-Seq(GSE58341)/Homer	TGGAACAGMA	1e0	-4.528e-02	1.0000	48.0	1.96%	67.3	2.65%
Sox9(HMG)/Limb-SOX9-ChIP-Seq(GSE73225)/Homer	AGGVNCCTTTGT	1e0	-4.380e-02	1.0000	52.0	2.12%	72.7	2.87%
HEB(bHLH)/mES-Heb-ChIP-Seq(GSE53233)/Homer	VCAGCTGBNN	1e0	-4.067e-02	1.0000	129.0	5.27%	162.4	6.41%
NFkB-p65(RHD)/GM12787-p65-ChIP-Seq(GSE19485)/Homer	WGGGGATTTCCC	1e0	-3.948e-02	1.0000	32.0	1.31%	48.3	1.91%
CRE(bZIP)/Promoter/Homer	CSGTGACGTCAC	1e0	-3.889e-02	1.0000	8.0	0.33%	16.5	0.65%
Tcf12(bHLH)/GM12878-Tcf12-ChIP-Seq(GSE32465)/Homer	VCAGCTGYTG	1e0	-3.840e-02	1.0000	44.0	1.80%	63.3	2.50%
MyoD(bHLH)/Myotube-MyoD-ChIP-Seq(GSE21614)/Homer	RRCAGCTGYTSY	1e0	-3.723e-02	1.0000	31.0	1.27%	47.1	1.86%
Unknown3/Drosophila-Promoters/Homer	ACVAKCTGGCAGCGC	1e0	-3.457e-02	1.0000	1.0	0.04%	4.6	0.18%
Ascl1(bHLH)/NeuralTubes-Ascl1-ChIP-Seq(GSE55840)/Homer	NNVVCAGCTGBN	1e0	-3.454e-02	1.0000	82.0	3.35%	109.3	4.31%
TEAD4(TEA)/Tropoblast-Tead4-ChIP-Seq(GSE37350)/Homer	CCWGGAATGY	1e0	-3.368e-02	1.0000	50.0	2.04%	71.9	2.84%
Pbx3(Homeobox)/GM12878-PBX3-ChIP-Seq(GSE32465)/Homer	SCTGTCAMTCAN	1e0	-3.219e-02	1.0000	9.0	0.37%	18.0	0.71%
Tcf21(bHLH)/ArterySmoothMuscle-Tcf21-ChIP-Seq(GSE61369)/Homer	NAACAGCTGG	1e0	-2.959e-02	1.0000	47.0	1.92%	68.7	2.71%
Hnf1(Homeobox)/Liver-Foxa2-Chip-Seq(GSE25694)/Homer	GGTTAAWCATTAA	1e0	-2.492e-02	1.0000	6.0	0.25%	14.0	0.55%
TEAD2(TEA)/Py2T-Tead2-ChIP-Seq(GSE55709)/Homer	CCWGGAATGY	1e0	-2.334e-02	1.0000	31.0	1.27%	50.0	1.97%
E2A(bHLH)/proBcell-E2A-ChIP-Seq(GSE21978)/Homer	DNRCAGCTGY	1e0	-2.310e-02	1.0000	90.0	3.68%	121.8	4.81%
Initiator/Drosophila-Promoters/Homer	NTCAGTYG	1e0	-2.305e-02	1.0000	184.0	7.52%	229.6	9.06%
RXR(NR),DR1/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer	TAGGGCAAAGGTCA	1e0	-2.284e-02	1.0000	50.0	2.04%	73.7	2.91%
Tgif2(Homeobox)/mES-Tgif2-ChIP-Seq(GSE55404)/Homer	TGTCANYT	1e0	-2.234e-02	1.0000	286.0	11.68%	343.1	13.54%
NFkB-p65-Rel(RHD)/ThioMac-LPS-Expression(GSE23622)/Homer	GGAAATTCCC	1e0	-2.073e-02	1.0000	4.0	0.16%	11.9	0.47%
ZFX(Zf)/mES-Zfx-ChIP-Seq(GSE11431)/Homer	AGGCCTRG	1e0	-2.024e-02	1.0000	75.0	3.06%	104.3	4.12%
Ap4(bHLH)/AML-Tfap4-ChIP-Seq(GSE45738)/Homer	NAHCAGCTGD	1e0	-1.981e-02	1.0000	60.0	2.45%	86.2	3.40%
Nkx2.2(Homeobox)/NPC-Nkx2.2-ChIP-Seq(GSE61673)/Homer	BTBRAGTGSN	1e0	-1.718e-02	1.0000	132.0	5.39%	172.6	6.81%
PCF/Arabidopsis-Promoters/Homer	NNWWWTGGGCYTDDN	1e0	-1.553e-02	1.0000	11.0	0.45%	23.0	0.91%
