Motif Name	Consensus	P-value	Log P-value	q-value (Benjamini)	# of Target Sequences with Motif(of 1761)	% of Target Sequences with Motif	# of Background Sequences with Motif(of 46187)	% of Background Sequences with Motif
FOXA1(Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WAAGTAAACA	1e-135	-3.122e+02	0.0000	747.0	42.42%	7907.2	17.12%
Foxa2(Forkhead)/Liver-Foxa2-ChIP-Seq(GSE25694)/Homer	CYTGTTTACWYW	1e-133	-3.072e+02	0.0000	562.0	31.91%	4774.0	10.33%
FOXA1(Forkhead)/MCF7-FOXA1-ChIP-Seq(GSE26831)/Homer	WAAGTAAACA	1e-133	-3.068e+02	0.0000	666.0	37.82%	6514.1	14.10%
Fox:Ebox(Forkhead:HLH)/Panc1-Foxa2-ChIP-Seq(GSE47459)/Homer	NNNVCTGWGYAAACASN	1e-128	-2.954e+02	0.0000	566.0	32.14%	4973.7	10.77%
Nkx6.1(Homeobox)/Islet-Nkx6.1-ChIP-Seq(GSE40975)/Homer	GKTAATGR	1e-120	-2.771e+02	0.0000	1235.0	70.13%	19642.3	42.52%
Lhx3(Homeobox)/Neuron-Lhx3-ChIP-Seq(GSE31456)/Homer	ADBTAATTAR	1e-112	-2.584e+02	0.0000	936.0	53.15%	12738.5	27.58%
Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer	SCCTAGCAACAG	1e-97	-2.248e+02	0.0000	223.0	12.66%	990.0	2.14%
Lhx2(Homeobox)/HFSC-Lhx2-ChIP-Seq(GSE48068)/Homer	TAATTAGN	1e-87	-2.014e+02	0.0000	665.0	37.76%	8172.5	17.69%
HNF6(Homeobox)/Liver-Hnf6-ChIP-Seq(ERP000394)/Homer	NTATYGATCH	1e-75	-1.730e+02	0.0000	365.0	20.73%	3280.3	7.10%
PHA-4(Forkhead)/cElegans-Embryos-PHA4-ChIP-Seq(modEncode)/Homer	KTGTTTGC	1e-73	-1.702e+02	0.0000	1079.0	61.27%	18325.3	39.67%
Isl1(Homeobox)/Neuron-Isl1-ChIP-Seq(GSE31456)/Homer	CTAATKGV	1e-63	-1.457e+02	0.0000	777.0	44.12%	11798.4	25.54%
Nanog(Homeobox)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	RGCCATTAAC	1e-62	-1.443e+02	0.0000	1198.0	68.03%	22271.5	48.21%
NeuroD1(bHLH)/Islet-NeuroD1-ChIP-Seq(GSE30298)/Homer	GCCATCTGTT	1e-60	-1.385e+02	0.0000	285.0	16.18%	2482.2	5.37%
Pdx1(Homeobox)/Islet-Pdx1-ChIP-Seq(SRA008281)/Homer	YCATYAATCA	1e-55	-1.284e+02	0.0000	494.0	28.05%	6296.2	13.63%
Atoh1(bHLH)/Cerebellum-Atoh1-ChIP-Seq(GSE22111)/Homer	VNRVCAGCTGGY	1e-55	-1.280e+02	0.0000	326.0	18.51%	3274.4	7.09%
PDX1/HOCOMOCO	RGTAATTAG	1e-51	-1.190e+02	0.0000	303.0	17.21%	3032.2	6.56%
Isl2-mouse/Jaspar	MHMAATYAATTAAKWT	1e-49	-1.137e+02	0.0000	668.0	37.93%	10270.9	22.23%
HOXA9(Homeobox)/HSC-Hoxa9-ChIP-Seq(GSE33509)/Homer	GGCCATAAATCA	1e-49	-1.131e+02	0.0000	366.0	20.78%	4214.9	9.12%
LIN-39(Homeobox)/cElegans.L3-LIN39-ChIP-Seq(modEncode)/Homer	ATGATTRATG	1e-45	-1.049e+02	0.0000	596.0	33.84%	8960.7	19.40%
Olig2(bHLH)/Neuron-Olig2-ChIP-Seq(GSE30882)/Homer	RCCATMTGTT	1e-45	-1.044e+02	0.0000	540.0	30.66%	7795.0	16.87%
Foxo1(Forkhead)/RAW-Foxo1-ChIP-Seq(Fan et al.)/Homer	CTGTTTAC	1e-43	-1.012e+02	0.0000	577.0	32.77%	8659.6	18.75%
RFX1/HOCOMOCO	GTTGCYAGGGAA	1e-42	-9.828e+01	0.0000	76.0	4.32%	240.6	0.52%
Hoxc9(Homeobox)/Ainv15-Hoxc9-ChIP-Seq(GSE21812)/Homer	GGCCATAAATCA	1e-40	-9.365e+01	0.0000	295.0	16.75%	3315.5	7.18%
Ptf1a(HLH)/Panc1-Ptf1a-ChIP-Seq(GSE47459)/Homer	ACAGCTGTTN	1e-40	-9.243e+01	0.0000	545.0	30.95%	8231.6	17.82%
FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer	NYYTGTTTACHN	1e-39	-9.043e+01	0.0000	248.0	14.08%	2570.4	5.56%
RFX2/HOCOMOCO	KGTTGCYAGGSAA	1e-39	-9.034e+01	0.0000	56.0	3.18%	125.8	0.27%
EGL-5(Homeobox)/cElegans-L3-EGL5-ChIP-Seq(modEncode)/Homer	ATTTAATGGG	1e-35	-8.276e+01	0.0000	627.0	35.60%	10329.6	22.36%
Unknown(Homeobox)/Limb-p300-ChIP-Seq/Homer	SSCMATWAAA	1e-32	-7.389e+01	0.0000	337.0	19.14%	4506.4	9.76%
Hoxb4(Homeobox)/ES-Hoxb4-ChIP-Seq(GSE34014)/Homer	TGATTRATGGCY	1e-30	-6.962e+01	0.0000	134.0	7.61%	1094.1	2.37%
HOXD13(Homeobox)/Chicken-Hoxd13-ChIP-Seq(GSE38910)/Homer	NCYAATAAAA	1e-28	-6.542e+01	0.0000	494.0	28.05%	7991.1	17.30%
Nkx2.5(Homeobox)/HL1-Nkx2.5.biotin-ChIP-Seq(GSE21529)/Homer	RRSCACTYAA	1e-27	-6.443e+01	0.0000	531.0	30.15%	8838.7	19.13%
caudal(Homeobox)/Drosophila-Embryos-ChIP-Chip(modEncode)/Homer	GGYCATAAAW	1e-27	-6.359e+01	0.0000	365.0	20.73%	5335.8	11.55%
ISL1/HOCOMOCO	SYTAATG	1e-27	-6.302e+01	0.0000	495.0	28.11%	8097.6	17.53%
RFX1..5_RFXANK_RFXAP.p2/SwissRegulon	CSGTCGCCATGGCAACVG	1e-24	-5.711e+01	0.0000	80.0	4.54%	505.6	1.09%
SCL(HLH)/HPC7-Scl-ChIP-Seq(GSE13511)/Homer	AVCAGCTG	1e-23	-5.369e+01	0.0000	833.0	47.30%	16443.2	35.60%
HLH-1(bHLH)/cElegans-Embryo-HLH1-ChIP-Seq(modEncode)/Homer	RACAGCTGTTBH	1e-22	-5.079e+01	0.0000	236.0	13.40%	3147.5	6.81%
Tal1	CATCTG	1e-21	-5.035e+01	0.0000	358.0	20.33%	5605.7	12.14%
RFX3/HOCOMOCO	BGTTGCCATGGTAA	1e-21	-4.999e+01	0.0000	56.0	3.18%	285.7	0.62%
