Motif Name	Consensus	P-value	Log P-value	q-value (Benjamini)	# of Target Sequences with Motif(of 3000)	% of Target Sequences with Motif	# of Background Sequences with Motif(of 2701)	% of Background Sequences with Motif
PHA-4(Forkhead)/cElegans-Embryos-PHA4-ChIP-Seq(modEncode)/Homer	KTGTTTGC	1e-123	-2.839e+02	0.0000	1327.0	44.23%	427.1	15.81%
FOXA1(Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WAAGTAAACA	1e-88	-2.043e+02	0.0000	775.0	25.83%	180.3	6.67%
FOXM1(Forkhead)/MCF7-FOXM1-ChIP-Seq(GSE72977)/Homer	TRTTTACTTW	1e-85	-1.977e+02	0.0000	673.0	22.43%	134.6	4.98%
FOXA1(Forkhead)/MCF7-FOXA1-ChIP-Seq(GSE26831)/Homer	WAAGTAAACA	1e-80	-1.860e+02	0.0000	674.0	22.47%	145.7	5.39%
GATA3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATAASR	1e-69	-1.593e+02	0.0000	778.0	25.93%	230.7	8.54%
Foxa2(Forkhead)/Liver-Foxa2-ChIP-Seq(GSE25694)/Homer	CYTGTTTACWYW	1e-66	-1.521e+02	0.0000	513.0	17.10%	97.5	3.61%
Fox:Ebox(Forkhead,bHLH)/Panc1-Foxa2-ChIP-Seq(GSE47459)/Homer	NNNVCTGWGYAAACASN	1e-56	-1.309e+02	0.0000	467.0	15.57%	94.3	3.49%
Gata4(Zf)/Heart-Gata4-ChIP-Seq(GSE35151)/Homer	NBWGATAAGR	1e-51	-1.178e+02	0.0000	541.0	18.03%	145.3	5.38%
FoxL2(Forkhead)/Ovary-FoxL2-ChIP-Seq(GSE60858)/Homer	WWTRTAAACAVG	1e-48	-1.127e+02	0.0000	456.0	15.20%	107.0	3.96%
FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer	NYYTGTTTACHN	1e-46	-1.065e+02	0.0000	301.0	10.03%	41.5	1.53%
Foxo1(Forkhead)/RAW-Foxo1-ChIP-Seq(Fan_et_al.)/Homer	CTGTTTAC	1e-42	-9.695e+01	0.0000	643.0	21.43%	232.9	8.62%
TEAD4(TEA)/Tropoblast-Tead4-ChIP-Seq(GSE37350)/Homer	CCWGGAATGY	1e-39	-9.100e+01	0.0000	349.0	11.63%	75.8	2.81%
Gata2(Zf)/K562-GATA2-ChIP-Seq(GSE18829)/Homer	BBCTTATCTS	1e-34	-7.925e+01	0.0000	370.0	12.33%	98.3	3.64%
GATA(Zf),IR3/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NNNNNBAGATAWYATCTVHN	1e-31	-7.301e+01	0.0000	180.0	6.00%	18.9	0.70%
GATA(Zf),IR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NAGATWNBNATCTNN	1e-29	-6.714e+01	0.0000	142.0	4.73%	9.3	0.34%
TEAD(TEA)/Fibroblast-PU.1-ChIP-Seq(Unpublished)/Homer	YCWGGAATGY	1e-28	-6.668e+01	0.0000	282.0	9.40%	68.0	2.51%
TEAD2(TEA)/Py2T-Tead2-ChIP-Seq(GSE55709)/Homer	CCWGGAATGY	1e-27	-6.440e+01	0.0000	222.0	7.40%	41.3	1.53%
Gata1(Zf)/K562-GATA1-ChIP-Seq(GSE18829)/Homer	SAGATAAGRV	1e-27	-6.269e+01	0.0000	325.0	10.83%	94.1	3.48%
GATA3(Zf),DR8/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATSTNDNNDSAGATAASN	1e-21	-4.901e+01	0.0000	98.0	3.27%	5.0	0.19%
NF1-halfsite(CTF)/LNCaP-NF1-ChIP-Seq(Unpublished)/Homer	YTGCCAAG	1e-16	-3.838e+01	0.0000	442.0	14.73%	208.0	7.70%
GRHL2(CP2)/HBE-GRHL2-ChIP-Seq(GSE46194)/Homer	AAACYKGTTWDACMRGTTTB	1e-16	-3.748e+01	0.0000	136.0	4.53%	27.9	1.03%
EHF(ETS)/LoVo-EHF-ChIP-Seq(GSE49402)/Homer	AVCAGGAAGT	1e-14	-3.375e+01	0.0000	295.0	9.83%	122.0	4.51%
GATA3(Zf),DR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATGKDGAGATAAG	1e-12	-2.988e+01	0.0000	69.0	2.30%	6.1	0.23%
AP-2gamma(AP2)/MCF7-TFAP2C-ChIP-Seq(GSE21234)/Homer	SCCTSAGGSCAW	1e-12	-2.813e+01	0.0000	202.0	6.73%	74.4	2.75%
AP-2alpha(AP2)/Hela-AP2alpha-ChIP-Seq(GSE31477)/Homer	ATGCCCTGAGGC	1e-11	-2.743e+01	0.0000	162.0	5.40%	52.9	1.96%
ELF5(ETS)/T47D-ELF5-ChIP-Seq(GSE30407)/Homer	ACVAGGAAGT	1e-11	-2.738e+01	0.0000	176.0	5.87%	60.4	2.24%
PQM-1(?)/cElegans-L3-ChIP-Seq(modEncode)/Homer	ACTGATAAGA	1e-11	-2.552e+01	0.0000	157.0	5.23%	52.6	1.95%
BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer	DATGASTCAT	1e-10	-2.442e+01	0.0000	147.0	4.90%	48.2	1.78%
ERG(ETS)/VCaP-ERG-ChIP-Seq(GSE14097)/Homer	ACAGGAAGTG	1e-10	-2.418e+01	0.0000	316.0	10.53%	156.7	5.80%
Fosl2(bZIP)/3T3L1-Fosl2-ChIP-Seq(GSE56872)/Homer	NATGASTCABNN	1e-10	-2.331e+01	0.0000	82.0	2.73%	16.3	0.60%
PABPC1(?)/MEL-PABC1-CLIP-Seq(GSE69755)/Homer	HAATAAAGNN	1e-9	-2.261e+01	0.0000	422.0	14.07%	236.0	8.73%
HOXB13(Homeobox)/ProstateTumor-HOXB13-ChIP-Seq(GSE56288)/Homer	TTTTATKRGG	1e-8	-2.003e+01	0.0000	248.0	8.27%	120.4	4.46%
Fra1(bZIP)/BT549-Fra1-ChIP-Seq(GSE46166)/Homer	NNATGASTCATH	1e-8	-1.965e+01	0.0000	113.0	3.77%	36.7	1.36%
Atf3(bZIP)/GBM-ATF3-ChIP-Seq(GSE33912)/Homer	DATGASTCATHN	1e-8	-1.916e+01	0.0000	136.0	4.53%	50.5	1.87%
ELT-3(Gata)/cElegans-L1-ELT3-ChIP-Seq(modEncode)/Homer	AWTGATAAGA	1e-8	-1.874e+01	0.0000	161.0	5.37%	66.4	2.46%
Bcl6(Zf)/Liver-Bcl6-ChIP-Seq(GSE31578)/Homer	NNNCTTTCCAGGAAA	1e-7	-1.790e+01	0.0000	218.0	7.27%	105.4	3.90%
Jun-AP1(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	GATGASTCATCN	1e-7	-1.698e+01	0.0000	62.0	2.07%	13.2	0.49%
SPDEF(ETS)/VCaP-SPDEF-ChIP-Seq(SRA014231)/Homer	ASWTCCTGBT	1e-7	-1.674e+01	0.0000	221.0	7.37%	110.8	4.10%
SeqBias: polyA-repeat	AAAAAAAAAA	1e-7	-1.620e+01	0.0000	2910.0	97.00%	2544.4	94.15%
Stat3+il21(Stat)/CD4-Stat3-ChIP-Seq(GSE19198)/Homer	SVYTTCCNGGAARB	1e-6	-1.464e+01	0.0000	132.0	4.40%	57.0	2.11%
AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	VTGACTCATC	1e-6	-1.449e+01	0.0000	144.0	4.80%	64.3	2.38%
MafA(bZIP)/Islet-MafA-ChIP-Seq(GSE30298)/Homer	TGCTGACTCA	1e-6	-1.387e+01	0.0000	120.0	4.00%	50.9	1.88%
c-Myc(bHLH)/LNCAP-cMyc-ChIP-Seq(Unpublished)/Homer	VCCACGTG	1e-5	-1.380e+01	0.0000	55.0	1.83%	13.7	0.51%
Tal1	CATCTG	1e-5	-1.331e+01	0.0000	314.0	10.47%	188.7	6.98%
Bach2(bZIP)/OCILy7-Bach2-ChIP-Seq(GSE44420)/Homer	TGCTGAGTCA	1e-5	-1.301e+01	0.0000	47.0	1.57%	10.8	0.40%