Ptf1a(bHLH)/Panc1-Ptf1a-ChIP-Seq(GSE47459)/Homer	ACAGCTGTTN	1e0	-1.551e-02	1.0000	189.0	7.72%	238.8	9.42%
MafA(bZIP)/Islet-MafA-ChIP-Seq(GSE30298)/Homer	TGCTGACTCA	1e0	-1.435e-02	1.0000	45.0	1.84%	69.0	2.72%
MyoG(bHLH)/C2C12-MyoG-ChIP-Seq(GSE36024)/Homer	AACAGCTG	1e0	-1.435e-02	1.0000	45.0	1.84%	69.2	2.73%
DPL-1(E2F)/cElegans-Adult-ChIP-Seq(modEncode)/Homer	TAGCGCGC	1e0	-1.398e-02	1.0000	7.0	0.29%	17.7	0.70%
Oct4:Sox17(POU,Homeobox,HMG)/F9-Sox17-ChIP-Seq(GSE44553)/Homer	CCATTGTATGCAAAT	1e0	-1.268e-02	1.0000	4.0	0.16%	12.2	0.48%
NFAT(RHD)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	ATTTTCCATT	1e0	-1.252e-02	1.0000	67.0	2.74%	97.9	3.86%
Tlx?(NR)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	CTGGCAGSCTGCCA	1e0	-9.922e-03	1.0000	19.0	0.78%	36.4	1.44%
Tbet(T-box)/CD8-Tbet-ChIP-Seq(GSE33802)/Homer	AGGTGTGAAM	1e0	-9.758e-03	1.0000	70.0	2.86%	102.3	4.04%
Foxh1(Forkhead)/hESC-FOXH1-ChIP-Seq(GSE29422)/Homer	NNTGTGGATTSS	1e0	-7.205e-03	1.0000	32.0	1.31%	55.7	2.20%
Otx2(Homeobox)/EpiLC-Otx2-ChIP-Seq(GSE56098)/Homer	NYTAATCCYB	1e0	-6.686e-03	1.0000	66.0	2.70%	99.5	3.93%
TEAD(TEA)/Fibroblast-PU.1-ChIP-Seq(Unpublished)/Homer	YCWGGAATGY	1e0	-5.568e-03	1.0000	38.0	1.55%	64.3	2.54%
GFY(?)/Promoter/Homer	ACTACAATTCCC	1e0	-4.465e-03	1.0000	1.0	0.04%	7.3	0.29%
CArG(MADS)/PUER-Srf-ChIP-Seq(Sullivan_et_al.)/Homer	CCATATATGGNM	1e0	-2.720e-03	1.0000	17.0	0.69%	37.2	1.47%
Tbox:Smad(T-box,MAD)/ESCd5-Smad2_3-ChIP-Seq(GSE29422)/Homer	AGGTGHCAGACA	1e0	-2.605e-03	1.0000	6.0	0.25%	19.6	0.77%
Eomes(T-box)/H9-Eomes-ChIP-Seq(GSE26097)/Homer	ATTAACACCT	1e0	-2.484e-03	1.0000	172.0	7.03%	232.4	9.17%
NF1-halfsite(CTF)/LNCaP-NF1-ChIP-Seq(Unpublished)/Homer	YTGCCAAG	1e0	-1.774e-03	1.0000	76.0	3.10%	118.4	4.67%
HNF6(Homeobox)/Liver-Hnf6-ChIP-Seq(ERP000394)/Homer	NTATYGATCH	1e0	-1.259e-03	1.0000	39.0	1.59%	71.5	2.82%
KANADI1(Myb)/Seedling-KAN1-ChIP-Seq(GSE48081)/Homer	ARGAATAWWN	1e0	-1.010e-03	1.0000	157.0	6.41%	220.6	8.71%
ZNF415(Zf)/HEK293-ZNF415.GFP-ChIP-Seq(GSE58341)/Homer	GRTGMTRGAGCC	1e0	-5.880e-04	1.0000	15.0	0.61%	38.9	1.53%
Smad4(MAD)/ESC-SMAD4-ChIP-Seq(GSE29422)/Homer	VBSYGTCTGG	1e0	-3.760e-04	1.0000	60.0	2.45%	104.2	4.11%
Isl1(Homeobox)/Neuron-Isl1-ChIP-Seq(GSE31456)/Homer	CTAATKGV	1e0	-3.360e-04	1.0000	180.0	7.35%	254.3	10.04%
FXR(NR),IR1/Liver-FXR-ChIP-Seq(Chong_et_al.)/Homer	AGGTCANTGACCTB	1e0	-2.920e-04	1.0000	22.0	0.90%	51.3	2.03%