HOXA2(Homeobox)/mES-Hoxa2-ChIP-Seq(Donaldson et al.)/Homer	GYCATCMATCAT	1e-21	-4.914e+01	0.0000	75.0	4.26%	512.9	1.11%
Cdx2(Homeobox)/mES-Cdx2-ChIP-Seq(GSE14586)/Homer	GYMATAAAAH	1e-21	-4.898e+01	0.0000	327.0	18.57%	5006.1	10.84%
pax6-mouse/Jaspar	TGAYTAATTAATTNAC	1e-20	-4.781e+01	0.0000	277.0	15.73%	4027.7	8.72%
Nkx3.1(Homeobox)/LNCaP-Nkx3.1-ChIP-Seq(GSE28264)/Homer	AAGCACTTAA	1e-20	-4.770e+01	0.0000	562.0	31.91%	10224.4	22.13%
Ap4(HLH)/AML-Tfap4-ChIP-Seq(GSE45738)/Homer	NAHCAGCTGD	1e-20	-4.769e+01	0.0000	265.0	15.05%	3792.4	8.21%
Nkx2.1(Homeobox)/LungAC-Nkx2.1-ChIP-Seq(GSE43252)/Homer	RSCACTYRAG	1e-20	-4.647e+01	0.0000	602.0	34.19%	11215.0	24.28%
Pax6-mouse/UniProbe	TGAYTAATTAATTNAC	1e-20	-4.646e+01	0.0000	263.0	14.93%	3788.9	8.20%
Rfx1(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	KGTTGCCATGGCAA	1e-18	-4.257e+01	0.0000	69.0	3.92%	497.7	1.08%
MyoG(HLH)/C2C12-MyoG-ChIP-Seq(GSE36024)/Homer	AACAGCTG	1e-15	-3.605e+01	0.0000	209.0	11.87%	3027.6	6.55%
E2A(HLH)/proBcell-E2A-ChIP-Seq(GSE21978)/Homer	DNRCAGCTGY	1e-15	-3.482e+01	0.0000	250.0	14.20%	3894.2	8.43%
EBF(EBF)/proBcell-EBF-ChIP-Seq(GSE21978)/Homer	DGTCCCYRGGGA	1e-14	-3.430e+01	0.0000	49.0	2.78%	320.7	0.69%
X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	GGTTGCCATGGCAA	1e-14	-3.400e+01	0.0000	50.0	2.84%	335.9	0.73%
RFX(HTH)/K562-RFX3-ChIP-Seq(SRA012198)/Homer	CGGTTGCCATGGCAAC	1e-13	-3.184e+01	0.0000	32.0	1.82%	148.8	0.32%
Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer	GTTGCCATGGCAACM	1e-13	-3.181e+01	0.0000	37.0	2.10%	200.4	0.43%
HNF4a(NR/DR1)/HepG2-HNF4a-ChIP-Seq(GSE25021)/Homer	CARRGKBCAAAGTYCA	1e-13	-3.100e+01	0.0000	109.0	6.19%	1283.5	2.78%
Lmx1a-mouse/Jaspar	CGAWTTAATTAAAAAYY	1e-13	-3.070e+01	0.0000	158.0	8.97%	2189.8	4.74%
EBF1(EBF)/Near-E2A-ChIP-Seq(GSE21512)/Homer	GTCCCCWGGGGA	1e-13	-3.010e+01	0.0000	132.0	7.50%	1716.1	3.72%
MyoD(HLH)/Myotube-MyoD-ChIP-Seq(GSE21614)/Homer	RRCAGCTGYTSY	1e-11	-2.730e+01	0.0000	146.0	8.29%	2054.7	4.45%
Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer	BAACAGCTGT	1e-11	-2.709e+01	0.0000	146.0	8.29%	2060.0	4.46%
Eomes(T-box)/H9-Eomes-ChIP-Seq(GSE26097)/Homer	ATTAACACCT	1e-11	-2.691e+01	0.0000	554.0	31.46%	11155.6	24.15%
Hnf1(Homeobox)/Liver-Foxa2-Chip-Seq(GSE25694)/Homer	GGTTAAWCATTAA	1e-10	-2.523e+01	0.0000	97.0	5.51%	1195.0	2.59%
Pax7(Paired/Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCAATTA	1e-10	-2.427e+01	0.0000	71.0	4.03%	767.5	1.66%
Lmx1b-mouse/Jaspar	VRWWWTTAATTAATWHB	1e-10	-2.372e+01	0.0000	83.0	4.71%	981.9	2.13%
Tcf12(HLH)/GM12878-Tcf12-ChIP-Seq(GSE32465)/Homer	VCAGCTGYTG	1e-10	-2.348e+01	0.0000	170.0	9.65%	2653.1	5.74%
Fli1(ETS)/CD8-FLI-ChIP-Seq(GSE20898)/Homer	NRYTTCCGGH	1e-9	-2.267e+01	0.0000	178.0	10.11%	2847.1	6.16%
Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer	NRYTTCCGGY	1e-9	-2.173e+01	0.0000	82.0	4.66%	1006.0	2.18%
EWS:FLI1-fusion(ETS)/SK_N_MC-EWS:FLI1-ChIP-Seq(SRA014231)/Homer	VACAGGAAAT	1e-9	-2.095e+01	0.0000	111.0	6.30%	1563.7	3.39%
Lmx1b-mouse/UniProbe	VRWWWTTAATTAATWHB	1e-9	-2.093e+01	0.0000	75.0	4.26%	900.3	1.95%
GABPA(ETS)/Jurkat-GABPa-ChIP-Seq(GSE17954)/Homer	RACCGGAAGT	1e-9	-2.092e+01	0.0000	143.0	8.12%	2195.3	4.75%
ETV1(ETS)/GIST48-ETV1-ChIP-Seq(GSE22441)/Homer	AACCGGAAGT	1e-8	-2.028e+01	0.0000	211.0	11.98%	3645.4	7.89%
ETS1(ETS)/Jurkat-ETS1-ChIP-Seq(GSE17954)/Homer	ACAGGAAGTG	1e-8	-2.018e+01	0.0000	175.0	9.94%	2882.1	6.24%
Six1(Homeobox)/Myoblast-Six1-ChIP-Chip(GSE20150)/Homer	GKVTCADRTTWC	1e-8	-1.968e+01	0.0000	80.0	4.54%	1017.7	2.20%
AMYB(HTH)/Testes-AMYB-ChIP-Seq(GSE44588)/Homer	TGGCAGTTGG	1e-8	-1.964e+01	0.0000	354.0	20.10%	6895.9	14.93%
BMYB(HTH)/Hela-BMYB-ChIPSeq(GSE27030)/Homer	NHAACBGYYV	1e-8	-1.896e+01	0.0000	368.0	20.90%	7265.9	15.73%
Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer	HACTTCCGGY	1e-8	-1.869e+01	0.0000	75.0	4.26%	950.7	2.06%
ERG(ETS)/VCaP-ERG-ChIP-Seq(GSE14097)/Homer	ACAGGAAGTG	1e-8	-1.857e+01	0.0000	263.0	14.93%	4878.9	10.56%
Ets1-distal(ETS)/CD4+-PolII-ChIP-Seq(Barski et al.)/Homer	MACAGGAAGT	1e-7	-1.753e+01	0.0000	69.0	3.92%	869.7	1.88%
Atf3(bZIP)/GBM-ATF3-ChIP-Seq(GSE33912)/Homer	DATGASTCATHN	1e-7	-1.752e+01	0.0000	176.0	9.99%	3017.9	6.53%
TR4(NR/DR1)/Hela-TR4-ChIP-Seq(GSE24685)/Homer	GAGGTCAAAGGTCA	1e-7	-1.743e+01	0.0000	26.0	1.48%	184.9	0.40%
Erra(NR)/HepG2-Erra-ChIP-Seq(GSE31477)/Homer	CAAAGGTCAG	1e-7	-1.703e+01	0.0000	303.0	17.21%	5880.3	12.73%