Unknown5/Drosophila-Promoters/Homer	GCTGATAASV	1e-5	-1.266e+01	0.0000	130.0	4.33%	59.6	2.20%
GABPA(ETS)/Jurkat-GABPa-ChIP-Seq(GSE17954)/Homer	RACCGGAAGT	1e-4	-1.131e+01	0.0001	159.0	5.30%	82.9	3.07%
E-box/Arabidopsis-Promoters/Homer	GCCACGTG	1e-4	-1.074e+01	0.0002	44.0	1.47%	11.2	0.42%
NF1:FOXA1(CTF,Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WNTGTTTRYTTTGGCA	1e-4	-1.052e+01	0.0002	33.0	1.10%	6.8	0.25%
Stat3(Stat)/mES-Stat3-ChIP-Seq(GSE11431)/Homer	CTTCCGGGAA	1e-4	-1.026e+01	0.0003	94.0	3.13%	41.1	1.52%
EWS:FLI1-fusion(ETS)/SK_N_MC-EWS:FLI1-ChIP-Seq(SRA014231)/Homer	VACAGGAAAT	1e-4	-9.656e+00	0.0005	119.0	3.97%	59.5	2.20%
ETV1(ETS)/GIST48-ETV1-ChIP-Seq(GSE22441)/Homer	AACCGGAAGT	1e-4	-9.575e+00	0.0005	252.0	8.40%	156.8	5.80%
EWS:ERG-fusion(ETS)/CADO_ES1-EWS:ERG-ChIP-Seq(SRA014231)/Homer	ATTTCCTGTN	1e-4	-9.525e+00	0.0005	143.0	4.77%	76.4	2.83%
NF1(CTF)/LNCAP-NF1-ChIP-Seq(Unpublished)/Homer	CYTGGCABNSTGCCAR	1e-3	-8.906e+00	0.0010	69.0	2.30%	28.9	1.07%
ETS1(ETS)/Jurkat-ETS1-ChIP-Seq(GSE17954)/Homer	ACAGGAAGTG	1e-3	-8.728e+00	0.0011	170.0	5.67%	98.0	3.63%
Esrrb(NR)/mES-Esrrb-ChIP-Seq(GSE11431)/Homer	KTGACCTTGA	1e-3	-8.273e+00	0.0018	81.0	2.70%	37.1	1.37%
Sox4(HMG)/proB-Sox4-ChIP-Seq(GSE50066)/Homer	YCTTTGTTCC	1e-3	-7.985e+00	0.0023	139.0	4.63%	78.2	2.89%
Unknown3/Arabidopsis-Promoters/Homer	AYTAAACCGG	1e-3	-7.819e+00	0.0027	23.0	0.77%	4.1	0.15%
Oct4(POU,Homeobox)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAW	1e-3	-7.814e+00	0.0027	113.0	3.77%	60.5	2.24%
Sp1(Zf)/Promoter/Homer	GGCCCCGCCCCC	1e-3	-7.709e+00	0.0029	18.0	0.60%	2.1	0.08%
ZNF416(Zf)/HEK293-ZNF416.GFP-ChIP-Seq(GSE58341)/Homer	WDNCTGGGCA	1e-3	-7.647e+00	0.0030	186.0	6.20%	114.6	4.24%
NF-E2(bZIP)/K562-NFE2-ChIP-Seq(GSE31477)/Homer	GATGACTCAGCA	1e-3	-7.555e+00	0.0033	15.0	0.50%	1.1	0.04%
Foxh1(Forkhead)/hESC-FOXH1-ChIP-Seq(GSE29422)/Homer	NNTGTGGATTSS	1e-3	-7.390e+00	0.0038	114.0	3.80%	62.1	2.30%
LHY(Myb)/Seedling-LHY-ChIP-Seq(GSE52175)/Homer	ADAAATATCT	1e-3	-7.229e+00	0.0044	228.0	7.60%	148.9	5.51%
Ets1-distal(ETS)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	MACAGGAAGT	1e-3	-7.196e+00	0.0045	65.0	2.17%	29.7	1.10%
Bach1(bZIP)/K562-Bach1-ChIP-Seq(GSE31477)/Homer	AWWNTGCTGAGTCAT	1e-3	-7.163e+00	0.0045	17.0	0.57%	2.9	0.11%
Nrf2(bZIP)/Lymphoblast-Nrf2-ChIP-Seq(GSE37589)/Homer	HTGCTGAGTCAT	1e-3	-6.971e+00	0.0054	14.0	0.47%	1.1	0.04%
CLOCK(bHLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer	GHCACGTG	1e-3	-6.946e+00	0.0055	50.0	1.67%	20.7	0.77%
SeqBias: A/T bias	WWWWWWWWWW	1e-3	-6.920e+00	0.0055	2386.0	79.53%	2056.0	76.08%
STAT4(Stat)/CD4-Stat4-ChIP-Seq(GSE22104)/Homer	NYTTCCWGGAAR	1e-2	-6.888e+00	0.0056	158.0	5.27%	96.4	3.57%
Etv2(ETS)/ES-ER71-ChIP-Seq(GSE59402)/Homer(0.967)	NNAYTTCCTGHN	1e-2	-6.834e+00	0.0059	167.0	5.57%	103.3	3.82%
Fli1(ETS)/CD8-FLI-ChIP-Seq(GSE20898)/Homer	NRYTTCCGGH	1e-2	-6.695e+00	0.0066	182.0	6.07%	116.0	4.29%
HLH-1(bHLH)/cElegans-Embryo-HLH1-ChIP-Seq(modEncode)/Homer	RACAGCTGTTBH	1e-2	-6.617e+00	0.0071	127.0	4.23%	74.6	2.76%
Unknown2/Drosophila-Promoters/Homer	CATCMCTA	1e-2	-6.458e+00	0.0082	157.0	5.23%	97.4	3.60%
EBF1(EBF)/Near-E2A-ChIP-Seq(GSE21512)/Homer	GTCCCCWGGGGA	1e-2	-6.452e+00	0.0082	107.0	3.57%	60.1	2.22%
Pho4(bHLH)/Yeast-Pho4-ChIP-Seq(GSE29506)/Homer	AAGCACGTGBGD	1e-2	-6.358e+00	0.0088	20.0	0.67%	4.1	0.15%
Sox10(HMG)/SciaticNerve-Sox3-ChIP-Seq(GSE35132)/Homer	CCWTTGTYYB	1e-2	-6.221e+00	0.0100	262.0	8.73%	180.0	6.66%
STAT1(Stat)/HelaS3-STAT1-ChIP-Seq(GSE12782)/Homer	NATTTCCNGGAAAT	1e-2	-6.091e+00	0.0112	52.0	1.73%	24.0	0.89%
IBL1(bHLH)/Seedling-IBL1-ChIP-Seq(GSE51120)/Homer	CACGTGCC	1e-2	-6.043e+00	0.0116	156.0	5.20%	98.3	3.64%
BMYB(HTH)/Hela-BMYB-ChIP-Seq(GSE27030)/Homer	NHAACBGYYV	1e-2	-5.983e+00	0.0122	244.0	8.13%	167.2	6.19%
ELF1(ETS)/Jurkat-ELF1-ChIP-Seq(SRA014231)/Homer	AVCCGGAAGT	1e-2	-5.927e+00	0.0127	78.0	2.60%	41.9	1.55%
Zfp809(Zf)/ES-Zfp809-ChIP-Seq(GSE70799)/Homer	GGGGCTYGKCTGGGA	1e-2	-5.900e+00	0.0129	23.0	0.77%	6.6	0.25%
Pho2(bHLH)/Yeast-Pho2-ChIP-Seq(GSE29506)/Homer	CCCACGTGCT	1e-2	-5.413e+00	0.0208	34.0	1.13%	13.5	0.50%
SeqBias: CG-repeat	CGCGCGCGCG	1e-2	-5.331e+00	0.0223	127.0	4.23%	79.0	2.92%
PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer	ADGGYAGYAGCATCT	1e-2	-5.237e+00	0.0242	55.0	1.83%	27.2	1.00%
STAT5(Stat)/mCD4+-Stat5-ChIP-Seq(GSE12346)/Homer	RTTTCTNAGAAA	1e-2	-5.226e+00	0.0242	52.0	1.73%	25.5	0.94%
PRDM1(Zf)/Hela-PRDM1-ChIP-Seq(GSE31477)/Homer	ACTTTCACTTTC	1e-2	-5.085e+00	0.0275	50.0	1.67%	24.2	0.90%
SCL(bHLH)/HPC7-Scl-ChIP-Seq(GSE13511)/Homer	AVCAGCTG	1e-2	-5.033e+00	0.0287	750.0	25.00%	599.7	22.19%
Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer	GGGGGGGG	1e-2	-4.958e+00	0.0306	78.0	2.60%	44.9	1.66%
E-box/Drosophila-Promoters/Homer	AACAGCTGTTHN	1e-2	-4.947e+00	0.0306	31.0	1.03%	12.9	0.48%
Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer	SCCTAGCAACAG	1e-2	-4.669e+00	0.0399	38.0	1.27%	17.5	0.65%
Nr5a2(NR)/mES-Nr5a2-ChIP-Seq(GSE19019)/Homer	BTCAAGGTCA	1e-2	-4.639e+00	0.0407	57.0	1.90%	30.1	1.11%
Nr5a2(NR)/Pancreas-LRH1-ChIP-Seq(GSE34295)/Homer	BTCAAGGTCA	1e-1	-4.513e+00	0.0456	80.0	2.67%	47.7	1.76%
Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer	GTTGCCATGGCAACM	1e-1	-4.499e+00	0.0456	7.0	0.23%	0.6	0.02%
ZSCAN22(Zf)/HEK293-ZSCAN22.GFP-ChIP-Seq(GSE58341)/Homer	SMCAGTCWGAKGGAGGAGGC	1e-1	-4.499e+00	0.0456	7.0	0.23%	0.6	0.02%