ZNF264(Zf)/HEK293-ZNF264.GFP-ChIP-Seq(GSE58341)/Homer	RGGGCACTAACY	1e0	-1.760e-04	1.0000	18.0	0.74%	46.1	1.82%
Nkx2.1(Homeobox)/LungAC-Nkx2.1-ChIP-Seq(GSE43252)/Homer	RSCACTYRAG	1e0	-1.570e-04	1.0000	193.0	7.88%	274.2	10.82%
TATA-Box(TBP)/Promoter/Homer	CCTTTTAWAGSC	1e0	-7.600e-05	1.0000	93.0	3.80%	154.3	6.09%
E2A(bHLH),near_PU.1/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	NVCACCTGBN	1e0	-7.500e-05	1.0000	83.0	3.39%	141.7	5.59%
SCL(bHLH)/HPC7-Scl-ChIP-Seq(GSE13511)/Homer	AVCAGCTG	1e0	-6.900e-05	1.0000	308.0	12.58%	414.2	16.35%
Smad2(MAD)/ES-SMAD2-ChIP-Seq(GSE29422)/Homer	CTGTCTGG	1e0	-3.900e-05	1.0000	64.0	2.61%	118.8	4.69%
Nkx2.5(Homeobox)/HL1-Nkx2.5.biotin-ChIP-Seq(GSE21529)/Homer	RRSCACTYAA	1e0	-3.000e-05	1.0000	132.0	5.39%	208.3	8.22%
Smad3(MAD)/NPC-Smad3-ChIP-Seq(GSE36673)/Homer	TWGTCTGV	1e0	-2.400e-05	1.0000	173.0	7.07%	260.8	10.29%
Znf263(Zf)/K562-Znf263-ChIP-Seq(GSE31477)/Homer	CVGTSCTCCC	1e0	-4.000e-06	1.0000	84.0	3.43%	154.8	6.11%
SEP3(MADS)/Arabidoposis-Flower-Sep3-ChIP-Seq/Homer	CCAAAAAGGG	1e0	-0.000e+00	1.0000	63.0	2.57%	144.9	5.72%
NFY(CCAAT)/Promoter/Homer	RGCCAATSRG	1e0	-0.000e+00	1.0000	23.0	0.94%	79.7	3.15%
Trl(Zf)/S2-GAGAfactor-ChIP-Seq(GSE40646)/Homer	RGAGAGAG	1e0	-0.000e+00	1.0000	133.0	5.43%	254.2	10.03%
ZBTB33(Zf)/GM12878-ZBTB33-ChIP-Seq(GSE32465)/Homer	GGVTCTCGCGAGAAC	1e0	-0.000e+00	1.0000	0.0	0.00%	2.6	0.10%
DREF/Drosophila-Promoters/Homer	AVYTATCGATAD	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%
ZFP3(Zf)/HEK293-ZFP3.GFP-ChIP-Seq(GSE58341)/Homer	GGGTTTTGAAGGATGARTAGGAGTT	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
REST-NRSF(Zf)/Jurkat-NRSF-ChIP-Seq/Homer	GGMGCTGTCCATGGTGCTGA	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
ZNF16(Zf)/HEK293-ZNF16.GFP-ChIP-Seq(GSE58341)/Homer	MACCTTCYATGGCTCCCTAKTGCCY	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%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	RGGTCADNNAGAGGTCAV	1e0	0.000e+00	1.0000	0.0	0.00%	0.8	0.03%
 Ik-1	NHTTGGGAATRCC	1e0	0.000e+00	1.0000	2448.0	100.00%	2534.2	100.00%
CTCF-SatelliteElement(Zf?)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	TGCAGTTCCMVNWRTGGCCA	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
NRF1(NRF)/MCF7-NRF1-ChIP-Seq(Unpublished)/Homer	CTGCGCATGCGC	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
E2F(E2F)/Hela-CellCycle-Expression/Homer	TTSGCGCGAAAA	1e0	0.000e+00	1.0000	0.0	0.00%	1.6	0.06%