NF1-halfsite(CTF)/LNCaP-NF1-ChIP-Seq(Unpublished)/Homer	YTGCCAAG	1e-7	-1.693e+01	0.0000	320.0	18.17%	6280.3	13.60%
PPARE(NR/DR1)/3T3L1-Pparg-ChIP-Seq(GSE13511)/Homer	TGACCTTTGCCCCA	1e-7	-1.662e+01	0.0000	144.0	8.18%	2377.3	5.15%
Phox2a(Homeobox)/Neuron-Phox2a-ChIP-Seq(GSE31456)/Homer	YTAATYNRATTA	1e-7	-1.639e+01	0.0000	186.0	10.56%	3286.2	7.11%
E-box/Drosophila-Promoters/Homer	AACAGCTGTTHN	1e-6	-1.567e+01	0.0000	68.0	3.86%	896.1	1.94%
EWS:ERG-fusion(ETS)/CADO_ES1-EWS:ERG-ChIP-Seq(SRA014231)/Homer	ATTTCCTGTN	1e-6	-1.556e+01	0.0000	167.0	9.48%	2914.5	6.31%
EHF(ETS)/LoVo-EHF-ChIP-Seq(GSE49402)/Homer	AVCAGGAAGT	1e-6	-1.530e+01	0.0000	231.0	13.12%	4343.8	9.40%
BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer	DATGASTCAT	1e-6	-1.490e+01	0.0000	169.0	9.60%	2989.1	6.47%
MYB(HTH)/ERMYB-Myb-ChIPSeq(GSE22095)/Homer	GGCVGTTR	1e-6	-1.453e+01	0.0000	390.0	22.15%	8106.0	17.55%
E2A-nearPU.1(HLH)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	NVCACCTGBN	1e-6	-1.415e+01	0.0000	208.0	11.81%	3892.9	8.43%
Gata4(Zf)/Heart-Gata4-ChIP-Seq(GSE35151)/Homer	NBWGATAAGR	1e-6	-1.408e+01	0.0000	274.0	15.56%	5403.9	11.70%
ELF5(ETS)/T47D-ELF5-ChIP-Seq(GSE30407)/Homer	ACVAGGAAGT	1e-6	-1.395e+01	0.0000	144.0	8.18%	2494.2	5.40%
NF1(CTF)/LNCAP-NF1-ChIP-Seq(Unpublished)/Homer	CYTGGCABNSTGCCAR	1e-6	-1.395e+01	0.0000	56.0	3.18%	719.2	1.56%
SeqBias: CG bias	SSSSSSSSSS	1e-6	-1.383e+01	0.0000	722.0	41.00%	16396.7	35.50%
CES-1(Homeobox)/cElegans-L1-CES1-ChIP-Seq(modEncode)/Homer	AAATTSAATTTN	1e-5	-1.325e+01	0.0000	225.0	12.78%	4331.7	9.38%
SeqBias: polyC-repeat	CCCCCCCCCC	1e-5	-1.293e+01	0.0000	1648.0	93.58%	41816.0	90.52%
Tbx5(T-box)/HL1-Tbx5.biotin-ChIP-Seq(GSE21529)/Homer	AGGTGTCA	1e-5	-1.277e+01	0.0000	550.0	31.23%	12175.2	26.36%
Gata2(Zf)/K562-GATA2-ChIP-Seq(GSE18829)/Homer	BBCTTATCTS	1e-5	-1.277e+01	0.0000	176.0	9.99%	3256.0	7.05%
ELF1(ETS)/Jurkat-ELF1-ChIP-Seq(SRA014231)/Homer	AVCCGGAAGT	1e-4	-1.150e+01	0.0000	59.0	3.35%	840.2	1.82%
Gata1(Zf)/K562-GATA1-ChIP-Seq(GSE18829)/Homer	SAGATAAGRV	1e-4	-1.119e+01	0.0000	152.0	8.63%	2810.4	6.08%
AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	VTGACTCATC	1e-4	-1.097e+01	0.0001	172.0	9.77%	3271.5	7.08%
Nur77(NR)/K562-NR4A1-ChIP-Seq(GSE31363)/Homer	TGACCTTTNCNT	1e-4	-1.095e+01	0.0001	57.0	3.24%	818.5	1.77%
RXR(NR/DR1)/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer	TAGGGCAAAGGTCA	1e-4	-1.092e+01	0.0001	144.0	8.18%	2648.4	5.73%
Stat3+il21(Stat)/CD4-Stat3-ChIP-Seq(GSE19198)/Homer	SVYTTCCNGGAARB	1e-4	-1.071e+01	0.0001	127.0	7.21%	2285.0	4.95%
GATA3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATAASR	1e-4	-1.002e+01	0.0001	396.0	22.49%	8654.6	18.74%
Tlx?(NR)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	CTGGCAGSCTGCCA	1e-4	-9.424e+00	0.0003	54.0	3.07%	808.0	1.75%
SeqBias: A/T bias	WWWWWWWWWW	1e-3	-9.204e+00	0.0003	1746.0	99.15%	45273.5	98.01%
IRF4(IRF)/GM12878-IRF4-ChIP-Seq(GSE32465)/Homer	ACTGAAACCA	1e-3	-9.044e+00	0.0004	107.0	6.08%	1935.6	4.19%
TATA-Box(TBP)/Promoter/Homer	CCTTTTAWAGSC	1e-3	-9.023e+00	0.0004	328.0	18.63%	7097.0	15.36%
SeqBias: G/A bias	RRRRRRRRRR	1e-3	-8.874e+00	0.0004	1759.0	99.89%	45839.2	99.23%
PCF/Arabidopsis-Promoters/Homer	NNWWWTGGGCYTDDN	1e-3	-8.317e+00	0.0007	68.0	3.86%	1133.4	2.45%
SeqBias: TA-repeat	TATATATATA	1e-3	-8.257e+00	0.0008	979.0	55.59%	23760.4	51.44%
STAT4(Stat)/CD4-Stat4-ChIP-Seq(GSE22104)/Homer	NYTTCCWGGAAR	1e-3	-8.128e+00	0.0009	196.0	11.13%	4024.3	8.71%
Foxh1(Forkhead)/hESC-FOXH1-ChIP-Seq(GSE29422)/Homer	NNTGTGGATTSS	1e-3	-8.120e+00	0.0009	162.0	9.20%	3233.7	7.00%
PAX3:FKHR-fusion(Paired/Homeobox)/Rh4-PAX3:FKHR-ChIP-Seq(GSE19063)/Homer	ACCRTGACTAATTNN	1e-3	-7.688e+00	0.0013	66.0	3.75%	1118.2	2.42%
CRX(Homeobox)/Retina-Crx-ChIP-Seq(GSE20012)/Homer	GCTAATCC	1e-3	-7.389e+00	0.0018	529.0	30.04%	12275.0	26.57%
PAX6/SwissRegulon	TTCACGCTTGATTT	1e-3	-7.174e+00	0.0022	57.0	3.24%	951.1	2.06%
NF1:FOXA1/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WNTGTTTRYTTTGGCA	1e-3	-7.155e+00	0.0022	21.0	1.19%	248.7	0.54%
ELT-3(Gata)/cElegans-L1-ELT3-ChIP-Seq(modEncode)/Homer	AWTGATAAGA	1e-3	-7.044e+00	0.0024	141.0	8.01%	2828.0	6.12%
Jun-AP1(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	GATGASTCATCN	1e-3	-7.002e+00	0.0025	47.0	2.67%	751.9	1.63%
AP-2alpha(AP2)/Hela-AP2alpha-ChIP-Seq(GSE31477)/Homer	ATGCCCTGAGGC	1e-3	-6.920e+00	0.0027	68.0	3.86%	1196.9	2.59%