RFX(HTH)/K562-RFX3-ChIP-Seq(SRA012198)/Homer	CGGTTGCCATGGCAAC	1e-1	-4.499e+00	0.0456	7.0	0.23%	0.6	0.02%
bHLHE40(bHLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer	KCACGTGMCN	1e-1	-4.479e+00	0.0456	28.0	0.93%	11.5	0.43%
Oct2(POU,Homeobox)/Bcell-Oct2-ChIP-Seq(GSE21512)/Homer	ATATGCAAAT	1e-1	-4.396e+00	0.0487	74.0	2.47%	43.7	1.62%
Tlx?(NR)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	CTGGCAGSCTGCCA	1e-1	-4.173e+00	0.0602	62.0	2.07%	35.5	1.31%
X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	GGTTGCCATGGCAA	1e-1	-4.025e+00	0.0691	13.0	0.43%	3.6	0.13%
GATA:SCL(Zf,bHLH)/Ter119-SCL-ChIP-Seq(GSE18720)/Homer	CRGCTGBNGNSNNSAGATAA	1e-1	-4.009e+00	0.0696	25.0	0.83%	10.2	0.38%
Olig2(bHLH)/Neuron-Olig2-ChIP-Seq(GSE30882)/Homer	RCCATMTGTT	1e-1	-3.997e+00	0.0697	306.0	10.20%	232.0	8.58%
USF1(bHLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer	SGTCACGTGR	1e-1	-3.795e+00	0.0845	32.0	1.07%	15.5	0.57%
Sox6(HMG)/Myotubes-Sox6-ChIP-Seq(GSE32627)/Homer	CCATTGTTNY	1e-1	-3.779e+00	0.0850	234.0	7.80%	173.3	6.41%
CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	AYAGTGCCMYCTRGTGGCCA	1e-1	-3.744e+00	0.0872	16.0	0.53%	5.3	0.20%
Tgif2(Homeobox)/mES-Tgif2-ChIP-Seq(GSE55404)/Homer	TGTCANYT	1e-1	-3.690e+00	0.0911	460.0	15.33%	364.4	13.48%
KLF14(Zf)/HEK293-KLF14.GFP-ChIP-Seq(GSE58341)/Homer	RGKGGGCGKGGC	1e-1	-3.653e+00	0.0937	99.0	3.30%	65.8	2.43%
Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer	HACTTCCGGY	1e-1	-3.589e+00	0.0990	87.0	2.90%	56.0	2.07%
Cdx2(Homeobox)/mES-Cdx2-ChIP-Seq(GSE14586)/Homer	GYMATAAAAH	1e-1	-3.546e+00	0.1014	130.0	4.33%	91.0	3.37%
RUNX1(Runt)/Jurkat-RUNX1-ChIP-Seq(GSE29180)/Homer	AAACCACARM	1e-1	-3.546e+00	0.1014	130.0	4.33%	90.2	3.34%
MafK(bZIP)/C2C12-MafK-ChIP-Seq(GSE36030)/Homer	GCTGASTCAGCA	1e-1	-3.499e+00	0.1054	28.0	0.93%	13.0	0.48%
Hoxc9(Homeobox)/Ainv15-Hoxc9-ChIP-Seq(GSE21812)/Homer	GGCCATAAATCA	1e-1	-3.469e+00	0.1076	85.0	2.83%	55.3	2.05%
Max(bHLH)/K562-Max-ChIP-Seq(GSE31477)/Homer	RCCACGTGGYYN	1e-1	-3.335e+00	0.1220	54.0	1.80%	32.2	1.19%
KLF5(Zf)/LoVo-KLF5-ChIP-Seq(GSE49402)/Homer	DGGGYGKGGC	1e-1	-3.235e+00	0.1336	90.0	3.00%	60.4	2.23%
GFY(?)/Promoter/Homer	ACTACAATTCCC	1e-1	-3.213e+00	0.1355	5.0	0.17%	1.0	0.04%
CRX(Homeobox)/Retina-Crx-ChIP-Seq(GSE20012)/Homer	GCTAATCC	1e-1	-3.197e+00	0.1365	499.0	16.63%	403.4	14.93%
SPCH(bHLH)/Seedling-SPCH-ChIP-Seq(GSE57497)/Homer	WNBCACGTGA	1e-1	-3.180e+00	0.1376	96.0	3.20%	65.6	2.43%
caudal(Homeobox)/Drosophila-Embryos-ChIP-Chip(modEncode)/Homer	GGYCATAAAW	1e-1	-3.141e+00	0.1418	148.0	4.93%	107.5	3.98%
Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer	NRYTTCCGGY	1e-1	-3.087e+00	0.1484	75.0	2.50%	49.6	1.83%
PU.1(ETS)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	AGAGGAAGTG	1e-1	-3.083e+00	0.1484	62.0	2.07%	39.4	1.46%
NeuroD1(bHLH)/Islet-NeuroD1-ChIP-Seq(GSE30298)/Homer	GCCATCTGTT	1e-1	-3.060e+00	0.1500	114.0	3.80%	80.9	2.99%
Tbx20(T-box)/Heart-Tbx20-ChIP-Seq(GSE29636)/Homer	GGTGYTGACAGS	1e-1	-3.057e+00	0.1500	19.0	0.63%	8.8	0.33%
NRF1(NRF)/MCF7-NRF1-ChIP-Seq(Unpublished)/Homer	CTGCGCATGCGC	1e-1	-3.035e+00	0.1512	7.0	0.23%	1.9	0.07%
NFkB-p65(RHD)/GM12787-p65-ChIP-Seq(GSE19485)/Homer	WGGGGATTTCCC	1e-1	-3.006e+00	0.1545	43.0	1.43%	25.9	0.96%
AARE(HLH)/mES-cMyc-ChIP-Seq/Homer	GATTGCATCA	1e-1	-2.906e+00	0.1694	17.0	0.57%	7.4	0.28%
HOXA9(Homeobox)/HSC-Hoxa9-ChIP-Seq(GSE33509)/Homer	GGCCATAAATCA	1e-1	-2.883e+00	0.1719	104.0	3.47%	73.3	2.71%
Tgif1(Homeobox)/mES-Tgif1-ChIP-Seq(GSE55404)/Homer	YTGWCADY	1e-1	-2.817e+00	0.1821	416.0	13.87%	336.3	12.45%
REB1/SacCer-Promoters/Homer	KCCGGGTAAYRR	1e-1	-2.753e+00	0.1928	15.0	0.50%	6.7	0.25%
ETS(ETS)/Promoter/Homer	AACCGGAAGT	1e-1	-2.739e+00	0.1939	51.0	1.70%	32.0	1.19%
SeqBias: G/A bias	RRRRRRRRRR	1e-1	-2.658e+00	0.2086	2928.0	97.60%	2619.6	96.93%
Cbf1(bHLH)/Yeast-Cbf1-ChIP-Seq(GSE29506)/Homer	TCACGTGAYH	1e-1	-2.618e+00	0.2155	22.0	0.73%	11.5	0.42%
ERE(NR),IR3/MCF7-ERa-ChIP-Seq(Unpublished)/Homer	VAGGTCACNSTGACC	1e-1	-2.613e+00	0.2155	29.0	0.97%	16.4	0.61%
Egr2(Zf)/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer	NGCGTGGGCGGR	1e-1	-2.585e+00	0.2194	8.0	0.27%	2.3	0.09%
Pdx1(Homeobox)/Islet-Pdx1-ChIP-Seq(SRA008281)/Homer	YCATYAATCA	1e-1	-2.576e+00	0.2196	148.0	4.93%	111.6	4.13%
Brachyury(T-box)/Mesoendoderm-Brachyury-ChIP-exo(GSE54963)/Homer	ANTTMRCASBNNNGTGYKAAN	1e-1	-2.556e+00	0.2225	26.0	0.87%	14.7	0.54%
Sox15(HMG)/CPA-Sox15-ChIP-Seq(GSE62909)/Homer	RAACAATGGN	1e-1	-2.509e+00	0.2314	157.0	5.23%	119.1	4.41%
RUNX(Runt)/HPC7-Runx1-ChIP-Seq(GSE22178)/Homer	SAAACCACAG	1e-1	-2.484e+00	0.2355	75.0	2.50%	52.8	1.95%
CRE(bZIP)/Promoter/Homer	CSGTGACGTCAC	1e-1	-2.424e+00	0.2483	17.0	0.57%	8.4	0.31%
BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer	CNNBRGCGCCCCCTGSTGGC	1e-1	-2.412e+00	0.2495	14.0	0.47%	6.1	0.22%
RBPJ:Ebox(?,bHLH)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	GGGRAARRGRMCAGMTG	1e-1	-2.367e+00	0.2591	32.0	1.07%	19.8	0.73%
HOXD13(Homeobox)/Chicken-Hoxd13-ChIP-Seq(GSE38910)/Homer	NCYAATAAAA	1e0	-2.277e+00	0.2815	169.0	5.63%	131.7	4.87%
Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer	GCCACACCCA	1e0	-2.243e+00	0.2892	22.0	0.73%	12.5	0.46%
PR(NR)/T47D-PR-ChIP-Seq(GSE31130)/Homer	VAGRACAKNCTGTBC	1e0	-2.176e+00	0.3070	249.0	8.30%	201.0	7.44%
Unknown(Homeobox)/Limb-p300-ChIP-Seq/Homer	SSCMATWAAA	1e0	-2.149e+00	0.3135	91.0	3.03%	67.1	2.48%
Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer	TGCGTGGGYG	1e0	-2.146e+00	0.3135	27.0	0.90%	16.7	0.62%
NFAT:AP1(RHD,bZIP)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	SARTGGAAAAWRTGAGTCAB	1e0	-2.083e+00	0.3302	20.0	0.67%	11.7	0.43%
n-Myc(bHLH)/mES-nMyc-ChIP-Seq(GSE11431)/Homer	VRCCACGTGG	1e0	-2.074e+00	0.3308	46.0	1.53%	31.5	1.17%
SpiB(ETS)/OCILY3-SPIB-ChIP-Seq(GSE56857)/Homer	AAAGRGGAAGTG	1e0	-2.070e+00	0.3308	24.0	0.80%	14.1	0.52%
Rbpj1(?)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	HTTTCCCASG	1e0	-2.020e+00	0.3447	139.0	4.63%	109.0	4.03%
Meis1(Homeobox)/MastCells-Meis1-ChIP-Seq(GSE48085)/Homer	VGCTGWCAVB	1e0	-2.017e+00	0.3447	152.0	5.07%	119.6	4.43%
Zelda(Zf)/Embryo-zld-ChIP-Seq(GSE65441)/Homer	KBCTACCTGW	1e0	-1.973e+00	0.3563	75.0	2.50%	55.9	2.07%
E2A(bHLH),near_PU.1/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	NVCACCTGBN	1e0	-1.967e+00	0.3563	155.0	5.17%	122.4	4.53%
AMYB(HTH)/Testes-AMYB-ChIP-Seq(GSE44588)/Homer	TGGCAGTTGG	1e0	-1.959e+00	0.3567	224.0	7.47%	181.5	6.72%
GFY-Staf(?,Zf)/Promoter/Homer	RACTACAATTCCCAGAAKGC	1e0	-1.927e+00	0.3635	3.0	0.10%	0.0	0.00%
CTCF-SatelliteElement(Zf?)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	TGCAGTTCCMVNWRTGGCCA	1e0	-1.927e+00	0.3635	3.0	0.10%	0.0	0.00%
PAX5(Paired,Homeobox),condensed/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GTCACGCTCSCTGM	1e0	-1.895e+00	0.3729	8.0	0.27%	3.4	0.12%
NPAS2(bHLH)/Liver-NPAS2-ChIP-Seq(GSE39860)/Homer	KCCACGTGAC	1e0	-1.887e+00	0.3736	96.0	3.20%	73.2	2.71%
ZBTB12(Zf)/HEK293-ZBTB12.GFP-ChIP-Seq(GSE58341)/Homer	NGNTCTAGAACCNGV	1e0	-1.876e+00	0.3752	51.0	1.70%	37.0	1.37%
BMAL1(bHLH)/Liver-Bmal1-ChIP-Seq(GSE39860)/Homer	GNCACGTG	1e0	-1.842e+00	0.3857	170.0	5.67%	136.7	5.06%
SeqBias: CA-repeat	CACACACACA	1e0	-1.814e+00	0.3943	735.0	24.50%	631.9	23.38%
PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	MGGAAGTGAAAC	1e0	-1.692e+00	0.4427	119.0	3.97%	94.3	3.49%
Oct6(POU,Homeobox)/NPC-Oct6-ChIP-Seq(GSE35496)/Homer	WATGCAAATGAG	1e0	-1.686e+00	0.4427	57.0	1.90%	42.5	1.57%
Tcfcp2l1(CP2)/mES-Tcfcp2l1-ChIP-Seq(GSE11431)/Homer	NRAACCRGTTYRAACCRGYT	1e0	-1.671e+00	0.4465	13.0	0.43%	7.4	0.28%
HIF-1b(HLH)/T47D-HIF1b-ChIP-Seq(GSE59937)/Homer	RTACGTGC	1e0	-1.665e+00	0.4466	114.0	3.80%	90.6	3.35%
Unknown-ESC-element(?)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	CACAGCAGGGGG	1e0	-1.658e+00	0.4467	58.0	1.93%	43.0	1.59%
Tbet(T-box)/CD8-Tbet-ChIP-Seq(GSE33802)/Homer	AGGTGTGAAM	1e0	-1.626e+00	0.4584	90.0	3.00%	70.9	2.63%
Ptf1a(bHLH)/Panc1-Ptf1a-ChIP-Seq(GSE47459)/Homer	ACAGCTGTTN	1e0	-1.612e+00	0.4625	335.0	11.17%	282.6	10.46%
STAT6(Stat)/Macrophage-Stat6-ChIP-Seq(GSE38377)/Homer	TTCCKNAGAA	1e0	-1.608e+00	0.4625	72.0	2.40%	55.0	2.04%
TOD6?/SacCer-Promoters/Homer	GCGATGAGMT	1e0	-1.592e+00	0.4632	10.0	0.33%	5.9	0.22%
E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer	VDTTTCCCGCCA	1e0	-1.592e+00	0.4632	10.0	0.33%	5.4	0.20%
CEBP(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	ATTGCGCAAC	1e0	-1.544e+00	0.4835	108.0	3.60%	86.2	3.19%
PIF4(bHLH)/Seedling-PIF4-ChIP-Seq(GSE35315)/Homer	NNBCACGTGN	1e0	-1.536e+00	0.4845	95.0	3.17%	75.2	2.78%
p53(p53)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	ACATGCCCGGGCAT	1e0	-1.524e+00	0.4874	7.0	0.23%	3.1	0.11%
LIN-39(Homeobox)/cElegans.L3-LIN39-ChIP-Seq(modEncode)/Homer	ATGATTRATG	1e0	-1.524e+00	0.4874	159.0	5.30%	131.0	4.85%
NFkB-p65-Rel(RHD)/ThioMac-LPS-Expression(GSE23622)/Homer	GGAAATTCCC	1e0	-1.506e+00	0.4904	4.0	0.13%	1.8	0.07%
Tcf12(bHLH)/GM12878-Tcf12-ChIP-Seq(GSE32465)/Homer	VCAGCTGYTG	1e0	-1.502e+00	0.4904	97.0	3.23%	77.1	2.85%
Zic(Zf)/Cerebellum-ZIC1.2-ChIP-Seq(GSE60731)/Homer	CCTGCTGAGH	1e0	-1.485e+00	0.4953	78.0	2.60%	61.3	2.27%
FXR(NR),IR1/Liver-FXR-ChIP-Seq(Chong_et_al.)/Homer	AGGTCANTGACCTB	1e0	-1.484e+00	0.4953	30.0	1.00%	21.6	0.80%
MITF(bHLH)/MastCells-MITF-ChIP-Seq(GSE48085)/Homer	RTCATGTGAC	1e0	-1.473e+00	0.4958	92.0	3.07%	73.7	2.73%
Erra(NR)/HepG2-Erra-ChIP-Seq(GSE31477)/Homer	CAAAGGTCAG	1e0	-1.467e+00	0.4958	225.0	7.50%	188.8	6.99%
RUNX-AML(Runt)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	GCTGTGGTTW	1e0	-1.456e+00	0.4987	73.0	2.43%	57.1	2.11%
Pax8(Paired,Homeobox)/Thyroid-Pax8-ChIP-Seq(GSE26938)/Homer	GTCATGCHTGRCTGS	1e0	-1.432e+00	0.5077	37.0	1.23%	27.8	1.03%
Sox3(HMG)/NPC-Sox3-ChIP-Seq(GSE33059)/Homer	CCWTTGTY	1e0	-1.380e+00	0.5319	251.0	8.37%	212.1	7.85%
Klf9(Zf)/GBM-Klf9-ChIP-Seq(GSE62211)/Homer	GCCACRCCCACY	1e0	-1.379e+00	0.5319	22.0	0.73%	15.5	0.57%
p63(p53)/Keratinocyte-p63-ChIP-Seq(GSE17611)/Homer	NNDRCATGYCYNRRCATGYH	1e0	-1.325e+00	0.5561	47.0	1.57%	36.3	1.34%
Hoxb4(Homeobox)/ES-Hoxb4-ChIP-Seq(GSE34014)/Homer	TGATTRATGGCY	1e0	-1.320e+00	0.5561	29.0	0.97%	21.6	0.80%
ZNF669(Zf)/HEK293-ZNF669.GFP-ChIP-Seq(GSE58341)/Homer	GARTGGTCATCGCCC	1e0	-1.304e+00	0.5619	5.0	0.17%	2.5	0.09%
RBFox2(?)/Heart-RBFox2-CLIP-Seq(GSE57926)/Homer	TGCATGCA	1e0	-1.297e+00	0.5629	237.0	7.90%	201.9	7.47%
IRF2(IRF)/Erythroblas-IRF2-ChIP-Seq(GSE36985)/Homer	GAAASYGAAASY	1e0	-1.296e+00	0.5629	9.0	0.30%	5.4	0.20%
IRF:BATF(IRF:bZIP)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	CTTTCANTATGACTV	1e0	-1.296e+00	0.5629	9.0	0.30%	5.4	0.20%
E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer	GGCGGGAAAH	1e0	-1.288e+00	0.5629	30.0	1.00%	22.2	0.82%