Unknown-ESC-element/mES-Nanog-ChIP-Seq(GSE11724)/Homer	CACAGCAGGGGG	1e-2	-6.649e+00	0.0035	69.0	3.92%	1231.5	2.67%
NFY(CCAAT)/Promoter/Homer	RGCCAATSRG	1e-2	-6.556e+00	0.0038	150.0	8.52%	3074.3	6.66%
MA0069.1_PAX6/Jaspar	TTCACGCWTGANTT	1e-2	-6.299e+00	0.0049	33.0	1.87%	494.7	1.07%
Cbf1(bHLH)/Yeast-Cbf1-ChIP-Seq(GSE29506)/Homer	TCACGTGAYH	1e-2	-6.160e+00	0.0056	41.0	2.33%	660.2	1.43%
PIF5ox(bHLH)/Arabidopsis-PIF5ox-ChIP-Seq(GSE35062)/Homer	BCACGTGVDN	1e-2	-6.149e+00	0.0056	151.0	8.57%	3131.5	6.78%
Tbx20(T-box)/Heart-Tbx20-ChIP-Seq(GSE29636)/Homer	GGTGYTGACAGS	1e-2	-6.081e+00	0.0060	44.0	2.50%	725.2	1.57%
Bcl6(Zf)/Liver-Bcl6-ChIP-Seq(GSE31578)/Homer	NNNCTTTCCAGGAAA	1e-2	-6.012e+00	0.0063	229.0	13.00%	5008.3	10.84%
PU.1(ETS)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	AGAGGAAGTG	1e-2	-5.844e+00	0.0074	73.0	4.15%	1363.0	2.95%
ETS(ETS)/Promoter/Homer	AACCGGAAGT	1e-2	-5.707e+00	0.0085	34.0	1.93%	534.2	1.16%
AP-2gamma(AP2)/MCF7-TFAP2C-ChIP-Seq(GSE21234)/Homer	SCCTSAGGSCAW	1e-2	-5.376e+00	0.0117	84.0	4.77%	1638.2	3.55%
DREF/Drosophila-Promoters/Homer	AVYTATCGATAD	1e-2	-5.223e+00	0.0135	6.0	0.34%	41.5	0.09%
CEBP:CEBP(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	NTNATGCAAYMNNHTGMAAY	1e-2	-5.190e+00	0.0138	46.0	2.61%	806.9	1.75%
Unknown5/Drosophila-Promoters/Homer	GCTGATAASV	1e-2	-5.048e+00	0.0158	129.0	7.33%	2708.8	5.86%
GAGA-repeat/Arabidopsis-Promoters/Homer	CTCTCTCTCY	1e-2	-4.855e+00	0.0191	144.0	8.18%	3082.7	6.67%
Esrrb(NR)/mES-Esrrb-ChIP-Seq(GSE11431)/Homer	KTGACCTTGA	1e-2	-4.686e+00	0.0224	91.0	5.17%	1848.3	4.00%
SeqBias: GCW-triplet	GCWGCWGCWGCW	1e-2	-4.671e+00	0.0226	1755.0	99.66%	45809.3	99.17%
Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq(GSE22178)/Homer	MAATCACTGC	1e-2	-4.670e+00	0.0226	131.0	7.44%	2790.3	6.04%
BMAL1(HLH)/Liver-Bmal1-ChIP-Seq(GSE39860)/Homer	GNCACGTG	1e-1	-4.558e+00	0.0249	281.0	15.96%	6463.8	13.99%
PAX6/HOCOMOCO	TCAWGCGTGAA	1e-1	-4.546e+00	0.0250	28.0	1.59%	454.6	0.98%
n-Myc(HLH)/mES-nMyc-ChIP-Seq(GSE11431)/Homer	VRCCACGTGG	1e-1	-4.445e+00	0.0275	70.0	3.98%	1382.7	2.99%
GATA-IR3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NNNNNBAGATAWYATCTVHN	1e-1	-4.356e+00	0.0298	39.0	2.21%	695.4	1.51%
SPDEF(ETS)/VCaP-SPDEF-ChIP-Seq(SRA014231)/Homer	ASWTCCTGBT	1e-1	-4.309e+00	0.0310	143.0	8.12%	3113.2	6.74%
Unknown3/Drosophila-Promoters/Homer	ACVAKCTGGCAGCGC	1e-1	-4.297e+00	0.0312	13.0	0.74%	167.4	0.36%
PQM-1(?)/cElegans-L3-ChIP-Seq(modEncode)/Homer	ACTGATAAGA	1e-1	-4.275e+00	0.0316	107.0	6.08%	2257.2	4.89%
PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer	GSCTGTCACTCA	1e-1	-4.253e+00	0.0321	13.0	0.74%	168.6	0.37%
SeqBias: C/A-bias	MMMMMMMMMM	1e-1	-4.220e+00	0.0330	1755.0	99.66%	45828.6	99.21%
CEBP(bZIP)/CEBPb-ChIP-Seq(GSE21512)/Homer	ATTGCGCAAC	1e-1	-4.148e+00	0.0352	177.0	10.05%	3955.8	8.56%
Atf1(bZIP)/K562-ATF1-ChIP-Seq(GSE31477)/Homer	GATGACGTCA	1e-1	-4.124e+00	0.0358	115.0	6.53%	2461.4	5.33%
ZNF711(Zf)/SH-SY5Y-ZNF711-ChIP-Seq(GSE20673)/Homer	AGGCCTAG	1e-1	-3.899e+00	0.0445	150.0	8.52%	3327.6	7.20%
REB1/SacCer-Promoters/Homer	KCCGGGTAAYRR	1e-1	-3.792e+00	0.0492	29.0	1.65%	506.6	1.10%
GATA-IR4(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NAGATWNBNATCTNN	1e-1	-3.777e+00	0.0496	27.0	1.53%	464.6	1.01%
FXR(NR/IR1)/Liver-FXR-ChIP-Seq(Chong et al.)/Homer	AGGTCANTGACCTB	1e-1	-3.412e+00	0.0710	45.0	2.56%	881.8	1.91%
NFAT(RHD)/Jurkat-NFATC1-ChIP-Seq(Jolma et al.)/Homer	ATTTTCCATT	1e-1	-3.342e+00	0.0757	191.0	10.85%	4405.3	9.54%
ZNF143|STAF(Zf)/CUTLL-ZNF143-ChIP-Seq(GSE29600)/Homer	ATTTCCCAGVAKSCY	1e-1	-3.240e+00	0.0832	33.0	1.87%	621.4	1.35%
VDR(NR/DR3)/GM10855-VDR+vitD-ChIP-Seq(GSE22484)/Homer	ARAGGTCANWGAGTTCANNN	1e-1	-3.220e+00	0.0843	25.0	1.42%	447.0	0.97%
Pitx1(Homeobox)/Chicken-Pitx1-ChIP-Seq(GSE38910)/Homer	TAATCCCN	1e-1	-3.180e+00	0.0873	878.0	49.86%	22065.5	47.77%
SUT1?/SacCer-Promoters/Homer	CCCCGCGC	1e-1	-3.128e+00	0.0912	445.0	25.27%	10858.9	23.51%
Initiator/Drosophila-Promoters/Homer	NTCAGTYG	1e-1	-3.095e+00	0.0938	451.0	25.61%	11019.8	23.86%
ZFX(Zf)/mES-Zfx-ChIP-Seq(GSE11431)/Homer	AGGCCTRG	1e-1	-3.091e+00	0.0938	118.0	6.70%	2643.6	5.72%
NPAS2(HLH)/Liver-NPAS2-ChIP-Seq(GSE39860)/Homer	KCCACGTGAC	1e-1	-3.072e+00	0.0947	137.0	7.78%	3110.0	6.73%
c-Jun-CRE(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	ATGACGTCATCY	1e-1	-3.012e+00	0.0999	46.0	2.61%	931.6	2.02%