c-Myc(bHLH)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	VVCCACGTGG	1e0	-1.288e+00	0.5629	30.0	1.00%	22.5	0.83%
ZNF382(Zf)/HEK293-ZNF382.GFP-ChIP-Seq(GSE58341)/Homer	GNCTGTASTRNTGBCTCHTT	1e0	-1.285e+00	0.5629	2.0	0.07%	0.3	0.01%
SUT1?/SacCer-Promoters/Homer	CCCCGCGC	1e0	-1.252e+00	0.5703	658.0	21.93%	575.4	21.29%
HEB(bHLH)/mES-Heb-ChIP-Seq(GSE53233)/Homer	VCAGCTGBNN	1e0	-1.250e+00	0.5703	210.0	7.00%	178.2	6.60%
Smad4(MAD)/ESC-SMAD4-ChIP-Seq(GSE29422)/Homer	VBSYGTCTGG	1e0	-1.248e+00	0.5703	154.0	5.13%	129.0	4.77%
RUNX2(Runt)/PCa-RUNX2-ChIP-Seq(GSE33889)/Homer	NWAACCACADNN	1e0	-1.237e+00	0.5704	79.0	2.63%	64.8	2.40%
PAX6(Paired,Homeobox)/Forebrain-Pax6-ChIP-Seq(GSE66961)/Homer	NGTGTTCAVTSAAGCGKAAA	1e0	-1.219e+00	0.5778	10.0	0.33%	6.2	0.23%
ZNF692(Zf)/HEK293-ZNF692.GFP-ChIP-Seq(GSE58341)/Homer	GTGGGCCCCA	1e0	-1.178e+00	0.5956	6.0	0.20%	3.6	0.13%
E-box(bHLH)/Promoter/Homer	SSGGTCACGTGA	1e0	-1.178e+00	0.5956	6.0	0.20%	3.4	0.12%
PIF5ox(bHLH)/Arabidopsis-PIF5ox-ChIP-Seq(GSE35062)/Homer	BCACGTGVDN	1e0	-1.160e+00	0.6038	77.0	2.57%	63.2	2.34%
HIF2a(bHLH)/785_O-HIF2a-ChIP-Seq(GSE34871)/Homer	GCACGTACCC	1e0	-1.139e+00	0.6134	29.0	0.97%	22.3	0.82%
Brn1(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	TATGCWAATBAV	1e0	-1.126e+00	0.6185	50.0	1.67%	40.9	1.51%
ZNF519(Zf)/HEK293-ZNF519.GFP-ChIP-Seq(GSE58341)/Homer	GAGSCCGAGC	1e0	-1.102e+00	0.6303	12.0	0.40%	8.2	0.30%
PGR(NR)/EndoStromal-PGR-ChIP-Seq(GSE69539)/Homer	AAGAACATWHTGTTC	1e0	-1.100e+00	0.6303	24.0	0.80%	18.9	0.70%
PU.1:IRF8(ETS:IRF)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	GGAAGTGAAAST	1e0	-1.093e+00	0.6303	18.0	0.60%	13.1	0.48%
Phox2a(Homeobox)/Neuron-Phox2a-ChIP-Seq(GSE31456)/Homer	YTAATYNRATTA	1e0	-1.082e+00	0.6338	60.0	2.00%	49.0	1.81%
PAX5(Paired,Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GCAGCCAAGCRTGACH	1e0	-1.066e+00	0.6409	32.0	1.07%	25.7	0.95%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	AGGTCAAGGTCA	1e0	-1.056e+00	0.6440	13.0	0.43%	9.2	0.34%
OCT4-SOX2-TCF-NANOG(POU,Homeobox,HMG)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAACAATG	1e0	-1.046e+00	0.6472	26.0	0.87%	20.4	0.76%
ZNF467(Zf)/HEK293-ZNF467.GFP-ChIP-Seq(GSE58341)/Homer	TGGGGAAGGGCM	1e0	-1.035e+00	0.6512	48.0	1.60%	39.4	1.46%
Reverb(NR),DR2/RAW-Reverba.biotin-ChIP-Seq(GSE45914)/Homer	GTRGGTCASTGGGTCA	1e0	-1.024e+00	0.6557	8.0	0.27%	5.9	0.22%
Rfx1(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	KGTTGCCATGGCAA	1e0	-9.811e-01	0.6811	15.0	0.50%	11.9	0.44%
Unknown1/Arabidopsis-Promoters/Homer	RGGGTAWWWTHGTAA	1e0	-9.710e-01	0.6848	9.0	0.30%	7.0	0.26%
E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer	GGCGGGAARN	1e0	-9.625e-01	0.6875	45.0	1.50%	37.4	1.38%
EBF(EBF)/proBcell-EBF-ChIP-Seq(GSE21978)/Homer	DGTCCCYRGGGA	1e0	-9.498e-01	0.6930	16.0	0.53%	12.0	0.44%
Pknox1(Homeobox)/ES-Prep1-ChIP-Seq(GSE63282)/Homer	SCTGTCAVTCAV	1e0	-9.216e-01	0.7096	17.0	0.57%	13.5	0.50%
IRF4(IRF)/GM12878-IRF4-ChIP-Seq(GSE32465)/Homer	ACTGAAACCA	1e0	-9.035e-01	0.7192	41.0	1.37%	34.5	1.28%
Nur77(NR)/K562-NR4A1-ChIP-Seq(GSE31363)/Homer	TGACCTTTNCNT	1e0	-8.960e-01	0.7214	18.0	0.60%	15.0	0.55%
Smad3(MAD)/NPC-Smad3-ChIP-Seq(GSE36673)/Homer	TWGTCTGV	1e0	-8.744e-01	0.7337	345.0	11.50%	305.9	11.32%
FOXA1:AR(Forkhead,NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	AGTAAACAAAAAAGAACAND	1e0	-8.316e-01	0.7624	13.0	0.43%	10.3	0.38%
ZNF711(Zf)/SHSY5Y-ZNF711-ChIP-Seq(GSE20673)/Homer	AGGCCTAG	1e0	-8.083e-01	0.7768	207.0	6.90%	183.6	6.79%
Unknown4/Drosophila-Promoters/Homer	AAAAATACCRMA	1e0	-8.070e-01	0.7768	14.0	0.47%	11.6	0.43%
AR-halfsite(NR)/LNCaP-AR-ChIP-Seq(GSE27824)/Homer	CCAGGAACAG	1e0	-7.868e-01	0.7866	435.0	14.50%	388.5	14.38%
GLI3(Zf)/Limb-GLI3-ChIP-Chip(GSE11077)/Homer	CGTGGGTGGTCC	1e0	-7.778e-01	0.7902	7.0	0.23%	5.1	0.19%
Usf2(bHLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer	GTCACGTGGT	1e0	-7.359e-01	0.8204	27.0	0.90%	23.2	0.86%
SeqBias: CG bias	SSSSSSSSSS	1e0	-6.782e-01	0.8652	1064.0	35.47%	958.1	35.45%
FHY3(FAR1)/Arabidopsis-FHY3-ChIP-Seq(GSE30711)/Homer	HHCACGCGCBTN	1e0	-6.651e-01	0.8728	12.0	0.40%	10.2	0.38%
RORgt(NR)/EL4-RORgt.Flag-ChIP-Seq(GSE56019)/Homer	AAYTAGGTCA	1e0	-6.498e-01	0.8785	13.0	0.43%	11.6	0.43%
Srebp1a(bHLH)/HepG2-Srebp1a-ChIP-Seq(GSE31477)/Homer	RTCACSCCAY	1e0	-6.498e-01	0.8785	13.0	0.43%	11.8	0.44%
REST-NRSF(Zf)/Jurkat-NRSF-ChIP-Seq/Homer	GGMGCTGTCCATGGTGCTGA	1e0	-6.422e-01	0.8785	1.0	0.03%	0.0	0.00%
Pax7(Paired,Homeobox),long/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCHGATTAC	1e0	-6.422e-01	0.8785	1.0	0.03%	0.9	0.03%
ZNF322(Zf)/HEK293-ZNF322.GFP-ChIP-Seq(GSE58341)/Homer	GAGCCTGGTACTGWGCCTGR	1e0	-6.393e-01	0.8785	25.0	0.83%	22.9	0.85%
Pbx3(Homeobox)/GM12878-PBX3-ChIP-Seq(GSE32465)/Homer	SCTGTCAMTCAN	1e0	-6.360e-01	0.8785	14.0	0.47%	12.7	0.47%
Atoh1(bHLH)/Cerebellum-Atoh1-ChIP-Seq(GSE22111)/Homer	VNRVCAGCTGGY	1e0	-6.339e-01	0.8785	122.0	4.07%	110.3	4.08%
Six1(Homeobox)/Myoblast-Six1-ChIP-Chip(GSE20150)/Homer	GKVTCADRTTWC	1e0	-6.195e-01	0.8826	27.0	0.90%	24.8	0.92%
Pit1(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGMATATDC	1e0	-6.156e-01	0.8826	147.0	4.90%	133.5	4.94%
Tcf21(bHLH)/ArterySmoothMuscle-Tcf21-ChIP-Seq(GSE61369)/Homer	NAACAGCTGG	1e0	-6.122e-01	0.8826	105.0	3.50%	95.8	3.55%
Atf1(bZIP)/K562-ATF1-ChIP-Seq(GSE31477)/Homer	GATGACGTCA	1e0	-6.027e-01	0.8863	63.0	2.10%	57.5	2.13%