Pax8(Paired/Homeobox)/Thyroid-Pax8-ChIP-Seq(GSE26938)/Homer	GTCATGCHTGRCTGS	1e-1	-2.893e+00	0.1119	29.0	1.65%	551.8	1.19%
SeqBias: CA-repeat	CACACACACA	1e-1	-2.880e+00	0.1126	849.0	48.21%	21385.4	46.29%
TATA-box/Drosophila-Promoters/Homer	CTATAAAAGCSV	1e-1	-2.689e+00	0.1355	21.0	1.19%	384.1	0.83%
GFY(?)/Promoter/Homer	ACTACAATTCCC	1e-1	-2.624e+00	0.1437	9.0	0.51%	133.7	0.29%
PAX8/HOCOMOCO	KTVAYTSRMGCRKR	1e-1	-2.623e+00	0.1437	10.0	0.57%	153.4	0.33%
Max(HLH)/K562-Max-ChIP-Seq(GSE31477)/Homer	RCCACGTGGYYN	1e-1	-2.532e+00	0.1557	76.0	4.32%	1686.3	3.65%
PAX2-long/HOCOMOCO	GHTCAGTCATGCGTGACA	1e-1	-2.530e+00	0.1557	24.0	1.36%	459.0	0.99%
PAX5(Paired/Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GCAGCCAAGCRTGACH	1e-1	-2.466e+00	0.1643	38.0	2.16%	785.6	1.70%
GEI-11(Myb?)/cElegans-L4-GEI11-ChIP-Seq(modEncode)/Homer	CCGACAYYTYACGGG	1e-1	-2.457e+00	0.1648	3.0	0.17%	28.0	0.06%
PR(NR)/T47D-PR-ChIP-Seq(GSE31130)/Homer	VAGRACAKNCTGTBC	1e-1	-2.423e+00	0.1695	343.0	19.48%	8409.1	18.20%
Oct4:Sox17/F9-Sox17-ChIP-Seq(GSE44553)/Homer	CCATTGTATGCAAAT	1e-1	-2.412e+00	0.1702	38.0	2.16%	789.5	1.71%
PAX5-shortForm(Paired/Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GTCACGCTCSCTGM	1e-1	-2.339e+00	0.1822	11.0	0.62%	183.3	0.40%
PRDM14(Zf)/H1-PRDM14-ChIP-Seq(GSE22767)/Homer	RGGTCTCTAACY	1e-1	-2.315e+00	0.1855	46.0	2.61%	986.8	2.14%
GATA-DR4(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATGKDGAGATAAG	1e0	-2.279e+00	0.1911	22.0	1.25%	429.0	0.93%
Pax7-longest(Paired/Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	NTAATTDGCYAATTANNWWD	1e0	-2.254e+00	0.1948	13.0	0.74%	229.4	0.50%
FOXA1:AR/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	AGTAAACAAAAAAGAACAND	1e0	-2.248e+00	0.1950	16.0	0.91%	295.6	0.64%
c-Myc/mES-cMyc-ChIP-Seq(GSE11431)/Homer	VVCCACGTGG	1e0	-2.148e+00	0.2142	46.0	2.61%	1001.2	2.17%
Tbet(T-box)/CD8-Tbet-ChIP-Seq(GSE33802)/Homer	AGGTGTGAAM	1e0	-2.140e+00	0.2148	215.0	12.21%	5212.5	11.28%
USF1(HLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer	SGTCACGTGR	1e0	-2.094e+00	0.2235	45.0	2.56%	982.8	2.13%
LMX1B/HOCOMOCO	WKGMTGTTAATTATTKGYTTC	1e0	-2.084e+00	0.2245	28.0	1.59%	579.8	1.26%
GRE/RAW264.7-GRE-ChIP-Seq(Unpublished)/Homer	VAGRACAKWCTGTYC	1e0	-2.076e+00	0.2252	34.0	1.93%	721.9	1.56%
OCT4-SOX2-TCF-NANOG((POU/Homeobox/HMG)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAACAATG	1e0	-2.016e+00	0.2376	56.0	3.18%	1256.9	2.72%
RBPJ:Ebox/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	GGGRAARRGRMCAGMTG	1e0	-1.964e+00	0.2490	35.0	1.99%	754.7	1.63%
JunD(bZIP)/K562-JunD-ChIP-Seq/Homer	ATGACGTCATCN	1e0	-1.957e+00	0.2495	12.0	0.68%	220.8	0.48%
E2F(E2F)/Cell-Cycle-Exp/Homer	TTSGCGCGAAAA	1e0	-1.952e+00	0.2495	3.0	0.17%	34.4	0.07%
p63(p53)/Keratinocyte-p63-ChIP-Seq(GSE17611)/Homer	NNDRCATGYCYNRRCATGYH	1e0	-1.919e+00	0.2562	40.0	2.27%	878.6	1.90%
Tcf3(HMG)/mES-Tcf3-ChIP-Seq(GSE11724)/Homer	ASWTCAAAGG	1e0	-1.906e+00	0.2581	51.0	2.90%	1146.5	2.48%
RUNX(Runt)/HPC7-Runx1-ChIP-Seq(GSE22178)/Homer	SAAACCACAG	1e0	-1.820e+00	0.2797	107.0	6.08%	2546.5	5.51%
ETS:E-box/HPC7-Scl-ChIP-Seq(GSE22178)/Homer	AGGAARCAGCTG	1e0	-1.818e+00	0.2797	13.0	0.74%	249.5	0.54%
AR-halfsite(NR)/LNCaP-AR-ChIP-Seq(GSE27824)/Homer	CCAGGAACAG	1e0	-1.804e+00	0.2815	516.0	29.30%	13039.6	28.23%
Stat3(Stat)/mES-Stat3-ChIP-Seq(GSE11431)/Homer	CTTCCGGGAA	1e0	-1.791e+00	0.2835	63.0	3.58%	1454.7	3.15%
bZIP:IRF/Th17-BatF-ChIP-Seq(GSE39756)/Homer	NAGTTTCABTHTGACTNW	1e0	-1.772e+00	0.2875	93.0	5.28%	2204.0	4.77%
RUNX-AML(Runt)/CD4+-PolII-ChIP-Seq(Barski et al.)/Homer	GCTGTGGTTW	1e0	-1.713e+00	0.3035	107.0	6.08%	2564.1	5.55%
Unknown1/Arabidopsis-Promoters/Homer	RGGGTAWWWTHGTAA	1e0	-1.688e+00	0.3095	20.0	1.14%	419.3	0.91%
Tcf4(HMG)/Hct116-Tcf4-ChIP-Seq(SRA012054)/Homer	ASATCAAAGGVA	1e0	-1.647e+00	0.3207	84.0	4.77%	1997.4	4.32%
Usf2(HLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer	GTCACGTGGT	1e0	-1.589e+00	0.3382	36.0	2.04%	813.3	1.76%
ZBTB33(Zf)/GM12878-ZBTB33-ChIP-Seq(GSE32465)/Homer	GGVTCTCGCGAGAAC	1e0	-1.587e+00	0.3382	1.0	0.06%	6.9	0.01%
PRDM1/BMI1(Zf)/Hela-PRDM1-ChIP-Seq(GSE31477)/Homer	ACTTTCACTTTC	1e0	-1.545e+00	0.3499	93.0	5.28%	2240.8	4.85%
E-box(HLH)/Promoter/Homer	SSGGTCACGTGA	1e0	-1.516e+00	0.3583	5.0	0.28%	84.5	0.18%
GATA:SCL/Ter119-SCL-ChIP-Seq(GSE18720)/Homer	CRGCTGBNGNSNNSAGATAA	1e0	-1.484e+00	0.3682	20.0	1.14%	434.9	0.94%
Chop(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	ATTGCATCAT	1e0	-1.465e+00	0.3733	52.0	2.95%	1223.1	2.65%
NF-E2(bZIP)/K562-NFE2-ChIP-Seq(GSE31477)/Homer	GATGACTCAGCA	1e0	-1.418e+00	0.3891	10.0	0.57%	201.6	0.44%
Pbx3(Homeobox)/GM12878-PBX3-ChIP-Seq(GSE32465)/Homer	SCTGTCAMTCAN	1e0	-1.330e+00	0.4227	31.0	1.76%	717.4	1.55%
PAX5/long/HOCOMOCO	VDGDGCASYSAAGCGTGAC	1e0	-1.324e+00	0.4235	17.0	0.97%	374.7	0.81%
GFY-Staf/Promoters/Homer	RACTACAATTCCCAGAAKGC	1e0	-1.307e+00	0.4284	4.0	0.23%	69.5	0.15%
NFkB-p65-Rel(RHD)/LPS-exp(GSE23622)/Homer	GGAAATTCCC	1e0	-1.253e+00	0.4503	8.0	0.45%	163.9	0.35%
CRE(bZIP)/Promoter/Homer	CSGTGACGTCAC	1e0	-1.212e+00	0.4666	17.0	0.97%	383.5	0.83%
AARE(HLH)/mES-cMyc-ChIP-Seq/Homer	GATTGCATCA	1e0	-1.210e+00	0.4666	20.0	1.14%	457.3	0.99%
E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer	GGCGGGAARN	1e0	-1.176e+00	0.4793	21.0	1.19%	485.1	1.05%
Rbpj1(?)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	HTTTCCCASG	1e0	-1.169e+00	0.4800	186.0	10.56%	4704.0	10.18%
RUNX2(Runt)/PCa-RUNX2-ChIP-Seq(GSE33889)/Homer	NWAACCACADNN	1e0	-1.164e+00	0.4805	126.0	7.16%	3159.8	6.84%
p53(p53)/Saos-p53-ChIP-Seq(GSE15780)/Homer	RRCATGYCYRGRCATGYYYN	1e0	-1.163e+00	0.4805	10.0	0.57%	216.8	0.47%
p53(p53)/Saos-p53-ChIP-Seq/Homer	RRCATGYCYRGRCATGYYYN	1e0	-1.163e+00	0.4805	10.0	0.57%	216.8	0.47%
Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo et al.)/Homer	TBGCACGCAA	1e0	-1.162e+00	0.4805	65.0	3.69%	1597.6	3.46%
GRHL2(CP2)/HBE-GRHL2-ChIP-Seq(GSE46194)/Homer	AAACYKGTTWDACMRGTTTB	1e0	-1.090e+00	0.5074	56.0	3.18%	1380.3	2.99%
NFAT:AP1/Jurkat-NFATC1-ChIP-Seq(Jolma et al.)/Homer	SARTGGAAAAWRTGAGTCAB	1e0	-1.046e+00	0.5280	29.0	1.65%	700.2	1.52%
Nrf2(bZIP)/Lymphoblast-Nrf2-ChIP-Seq(GSE37589)/Homer	HTGCTGAGTCAT	1e0	-1.037e+00	0.5302	7.0	0.40%	151.7	0.33%
Srebp1a(HLH)/HepG2-Srebp1a-ChIP-Seq(GSE31477)/Homer	RTCACSCCAY	1e0	-1.026e+00	0.5333	20.0	1.14%	475.7	1.03%
CArG(MADS)/PUER-Srf-ChIP-Seq(Sullivan et al.)/Homer	CCATATATGGNM	1e0	-9.500e-01	0.5730	53.0	3.01%	1328.8	2.88%
RUNX1(Runt)/Jurkat-RUNX1-ChIP-Seq(GSE29180)/Homer	AAACCACARM	1e0	-9.283e-01	0.5829	159.0	9.03%	4078.4	8.83%
CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski et al.)/Homer	AYAGTGCCMYCTRGTGGCCA	1e0	-9.077e-01	0.5924	8.0	0.45%	184.4	0.40%
ERE(NR/IR3)/MCF7-ERa-ChIP-Seq(Unpublished)/Homer	VAGGTCACNSTGACC	1e0	-8.974e-01	0.5958	23.0	1.31%	566.8	1.23%
CEBP:AP1(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	DRTGTTGCAA	1e0	-8.483e-01	0.6229	168.0	9.54%	4339.6	9.39%
GAGA-repeat/SacCer-Promoters/Homer	CTYTCTYTCTCTCTC	1e0	-8.281e-01	0.6328	635.0	36.06%	16561.1	35.85%
Nr5a2(NR)/Pancreas-LRH1-ChIP-Seq(GSE34295)/Homer	BTCAAGGTCA	1e0	-8.001e-01	0.6478	73.0	4.15%	1878.4	4.07%
CLOCK(HLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer	GHCACGTG	1e0	-7.829e-01	0.6561	49.0	2.78%	1257.7	2.72%
NFkB-p65(RHD)/GM12787-p65-ChIP-Seq(GSE19485)/Homer	WGGGGATTTCCC	1e0	-7.783e-01	0.6563	50.0	2.84%	1284.1	2.78%
Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer	GGGGGGGG	1e0	-7.463e-01	0.6746	52.0	2.95%	1343.4	2.91%
RARg(NR)/ES-RARg-ChIP-Seq(GSE30538)/Homer	AGGTCAAGGTCA	1e0	-7.433e-01	0.6746	2.0	0.11%	42.6	0.09%
SeqBias: polyA-repeat	AAAAAAAAAA	1e0	-7.410e-01	0.6746	1760.0	99.94%	46147.8	99.90%
Znf263(Zf)/K562-Znf263-ChIP-Seq(GSE31477)/Homer	CVGTSCTCCC	1e0	-7.001e-01	0.6973	143.0	8.12%	3739.1	8.09%
ABF1/SacCer-Promoters/Homer	CGTRNAAARTGA	1e0	-6.671e-01	0.7176	15.0	0.85%	388.3	0.84%
STAT6/Macrophage-Stat6-ChIP-Seq(GSE38377)/Homer	TTCCKNAGAA	1e0	-6.546e-01	0.7235	95.0	5.39%	2495.7	5.40%
Pho2(bHLH)/Yeast-Pho2-ChIP-Seq(GSE29506)/Homer	CCCACGTGCT	1e0	-6.348e-01	0.7348	21.0	1.19%	552.0	1.19%
Srebp2(HLH)/HepG2-Srebp2-ChIP-Seq(GSE31477)/Homer	CGGTCACSCCAC	1e0	-6.234e-01	0.7401	10.0	0.57%	262.0	0.57%
STAT6(Stat)/CD4-Stat6-ChIP-Seq(GSE22104)/Homer	ABTTCYYRRGAA	1e0	-6.175e-01	0.7412	97.0	5.51%	2560.8	5.54%
Oct4(POU/Homeobox)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAW	1e0	-5.846e-01	0.7628	124.0	7.04%	3284.8	7.11%
FHY3(FAR1)/Arabidopsis-FHY3-ChIP-Seq(GSE30711)/Homer	HHCACGCGCBTN	1e0	-5.726e-01	0.7687	8.0	0.45%	213.9	0.46%
Smad4(MAD)/ESC-SMAD4-ChIP-Seq(GSE29422)/Homer	VBSYGTCTGG	1e0	-5.700e-01	0.7687	150.0	8.52%	3976.4	8.61%
HIF2a(HLH)/785_O-HIF2a-ChIP-Seq(GSE34871)/Homer	GCACGTACCC	1e0	-5.693e-01	0.7687	32.0	1.82%	855.2	1.85%
MafA(bZIP)/Islet-MafA-ChIP-Seq(GSE30298)/Homer	TGCTGACTCA	1e0	-5.678e-01	0.7687	98.0	5.57%	2605.0	5.64%