GSC(Homeobox)/FrogEmbryos-GSC-ChIP-Seq(DRA000576)/Homer	RGGATTAR	1e0	-6.006e-01	0.8863	246.0	8.20%	223.3	8.26%
YY1(Zf)/Promoter/Homer	CAAGATGGCGGC	1e0	-5.998e-01	0.8863	3.0	0.10%	2.4	0.09%
MafF(bZIP)/HepG2-MafF-ChIP-Seq(GSE31477)/Homer	HWWGTCAGCAWWTTT	1e0	-5.912e-01	0.8863	42.0	1.40%	38.6	1.43%
JunD(bZIP)/K562-JunD-ChIP-Seq/Homer	ATGACGTCATCN	1e0	-5.851e-01	0.8871	4.0	0.13%	3.7	0.14%
MYB(HTH)/ERMYB-Myb-ChIPSeq(GSE22095)/Homer	GGCVGTTR	1e0	-5.814e-01	0.8871	241.0	8.03%	219.4	8.12%
Chop(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	ATTGCATCAT	1e0	-5.621e-01	0.9004	34.0	1.13%	31.1	1.15%
IRF1(IRF)/PBMC-IRF1-ChIP-Seq(GSE43036)/Homer	GAAAGTGAAAGT	1e0	-5.332e-01	0.9230	9.0	0.30%	8.5	0.31%
Ascl1(bHLH)/NeuralTubes-Ascl1-ChIP-Seq(GSE55840)/Homer	NNVVCAGCTGBN	1e0	-5.286e-01	0.9235	169.0	5.63%	155.5	5.75%
Unknown1(NR/Ini-like)/Drosophila-Promoters/Homer	MYGGTCACACTG	1e0	-5.036e-01	0.9431	13.0	0.43%	12.5	0.46%
E2A(bHLH)/proBcell-E2A-ChIP-Seq(GSE21978)/Homer	DNRCAGCTGY	1e0	-4.993e-01	0.9434	143.0	4.77%	132.9	4.92%
RXR(NR),DR1/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer	TAGGGCAAAGGTCA	1e0	-4.911e-01	0.9473	85.0	2.83%	79.4	2.94%
ETS:E-box(ETS,bHLH)/HPC7-Scl-ChIP-Seq(GSE22178)/Homer	AGGAARCAGCTG	1e0	-4.909e-01	0.9473	15.0	0.50%	14.1	0.52%
Pitx1(Homeobox)/Chicken-Pitx1-ChIP-Seq(GSE38910)/Homer	TAATCCCN	1e0	-4.833e-01	0.9473	695.0	23.17%	634.9	23.49%
Ap4(bHLH)/AML-Tfap4-ChIP-Seq(GSE45738)/Homer	NAHCAGCTGD	1e0	-4.556e-01	0.9699	132.0	4.40%	123.7	4.58%
HIF-1a(bHLH)/MCF7-HIF1a-ChIP-Seq(GSE28352)/Homer	TACGTGCV	1e0	-4.488e-01	0.9727	23.0	0.77%	22.1	0.82%
PPARE(NR),DR1/3T3L1-Pparg-ChIP-Seq(GSE13511)/Homer	TGACCTTTGCCCCA	1e0	-4.465e-01	0.9727	70.0	2.33%	66.9	2.48%
ZNF264(Zf)/HEK293-ZNF264.GFP-ChIP-Seq(GSE58341)/Homer	RGGGCACTAACY	1e0	-4.176e-01	0.9956	48.0	1.60%	46.8	1.73%
Brn2(POU,Homeobox)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATATTC	1e0	-3.896e-01	1.0000	10.0	0.33%	10.4	0.39%
Srebp2(bHLH)/HepG2-Srebp2-ChIP-Seq(GSE31477)/Homer	CGGTCACSCCAC	1e0	-3.896e-01	1.0000	9.0	0.30%	9.7	0.36%
TATA-box/Drosophila-Promoters/Homer	CTATAAAAGCSV	1e0	-3.888e-01	1.0000	8.0	0.27%	8.2	0.30%
ETS:RUNX(ETS,Runt)/Jurkat-RUNX1-ChIP-Seq(GSE17954)/Homer	RCAGGATGTGGT	1e0	-3.888e-01	1.0000	8.0	0.27%	8.0	0.30%
TR4(NR),DR1/Hela-TR4-ChIP-Seq(GSE24685)/Homer	GAGGTCAAAGGTCA	1e0	-3.888e-01	1.0000	8.0	0.27%	8.2	0.30%
E2F1(E2F)/Hela-E2F1-ChIP-Seq(GSE22478)/Homer	CWGGCGGGAA	1e0	-3.833e-01	1.0000	15.0	0.50%	15.3	0.57%
GRE(NR),IR3/RAW264.7-GRE-ChIP-Seq(Unpublished)/Homer	VAGRACAKWCTGTYC	1e0	-3.814e-01	1.0000	16.0	0.53%	16.9	0.63%
Atf4(bZIP)/MEF-Atf4-ChIP-Seq(GSE35681)/Homer	MTGATGCAAT	1e0	-3.755e-01	1.0000	43.0	1.43%	42.6	1.58%
LXRE(NR),DR4/RAW-LXRb.biotin-ChIP-Seq(GSE21512)/Homer	RGGTTACTANAGGTCA	1e0	-3.676e-01	1.0000	4.0	0.13%	4.6	0.17%
Atf2(bZIP)/3T3L1-Atf2-ChIP-Seq(GSE56872)/Homer	NRRTGACGTCAT	1e0	-3.660e-01	1.0000	23.0	0.77%	24.0	0.89%
SeqBias: GCW-triplet	GCWGCWGCWGCW	1e0	-3.644e-01	1.0000	2911.0	97.03%	2627.9	97.24%
ZNF189(Zf)/HEK293-ZNF189.GFP-ChIP-Seq(GSE58341)/Homer	TGGAACAGMA	1e0	-3.455e-01	1.0000	72.0	2.40%	70.2	2.60%
Pit1+1bp(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGCATAATTCA	1e0	-3.275e-01	1.0000	40.0	1.33%	40.8	1.51%
Atf7(bZIP)/3T3L1-Atf7-ChIP-Seq(GSE56872)/Homer	NGRTGACGTCAY	1e0	-3.275e-01	1.0000	40.0	1.33%	40.8	1.51%
Pax7(Paired,Homeobox),longest/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	NTAATTDGCYAATTANNWWD	1e0	-3.206e-01	1.0000	2.0	0.07%	2.7	0.10%
SeqBias: TA-repeat	TATATATATA	1e0	-3.047e-01	1.0000	540.0	18.00%	503.8	18.64%
Tcf3(HMG)/mES-Tcf3-ChIP-Seq(GSE11724)/Homer	ASWTCAAAGG	1e0	-2.969e-01	1.0000	22.0	0.73%	23.8	0.88%
Oct4:Sox17(POU,Homeobox,HMG)/F9-Sox17-ChIP-Seq(GSE44553)/Homer	CCATTGTATGCAAAT	1e0	-2.940e-01	1.0000	13.0	0.43%	14.6	0.54%
Dorsal(RHD)/Embryo-dl-ChIP-Seq(GSE65441)/Homer	GGGAAAAMCCCG	1e0	-2.940e-01	1.0000	13.0	0.43%	14.8	0.55%
HRE(HSF)/HepG2-HSF1-ChIP-Seq(GSE31477)/Homer	BSTTCTRGAABVTTCYAGAA	1e0	-2.894e-01	1.0000	11.0	0.37%	13.0	0.48%
EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer	NWGGGTGTGGCY	1e0	-2.686e-01	1.0000	7.0	0.23%	8.9	0.33%
ABF1/SacCer-Promoters/Homer	CGTRNAAARTGA	1e0	-2.591e-01	1.0000	6.0	0.20%	7.6	0.28%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	RGGTCADNNAGAGGTCAV	1e0	-2.543e-01	1.0000	1.0	0.03%	1.4	0.05%
Smad2(MAD)/ES-SMAD2-ChIP-Seq(GSE29422)/Homer	CTGTCTGG	1e0	-2.522e-01	1.0000	138.0	4.60%	135.2	5.00%
NRF(NRF)/Promoter/Homer	STGCGCATGCGC	1e0	-2.465e-01	1.0000	5.0	0.17%	6.1	0.23%
c-Jun-CRE(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	ATGACGTCATCY	1e0	-2.381e-01	1.0000	23.0	0.77%	25.5	0.94%
Mef2d(MADS)/Retina-Mef2d-ChIP-Seq(GSE61391)/Homer	GCTATTTTTAGC	1e0	-2.368e-01	1.0000	21.0	0.70%	23.5	0.87%
SeqBias: C/A-bias	MMMMMMMMMM	1e0	-2.299e-01	1.0000	2861.0	95.37%	2588.4	95.78%
TCFL2(HMG)/K562-TCF7L2-ChIP-Seq(GSE29196)/Homer	ACWTCAAAGG	1e0	-2.295e-01	1.0000	4.0	0.13%	5.9	0.22%
Lhx3(Homeobox)/Neuron-Lhx3-ChIP-Seq(GSE31456)/Homer	ADBTAATTAR	1e0	-2.288e-01	1.0000	218.0	7.27%	211.8	7.84%
GAGA-repeat/SacCer-Promoters/Homer	CTYTCTYTCTCTCTC	1e0	-2.125e-01	1.0000	474.0	15.80%	449.4	16.63%
Lhx1(Homeobox)/EmbryoCarcinoma-Lhx1-ChIP-Seq(GSE70957)/Homer	NNYTAATTAR	1e0	-2.090e-01	1.0000	136.0	4.53%	135.7	5.02%
ZNF165(Zf)/WHIM12-ZNF165-ChIP-Seq(GSE65937)/Homer	AAGGKGRCGCAGGCA	1e0	-2.075e-01	1.0000	10.0	0.33%	12.8	0.47%