Unknown2/Arabidopsis-Promoters/Homer	AAACGACGTCGTTTT	1e0	-5.660e-01	0.7687	1.0	0.06%	22.3	0.05%
ETS:RUNX/Jurkat-RUNX1-ChIP-Seq(GSE17954)/Homer	RCAGGATGTGGT	1e0	-5.613e-01	0.7687	6.0	0.34%	160.4	0.35%
Tbox:Smad/ESCd5-Smad2_3-ChIP-Seq(GSE29422)/Homer	AGGTGHCAGACA	1e0	-5.603e-01	0.7687	19.0	1.08%	510.9	1.11%
Atf4(bZIP)/MEF-Atf4-ChIP-Seq(GSE35681)/Homer	MTGATGCAAT	1e0	-5.542e-01	0.7687	59.0	3.35%	1576.3	3.41%
E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer	GGCGGGAAAH	1e0	-5.470e-01	0.7687	13.0	0.74%	351.9	0.76%
Sp1(Zf)/Promoter/Homer	GGCCCCGCCCCC	1e0	-5.287e-01	0.7738	2.0	0.11%	52.1	0.11%
GATA-DR8(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATSTNDNNDSAGATAASN	1e0	-5.129e-01	0.7830	13.0	0.74%	356.9	0.77%
Unknown1(NR/Ini-like)/Drosophila-Promoters/Homer	MYGGTCACACTG	1e0	-4.982e-01	0.7914	20.0	1.14%	548.6	1.19%
Smad3(MAD)/NPC-Smad3-ChIP-Seq(GSE36673)/Homer	TWGTCTGV	1e0	-4.863e-01	0.7976	358.0	20.33%	9510.8	20.59%
TRa(NR)/C17.2-TRa-ChIP-Seq(GSE38347)/Homer	GGTCANYTGAGGWCA	1e0	-4.860e-01	0.7976	32.0	1.82%	874.8	1.89%
Bach2(bZIP)/OCILy7-Bach2-ChIP-Seq(GSE44420)/Homer	TGCTGAGTCA	1e0	-4.833e-01	0.7976	22.0	1.25%	605.1	1.31%
Nr5a2(NR)/mES-Nr5a2-ChIP-Seq(GSE19019)/Homer	BTCAAGGTCA	1e0	-4.472e-01	0.8196	47.0	2.67%	1288.4	2.79%
p53(p53)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	ACATGCCCGGGCAT	1e0	-4.418e-01	0.8207	1.0	0.06%	27.5	0.06%
Bach1(bZIP)/K562-Bach1-ChIP-Seq(GSE31477)/Homer	AWWNTGCTGAGTCAT	1e0	-4.320e-01	0.8256	7.0	0.40%	202.2	0.44%
ISRE(IRF)/ThioMac-LPS-exp(GSE23622)/HOMER	AGTTTCASTTTC	1e0	-4.183e-01	0.8336	8.0	0.45%	232.2	0.50%
TCFL2(HMG)/K562-TCF7L2-ChIP-Seq(GSE29196)/Homer	ACWTCAAAGG	1e0	-4.120e-01	0.8357	11.0	0.62%	317.1	0.69%
EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer	NWGGGTGTGGCY	1e0	-3.944e-01	0.8472	11.0	0.62%	320.2	0.69%
Reverb(NR/DR2)/BLRP(RAW)-Reverba-ChIP-Seq(GSE45914)/Homer	GTRGGTCASTGGGTCA	1e0	-3.626e-01	0.8712	9.0	0.51%	269.6	0.58%
SeqBias: GA-repeat	GAGAGAGAGA	1e0	-3.319e-01	0.8949	880.0	49.97%	23387.1	50.63%
MafK(bZIP)/C2C12-MafK-ChIP-Seq(GSE36030)/Homer	GCTGASTCAGCA	1e0	-3.214e-01	0.9009	19.0	1.08%	560.3	1.21%
bHLHE40(HLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer	KCACGTGMCN	1e0	-3.139e-01	0.9041	19.0	1.08%	562.8	1.22%
Smad2(MAD)/ES-SMAD2-ChIP-Seq(GSE29422)/Homer	CTGTCTGG	1e0	-3.138e-01	0.9041	148.0	8.40%	4063.3	8.80%
Sox3(HMG)/NPC-Sox3-ChIP-Seq(GSE33059)/Homer	CCWTTGTY	1e0	-3.067e-01	0.9041	305.0	17.32%	8255.1	17.87%
Pho4(bHLH)/Yeast-Pho4-ChIP-Seq(GSE29506)/Homer	AAGCACGTGBGD	1e0	-2.980e-01	0.9082	9.0	0.51%	281.5	0.61%
E-box/Arabidopsis-Promoters/Homer	GCCACGTG	1e0	-2.729e-01	0.9278	25.0	1.42%	743.7	1.61%
BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer	CNNBRGCGCCCCCTGSTGGC	1e0	-2.687e-01	0.9282	6.0	0.34%	198.7	0.43%
TATA-box/SacCer-Promoters/Homer	BBHWTATATA	1e0	-2.562e-01	0.9363	124.0	7.04%	3459.9	7.49%
DPL-1(E2F)/cElegans-Adult-ChIP-Seq(modEncode)/Homer	TAGCGCGC	1e0	-2.418e-01	0.9464	13.0	0.74%	411.1	0.89%
PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	MGGAAGTGAAAC	1e0	-2.297e-01	0.9543	166.0	9.43%	4614.8	9.99%
Pax7-long(Paired/Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCHGATTAC	1e0	-2.287e-01	0.9543	6.0	0.34%	206.5	0.45%
ARE(NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	RGRACASNSTGTYCYB	1e0	-2.278e-01	0.9543	21.0	1.19%	646.2	1.40%
Tcfcp2l1(CP2)/mES-Tcfcp2l1-ChIP-Seq(GSE11431)/Homer	NRAACCRGTTYRAACCRGYT	1e0	-2.091e-01	0.9634	9.0	0.51%	302.1	0.65%
Oct2(POU/Homeobox)/Bcell-Oct2-ChIP-Seq(GSE21512)/Homer	ATATGCAAAT	1e0	-2.054e-01	0.9634	66.0	3.75%	1915.7	4.15%
c-Myc(HLH)/LNCAP-cMyc-ChIP-Seq(unpublished)/Homer	VCCACGTG	1e0	-1.965e-01	0.9686	23.0	1.31%	716.2	1.55%
Unknown4/Arabidopsis-Promoters/Homer	CKTCKTCTTY	1e0	-1.800e-01	0.9811	90.0	5.11%	2595.8	5.62%
Sox2(HMG)/mES-Sox2-ChIP-Seq(GSE11431)/Homer	BCCATTGTTC	1e0	-1.781e-01	0.9811	135.0	7.67%	3826.1	8.28%
NFkB-p50,p52(RHD)/p50-ChIP-Chip(Schreiber et al.)/Homer	GGGGGAATCCCC	1e0	-1.661e-01	0.9876	3.0	0.17%	123.9	0.27%
KLF5(Zf)/LoVo-KLF5-ChIP-Seq(GSE49402)/Homer	DGGGYGKGGC	1e0	-1.603e-01	0.9898	54.0	3.07%	1614.5	3.50%
GRE(NR/IR3)/A549-GR-ChIP-Seq(GSE32465)/Homer	NRGVACABNVTGTYCY	1e0	-1.547e-01	0.9917	10.0	0.57%	350.7	0.76%
IRF2(IRF)/Erythroblas-IRF2-ChIP-Seq(GSE36985)/Homer	GAAASYGAAASY	1e0	-1.511e-01	0.9918	11.0	0.62%	382.1	0.83%
Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer	GCCACACCCA	1e0	-1.391e-01	1.0000	13.0	0.74%	448.5	0.97%
Mouse_Recombination_Hotspot/Testis-DMC1-ChIP-Seq(GSE24438)/Homer	ACTYKNATTCGTGNTACTTC	1e0	-1.386e-01	1.0000	8.0	0.45%	294.3	0.64%
IRF1(IRF)/PBMC-IRF1-ChIP-Seq(GSE43036)/Homer	GAAAGTGAAAGT	1e0	-1.338e-01	1.0000	16.0	0.91%	541.4	1.17%
T1ISRE(IRF)/Ifnb-Exp/Homer	ACTTTCGTTTCT	1e0	-1.309e-01	1.0000	1.0	0.06%	55.8	0.12%
RLR1?/SacCer-Promoters/Homer	WTTTTCYYTTTT	1e0	-1.238e-01	1.0000	117.0	6.64%	3397.2	7.35%
STAT1(Stat)/HelaS3-STAT1-ChIP-Seq(GSE12782)/Homer	NATTTCCNGGAAAT	1e0	-1.186e-01	1.0000	38.0	2.16%	1194.2	2.59%
Unknown4/Drosophila-Promoters/Homer	AAAAATACCRMA	1e0	-1.112e-01	1.0000	27.0	1.53%	881.4	1.91%
PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer	ADGGYAGYAGCATCT	1e0	-1.080e-01	1.0000	43.0	2.44%	1347.8	2.92%
E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer	VDTTTCCCGCCA	1e0	-1.027e-01	1.0000	1.0	0.06%	61.2	0.13%
TEAD4(TEA)/Tropoblast-Tead4-ChIP-Seq(GSE37350)/Homer	CCWGGAATGY	1e0	-7.732e-02	1.0000	102.0	5.79%	3053.3	6.61%
GLI3(Zf)/GLI3-ChIP-Chip(GSE11077)/Homer	CGTGGGTGGTCC	1e0	-7.024e-02	1.0000	4.0	0.23%	191.4	0.41%
E2F1(E2F)/Hela-E2F1-ChIP-Seq(GSE22478)/Homer	CWGGCGGGAA	1e0	-6.495e-02	1.0000	2.0	0.11%	117.3	0.25%
Mef2c(MADS)/GM12878-Mef2c-ChIP-Seq(GSE32465)/Homer	DCYAAAAATAGM	1e0	-6.389e-02	1.0000	87.0	4.94%	2658.6	5.76%
YY1(Zf)/Promoter/Homer	CAAGATGGCGGC	1e0	-5.896e-02	1.0000	2.0	0.11%	120.0	0.26%
Unknown3/Arabidopsis-Promoters/Homer	AYTAAACCGG	1e0	-5.767e-02	1.0000	10.0	0.57%	405.1	0.88%
Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer	TGCGTGGGYG	1e0	-4.719e-02	1.0000	27.0	1.53%	950.5	2.06%
TEAD(TEA)/Fibroblast-PU.1-ChIP-Seq(Unpublished)/Homer	YCWGGAATGY	1e0	-4.486e-02	1.0000	94.0	5.34%	2901.7	6.28%
STAT5(Stat)/mCD4+-Stat5-ChIP-Seq(GSE12346)/Homer	RTTTCTNAGAAA	1e0	-4.469e-02	1.0000	40.0	2.27%	1344.3	2.91%
LXRE(NR/DR4)/BLRP(RAW)-LXRb-ChIP-Seq(GSE21512)/Homer	RGGTTACTANAGGTCA	1e0	-4.264e-02	1.0000	2.0	0.11%	130.6	0.28%
 Ik-1	NHTTGGGAATRCC	1e0	-3.812e-02	1.0000	1761.0	100.00%	46193.9	100.00%
MafF(bZIP)/HepG2-MafF-ChIP-Seq(GSE31477)/Homer	HWWGTCAGCAWWTTT	1e0	-3.022e-02	1.0000	56.0	3.18%	1852.6	4.01%
Unknown6/Drosophila-Promoters/Homer	AATTTTAAAA	1e0	-2.682e-02	1.0000	250.0	14.20%	7314.0	15.83%
Unknown2/Drosophila-Promoters/Homer	CATCMCTA	1e0	-2.549e-02	1.0000	132.0	7.50%	4048.7	8.76%
SeqBias: CG-repeat	CGCGCGCGCG	1e0	-2.149e-02	1.0000	8.0	0.45%	385.7	0.84%
NRF1/Promoter/Homer	STGCGCATGCGC	1e0	-1.943e-02	1.0000	2.0	0.11%	154.4	0.33%
SFP1/SacCer-Promoters/Homer	DDAAAAATTTTY	1e0	-1.627e-02	1.0000	13.0	0.74%	572.4	1.24%
TOD6?/SacCer-Promoters/Homer	GCGATGAGMT	1e0	-1.348e-02	1.0000	9.0	0.51%	442.4	0.96%
Sox6(HMG)/Myotubes-Sox6-ChIP-Seq(GSE32627)/Homer	CCATTGTTNY	1e0	-1.303e-02	1.0000	274.0	15.56%	8095.0	17.52%
Mef2a(MADS)/HL1-Mef2a.biotin-ChIP-Seq(GSE21529/Homer	CYAAAAATAG	1e0	-9.568e-03	1.0000	69.0	3.92%	2345.9	5.08%
CHR/Cell-Cycle-Exp/Homer	SRGTTTCAAA	1e0	-8.384e-03	1.0000	125.0	7.10%	3989.0	8.64%
HIF-1a(HLH)/MCF7-HIF1a-ChIP-Seq(GSE28352)/Homer	TACGTGCV	1e0	-2.546e-03	1.0000	11.0	0.62%	590.6	1.28%
HRE(HSF)/Striatum-HSF1-ChIP-Seq(GSE38000)/Homer	TTCTAGAABNTTCTA	1e0	-1.457e-03	1.0000	13.0	0.74%	689.6	1.49%
Egr2/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer	NGCGTGGGCGGR	1e0	-1.300e-03	1.0000	1.0	0.06%	174.6	0.38%
HRE(HSF)/HepG2-HSF1-ChIP-Seq(GSE31477)/Homer	BSTTCTRGAABVTTCYAGAA	1e0	-1.052e-03	1.0000	4.0	0.23%	340.5	0.74%
SEP3(MADS)/Arabidoposis-Flower-Sep3-ChIP-Seq/Homer	CCAAAAAGGG	1e0	-0.000e+00	1.0000	165.0	9.37%	6288.5	13.61%
CTCF-SatelliteElement/CD4+-CTCF-ChIP-Seq(Barski et al.)/Homer	TGCAGTTCCMVNWRTGGCCA	1e0	0.000e+00	1.0000	0.0	0.00%	35.0	0.08%
EBNA1(EBV virus)/Raji-EBNA1-ChIP-Seq(GSE30709)/Homer	GGYAGCAYDTGCTDCCCNNN	1e0	0.000e+00	1.0000	0.0	0.00%	21.9	0.05%
GFX(?)/Promoter/Homer	ATTCTCGCGAGA	1e0	0.000e+00	1.0000	0.0	0.00%	2.4	0.01%
NRF1(NRF)/MCF7-NRF1-ChIP-Seq(Unpublished)/Homer	CTGCGCATGCGC	1e0	0.000e+00	1.0000	0.0	0.00%	28.1	0.06%
REST-NRSF(Zf)/Jurkat-NRSF-ChIP-Seq/Homer	GGMGCTGTCCATGGTGCTGA	1e0	0.000e+00	1.0000	0.0	0.00%	9.2	0.02%
EFL-1(E2F)/cElegans-L1-EFL1-ChIP-Seq(modEncode)/Homer	TGCAARYGCGCTCYA	1e0	0.000e+00	1.0000	0.0	0.00%	36.5	0.08%
LIN-15B(Zf)/cElegans-L3-LIN15B-ChIP-Seq(modEncode)/Homer	CARTGGAGCGCRYTTGCATT	1e0	0.000e+00	1.0000	0.0	0.00%	12.1	0.03%
LMX1A/UniProbe	NNTAATWWNN	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%