HOXA2(Homeobox)/mES-Hoxa2-ChIP-Seq(Donaldson_et_al.)/Homer	GYCATCMATCAT	1e0	-1.729e-01	1.0000	6.0	0.20%	8.2	0.30%
Mouse_Recombination_Hotspot(Zf)/Testis-DMC1-ChIP-Seq(GSE24438)/Homer	ACTYKNATTCGTGNTACTTC	1e0	-1.729e-01	1.0000	6.0	0.20%	8.9	0.33%
ZNF143|STAF(Zf)/CUTLL-ZNF143-ChIP-Seq(GSE29600)/Homer	ATTTCCCAGVAKSCY	1e0	-1.689e-01	1.0000	14.0	0.47%	17.5	0.65%
bZIP:IRF(bZIP,IRF)/Th17-BatF-ChIP-Seq(GSE39756)/Homer	NAGTTTCABTHTGACTNW	1e0	-1.614e-01	1.0000	34.0	1.13%	38.9	1.44%
SeqBias: GA-repeat	GAGAGAGAGA	1e0	-1.602e-01	1.0000	799.0	26.63%	752.2	27.83%
STAT6(Stat)/CD4-Stat6-ChIP-Seq(GSE22104)/Homer	ABTTCYYRRGAA	1e0	-1.602e-01	1.0000	61.0	2.03%	65.2	2.41%
p53(p53)/Saos-p53-ChIP-Seq/Homer	RRCATGYCYRGRCATGYYYN	1e0	-1.601e-01	1.0000	12.0	0.40%	15.7	0.58%
p53(p53)/Saos-p53-ChIP-Seq(GSE15780)/Homer	RRCATGYCYRGRCATGYYYN	1e0	-1.601e-01	1.0000	12.0	0.40%	15.7	0.58%
PRDM14(Zf)/H1-PRDM14-ChIP-Seq(GSE22767)/Homer	RGGTCTCTAACY	1e0	-1.518e-01	1.0000	24.0	0.80%	28.1	1.04%
PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer	GSCTGTCACTCA	1e0	-1.417e-01	1.0000	4.0	0.13%	6.8	0.25%
Hnf1(Homeobox)/Liver-Foxa2-Chip-Seq(GSE25694)/Homer	GGTTAAWCATTAA	1e0	-1.393e-01	1.0000	18.0	0.60%	22.3	0.83%
Nkx3.1(Homeobox)/LNCaP-Nkx3.1-ChIP-Seq(GSE28264)/Homer	AAGCACTTAA	1e0	-1.336e-01	1.0000	241.0	8.03%	239.3	8.85%
CArG(MADS)/PUER-Srf-ChIP-Seq(Sullivan_et_al.)/Homer	CCATATATGGNM	1e0	-1.331e-01	1.0000	16.0	0.53%	20.3	0.75%
Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq(GSE22178)/Homer	MAATCACTGC	1e0	-1.299e-01	1.0000	86.0	2.87%	91.9	3.40%
Znf263(Zf)/K562-Znf263-ChIP-Seq(GSE31477)/Homer	CVGTSCTCCC	1e0	-1.264e-01	1.0000	95.0	3.17%	101.0	3.74%
Tbox:Smad(T-box,MAD)/ESCd5-Smad2_3-ChIP-Seq(GSE29422)/Homer	AGGTGHCAGACA	1e0	-1.246e-01	1.0000	7.0	0.23%	10.5	0.39%
ZNF675(Zf)/HEK293-ZNF675.GFP-ChIP-Seq(GSE58341)/Homer	ARGAGGMCAAAATGW	1e0	-1.246e-01	1.0000	7.0	0.23%	10.5	0.39%
ZFX(Zf)/mES-Zfx-ChIP-Seq(GSE11431)/Homer	AGGCCTRG	1e0	-1.238e-01	1.0000	133.0	4.43%	137.9	5.10%
E2F(E2F)/Hela-CellCycle-Expression/Homer	TTSGCGCGAAAA	1e0	-1.196e-01	1.0000	3.0	0.10%	5.5	0.20%
NFkB-p50,p52(RHD)/Monocyte-p50-ChIP-Chip(Schreiber_et_al.)/Homer	GGGGGAATCCCC	1e0	-1.196e-01	1.0000	3.0	0.10%	5.6	0.21%
CES-1(Homeobox)/cElegans-L1-CES1-ChIP-Seq(modEncode)/Homer	AAATTSAATTTN	1e0	-1.168e-01	1.0000	61.0	2.03%	67.9	2.51%
Initiator/Drosophila-Promoters/Homer	NTCAGTYG	1e0	-1.138e-01	1.0000	256.0	8.53%	255.7	9.46%
CEBP:CEBP(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	NTNATGCAAYMNNHTGMAAY	1e0	-1.113e-01	1.0000	11.0	0.37%	15.1	0.56%
ARE(NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	RGRACASNSTGTYCYB	1e0	-1.054e-01	1.0000	10.0	0.33%	14.6	0.54%
DPL-1(E2F)/cElegans-Adult-ChIP-Seq(modEncode)/Homer	TAGCGCGC	1e0	-1.027e-01	1.0000	30.0	1.00%	36.9	1.37%
Tbx5(T-box)/HL1-Tbx5.biotin-ChIP-Seq(GSE21529)/Homer	AGGTGTCA	1e0	-1.019e-01	1.0000	346.0	11.53%	341.8	12.65%
Unknown3/Drosophila-Promoters/Homer	ACVAKCTGGCAGCGC	1e0	-9.256e-02	1.0000	14.0	0.47%	19.6	0.72%
DMRT1(DM)/Testis-DMRT1-ChIP-Seq(GSE64892)/Homer	TWGHWACAWTGTWDC	1e0	-9.173e-02	1.0000	23.0	0.77%	29.7	1.10%
ISRE(IRF)/ThioMac-LPS-Expression(GSE23622)/Homer	AGTTTCASTTTC	1e0	-9.062e-02	1.0000	2.0	0.07%	4.5	0.17%
KLF10(Zf)/HEK293-KLF10.GFP-ChIP-Seq(GSE58341)/Homer	GGGGGTGTGTCC	1e0	-8.969e-02	1.0000	22.0	0.73%	29.0	1.07%
SeqBias: polyC-repeat	CCCCCCCCCC	1e0	-7.385e-02	1.0000	2353.0	78.43%	2161.6	79.99%
Nanog(Homeobox)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	RGCCATTAAC	1e0	-7.255e-02	1.0000	591.0	19.70%	574.7	21.26%
Tcf4(HMG)/Hct116-Tcf4-ChIP-Seq(SRA012054)/Homer	ASATCAAAGGVA	1e0	-7.206e-02	1.0000	37.0	1.23%	45.2	1.67%
PAX3:FKHR-fusion(Paired,Homeobox)/Rh4-PAX3:FKHR-ChIP-Seq(GSE19063)/Homer	ACCRTGACTAATTNN	1e0	-7.089e-02	1.0000	15.0	0.50%	21.8	0.81%
ZNF136(Zf)/HEK293-ZNF136.GFP-ChIP-Seq(GSE58341)/Homer	YTKGATAHAGTATTCTWGGTNGGCA	1e0	-6.792e-02	1.0000	9.0	0.30%	14.8	0.55%
ZBTB18(Zf)/HEK293-ZBTB18.GFP-ChIP-Seq(GSE58341)/Homer	AACATCTGGA	1e0	-6.740e-02	1.0000	52.0	1.73%	61.8	2.29%
Sox2(HMG)/mES-Sox2-ChIP-Seq(GSE11431)/Homer	BCCATTGTTC	1e0	-6.304e-02	1.0000	96.0	3.20%	106.5	3.94%
Eomes(T-box)/H9-Eomes-ChIP-Seq(GSE26097)/Homer	ATTAACACCT	1e0	-5.651e-02	1.0000	221.0	7.37%	229.6	8.50%
Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo_et_al.)/Homer	TBGCACGCAA	1e0	-5.521e-02	1.0000	51.0	1.70%	61.8	2.29%
CHR(?)/Hela-CellCycle-Expression/Homer	SRGTTTCAAA	1e0	-5.521e-02	1.0000	51.0	1.70%	61.9	2.29%
Sox9(HMG)/Limb-SOX9-ChIP-Seq(GSE73225)/Homer	AGGVNCCTTTGT	1e0	-5.387e-02	1.0000	86.0	2.87%	98.0	3.62%
ZBTB33(Zf)/GM12878-ZBTB33-ChIP-Seq(GSE32465)/Homer	GGVTCTCGCGAGAAC	1e0	-5.168e-02	1.0000	1.0	0.03%	3.4	0.13%
GRE(NR),IR3/A549-GR-ChIP-Seq(GSE32465)/Homer	NRGVACABNVTGTYCY	1e0	-3.937e-02	1.0000	5.0	0.17%	10.4	0.39%
Mef2c(MADS)/GM12878-Mef2c-ChIP-Seq(GSE32465)/Homer	DCYAAAAATAGM	1e0	-3.829e-02	1.0000	54.0	1.80%	66.1	2.44%
HNF6(Homeobox)/Liver-Hnf6-ChIP-Seq(ERP000394)/Homer	NTATYGATCH	1e0	-3.625e-02	1.0000	70.0	2.33%	83.8	3.10%
ZNF415(Zf)/HEK293-ZNF415.GFP-ChIP-Seq(GSE58341)/Homer	GRTGMTRGAGCC	1e0	-3.588e-02	1.0000	36.0	1.20%	47.2	1.75%
VDR(NR),DR3/GM10855-VDR+vitD-ChIP-Seq(GSE22484)/Homer	ARAGGTCANWGAGTTCANNN	1e0	-3.557e-02	1.0000	7.0	0.23%	13.2	0.49%
MyoG(bHLH)/C2C12-MyoG-ChIP-Seq(GSE36024)/Homer	AACAGCTG	1e0	-3.382e-02	1.0000	92.0	3.07%	106.5	3.94%
KANADI1(Myb)/Seedling-KAN1-ChIP-Seq(GSE48081)/Homer	ARGAATAWWN	1e0	-3.053e-02	1.0000	122.0	4.07%	137.8	5.10%
NFAT(RHD)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	ATTTTCCATT	1e0	-2.808e-02	1.0000	62.0	2.07%	76.6	2.83%
SOC1(MADS)/Seedling-SOC1-ChIP-Seq(GSE45846)/Homer	TWCCAWWTWTGG	1e0	-2.664e-02	1.0000	20.0	0.67%	30.3	1.12%
HRE(HSF)/Striatum-HSF1-ChIP-Seq(GSE38000)/Homer	TTCTAGAABNTTCTA	1e0	-2.650e-02	1.0000	15.0	0.50%	25.0	0.92%
Lhx2(Homeobox)/HFSC-Lhx2-ChIP-Seq(GSE48068)/Homer	TAATTAGN	1e0	-2.542e-02	1.0000	104.0	3.47%	120.9	4.47%
PCF/Arabidopsis-Promoters/Homer	NNWWWTGGGCYTDDN	1e0	-2.440e-02	1.0000	14.0	0.47%	23.1	0.85%
ZNF41(Zf)/HEK293-ZNF41.GFP-ChIP-Seq(GSE58341)/Homer	CCTCATGGTGYCYTWYTCCCTTGTG	1e0	-2.414e-02	1.0000	1.0	0.03%	4.1	0.15%
SFP1/SacCer-Promoters/Homer	DDAAAAATTTTY	1e0	-2.404e-02	1.0000	5.0	0.17%	11.6	0.43%
THRa(NR)/C17.2-THRa-ChIP-Seq(GSE38347)/Homer	GGTCANYTGAGGWCA	1e0	-2.192e-02	1.0000	22.0	0.73%	33.0	1.22%
Pax7(Paired,Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCAATTA	1e0	-1.810e-02	1.0000	4.0	0.13%	11.0	0.41%
Otx2(Homeobox)/EpiLC-Otx2-ChIP-Seq(GSE56098)/Homer	NYTAATCCYB	1e0	-1.638e-02	1.0000	117.0	3.90%	137.0	5.07%
CEBP:AP1(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	DRTGTTGCAA	1e0	-1.323e-02	1.0000	106.0	3.53%	126.4	4.68%
HNF4a(NR),DR1/HepG2-HNF4a-ChIP-Seq(GSE25021)/Homer	CARRGKBCAAAGTYCA	1e0	-1.171e-02	1.0000	33.0	1.10%	48.5	1.80%
ZNF317(Zf)/HEK293-ZNF317.GFP-ChIP-Seq(GSE58341)/Homer	GTCWGCTGTYYCTCT	1e0	-1.135e-02	1.0000	1.0	0.03%	6.0	0.22%
Unknown4/Arabidopsis-Promoters/Homer	CKTCKTCTTY	1e0	-7.826e-03	1.0000	61.0	2.03%	81.5	3.02%
DMRT6(DM)/Testis-DMRT6-ChIP-Seq(GSE60440)/Homer	YDGHTACAWTGTADC	1e0	-7.063e-03	1.0000	13.0	0.43%	25.1	0.93%
Mef2b(MADS)/HEK293-Mef2b.V5-ChIP-Seq(GSE67450)/Homer	GCTATTTTTGGM	1e0	-6.024e-03	1.0000	98.0	3.27%	122.2	4.52%
MyoD(bHLH)/Myotube-MyoD-ChIP-Seq(GSE21614)/Homer	RRCAGCTGYTSY	1e0	-4.698e-03	1.0000	59.0	1.97%	81.3	3.01%
NFY(CCAAT)/Promoter/Homer	RGCCAATSRG	1e0	-3.910e-03	1.0000	61.0	2.03%	84.0	3.11%
EGL-5(Homeobox)/cElegans-L3-EGL5-ChIP-Seq(modEncode)/Homer	ATTTAATGGG	1e0	-3.880e-03	1.0000	163.0	5.43%	192.5	7.12%
Nkx6.1(Homeobox)/Islet-Nkx6.1-ChIP-Seq(GSE40975)/Homer	GKTAATGR	1e0	-2.356e-03	1.0000	354.0	11.80%	386.6	14.31%
TATA-Box(TBP)/Promoter/Homer	CCTTTTAWAGSC	1e0	-2.334e-03	1.0000	116.0	3.87%	146.6	5.42%
Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer	BAACAGCTGT	1e0	-1.811e-03	1.0000	53.0	1.77%	78.7	2.91%
Isl1(Homeobox)/Neuron-Isl1-ChIP-Seq(GSE31456)/Homer	CTAATKGV	1e0	-1.414e-03	1.0000	196.0	6.53%	232.3	8.60%
Mef2a(MADS)/HL1-Mef2a.biotin-ChIP-Seq(GSE21529)/Homer	CYAAAAATAG	1e0	-1.142e-03	1.0000	34.0	1.13%	57.6	2.13%
GAGA-repeat/Arabidopsis-Promoters/Homer	CTCTCTCTCY	1e0	-9.320e-04	1.0000	70.0	2.33%	100.3	3.71%
Nkx2.5(Homeobox)/HL1-Nkx2.5.biotin-ChIP-Seq(GSE21529)/Homer	RRSCACTYAA	1e0	-1.480e-04	1.0000	179.0	5.97%	227.5	8.42%
Nkx2.1(Homeobox)/LungAC-Nkx2.1-ChIP-Seq(GSE43252)/Homer	RSCACTYRAG	1e0	-1.380e-04	1.0000	240.0	8.00%	291.4	10.78%
Trl(Zf)/S2-GAGAfactor-ChIP-Seq(GSE40646)/Homer	RGAGAGAG	1e0	-2.000e-06	1.0000	161.0	5.37%	227.5	8.42%
Nkx2.2(Homeobox)/NPC-Nkx2.2-ChIP-Seq(GSE61673)/Homer	BTBRAGTGSN	1e0	-2.000e-06	1.0000	148.0	4.93%	213.7	7.91%
Unknown6/Drosophila-Promoters/Homer	AATTTTAAAA	1e0	-0.000e+00	1.0000	49.0	1.63%	99.7	3.69%
Bapx1(Homeobox)/VertebralCol-Bapx1-ChIP-Seq(GSE36672)/Homer	TTRAGTGSYK	1e0	-0.000e+00	1.0000	190.0	6.33%	270.5	10.01%
RLR1?/SacCer-Promoters/Homer	WTTTTCYYTTTT	1e0	-0.000e+00	1.0000	24.0	0.80%	70.1	2.60%
TATA-box/SacCer-Promoters/Homer	BBHWTATATA	1e0	-0.000e+00	1.0000	28.0	0.93%	82.1	3.04%
SEP3(MADS)/Arabidoposis-Flower-Sep3-ChIP-Seq/Homer	CCAAAAAGGG	1e0	-0.000e+00	1.0000	64.0	2.13%	177.7	6.58%
GEI-11(Myb?)/cElegans-L4-GEI11-ChIP-Seq(modEncode)/Homer	CCGACAYYTYACGGG	1e0	-0.000e+00	1.0000	0.0	0.00%	2.9	0.11%
EFL-1(E2F)/cElegans-L1-EFL1-ChIP-Seq(modEncode)/Homer	TGCAARYGCGCTCYA	1e0	-0.000e+00	1.0000	0.0	0.00%	2.1	0.08%
Unknown2/Arabidopsis-Promoters/Homer	AAACGACGTCGTTTT	1e0	-0.000e+00	1.0000	0.0	0.00%	1.0	0.04%
OCT:OCT(POU,Homeobox,IR1)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATWATTCATGA	1e0	0.000e+00	1.0000	0.0	0.00%	0.3	0.01%
EBNA1(EBV-virus)/Raji-EBNA1-ChIP-Seq(GSE30709)/Homer	GGYAGCAYDTGCTDCCCNNN	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%
DREF/Drosophila-Promoters/Homer	AVYTATCGATAD	1e0	0.000e+00	1.0000	0.0	0.00%	0.5	0.02%
ZNF528(Zf)/HEK293-ZNF528.GFP-ChIP-Seq(GSE58341)/Homer	AGAAATGACTTCCCT	1e0	0.000e+00	1.0000	0.0	0.00%	0.4	0.01%
T1ISRE(IRF)/ThioMac-Ifnb-Expression/Homer	ACTTTCGTTTCT	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
 Ik-1	NHTTGGGAATRCC	1e0	0.000e+00	1.0000	3000.0	100.00%	2702.5	100.00%
ZFP3(Zf)/HEK293-ZFP3.GFP-ChIP-Seq(GSE58341)/Homer	GGGTTTTGAAGGATGARTAGGAGTT	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
RARg(NR)/ES-RARg-ChIP-Seq(GSE30538)/Homer	AGGTCAAGGTCA	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
OCT:OCT(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	ATGAATATTCATGAG	1e0	0.000e+00	1.0000	0.0	0.00%	0.4	0.01%
GFX(?)/Promoter/Homer	ATTCTCGCGAGA	1e0	0.000e+00	1.0000	0.0	0.00%	0.5	0.02%
ZNF16(Zf)/HEK293-ZNF16.GFP-ChIP-Seq(GSE58341)/Homer	MACCTTCYATGGCTCCCTAKTGCCY	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%