Motif Name	Consensus	P-value	Log P-value	q-value (Benjamini)	# of Target Sequences with Motif(of 645)	% of Target Sequences with Motif	# of Background Sequences with Motif(of 45110)	% of Background Sequences with Motif
REB1/SacCer-Promoters/Homer	KCCGGGTAAYRR	1e-20	-4.682e+01	0.0000	73.0	11.32%	1393.9	3.09%
ABF1/SacCer-Promoters/Homer	CGTRNAAARTGA	1e-17	-4.141e+01	0.0000	100.0	15.50%	2634.0	5.83%
RLR1?/SacCer-Promoters/Homer	WTTTTCYYTTTT	1e-7	-1.728e+01	0.0000	130.0	20.16%	5653.4	12.52%
SeqBias: TA-repeat	TATATATATA	1e-6	-1.501e+01	0.0000	390.0	60.47%	22844.8	50.61%
SeqBias: GA-repeat	GAGAGAGAGA	1e-5	-1.295e+01	0.0002	408.0	63.26%	24500.0	54.27%
TATA-box/SacCer-Promoters/Homer	BBHWTATATA	1e-4	-1.140e+01	0.0007	128.0	19.84%	6196.1	13.73%
SUT1?/SacCer-Promoters/Homer	CCCCGCGC	1e-4	-9.892e+00	0.0028	278.0	43.10%	16072.5	35.60%
SeqBias: CG bias	SSSSSSSSSS	1e-4	-9.698e+00	0.0030	432.0	66.98%	26887.2	59.56%
SFP1/SacCer-Promoters/Homer	DDAAAAATTTTY	1e-4	-9.509e+00	0.0032	36.0	5.58%	1245.4	2.76%
PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	MGGAAGTGAAAC	1e-4	-9.483e+00	0.0032	101.0	15.66%	4837.1	10.71%
SPCH(bHLH)/Seedling-SPCH-ChIP-Seq(GSE57497)/Homer	WNBCACGTGA	1e-3	-8.531e+00	0.0069	76.0	11.78%	3494.3	7.74%
GAGA-repeat/SacCer-Promoters/Homer	CTYTCTYTCTCTCTC	1e-3	-7.610e+00	0.0160	299.0	46.36%	18006.5	39.89%
E2F(E2F)/Hela-CellCycle-Expression/Homer	TTSGCGCGAAAA	1e-2	-6.605e+00	0.0403	14.0	2.17%	378.9	0.84%
PAX6(Paired,Homeobox)/Forebrain-Pax6-ChIP-Seq(GSE66961)/Homer	NGTGTTCAVTSAAGCGKAAA	1e-2	-5.979e+00	0.0700	11.0	1.71%	277.4	0.61%
Pho2(bHLH)/Yeast-Pho2-ChIP-Seq(GSE29506)/Homer	CCCACGTGCT	1e-2	-5.888e+00	0.0715	26.0	4.03%	993.1	2.20%
NPAS2(bHLH)/Liver-NPAS2-ChIP-Seq(GSE39860)/Homer	KCCACGTGAC	1e-2	-5.630e+00	0.0868	51.0	7.91%	2401.5	5.32%
bHLHE40(bHLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer	KCACGTGMCN	1e-2	-5.564e+00	0.0873	23.0	3.57%	863.2	1.91%
Atf1(bZIP)/K562-ATF1-ChIP-Seq(GSE31477)/Homer	GATGACGTCA	1e-2	-5.021e+00	0.1418	72.0	11.16%	3742.8	8.29%
Atf7(bZIP)/3T3L1-Atf7-ChIP-Seq(GSE56872)/Homer	NGRTGACGTCAY	1e-2	-4.887e+00	0.1537	37.0	5.74%	1686.9	3.74%
IBL1(bHLH)/Seedling-IBL1-ChIP-Seq(GSE51120)/Homer	CACGTGCC	1e-2	-4.867e+00	0.1537	86.0	13.33%	4634.4	10.27%
Cbf1(bHLH)/Yeast-Cbf1-ChIP-Seq(GSE29506)/Homer	TCACGTGAYH	1e-2	-4.806e+00	0.1537	20.0	3.10%	765.3	1.70%
NF1(CTF)/LNCAP-NF1-ChIP-Seq(Unpublished)/Homer	CYTGGCABNSTGCCAR	1e-2	-4.783e+00	0.1537	13.0	2.02%	419.0	0.93%
Sox6(HMG)/Myotubes-Sox6-ChIP-Seq(GSE32627)/Homer	CCATTGTTNY	1e-2	-4.743e+00	0.1537	170.0	26.36%	10075.4	22.32%
TOD6?/SacCer-Promoters/Homer	GCGATGAGMT	1e-2	-4.664e+00	0.1537	19.0	2.95%	724.8	1.61%
c-Myc(bHLH)/LNCAP-cMyc-ChIP-Seq(Unpublished)/Homer	VCCACGTG	1e-1	-4.529e+00	0.1671	28.0	4.34%	1219.5	2.70%
Max(bHLH)/K562-Max-ChIP-Seq(GSE31477)/Homer	RCCACGTGGYYN	1e-1	-4.455e+00	0.1730	32.0	4.96%	1451.9	3.22%
Sox4(HMG)/proB-Sox4-ChIP-Seq(GSE50066)/Homer	YCTTTGTTCC	1e-1	-4.448e+00	0.1730	71.0	11.01%	3780.7	8.37%
Usf2(bHLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer	GTCACGTGGT	1e-1	-4.423e+00	0.1730	20.0	3.10%	795.0	1.76%
CLOCK(bHLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer	GHCACGTG	1e-1	-4.400e+00	0.1730	29.0	4.50%	1288.6	2.85%
HRE(HSF)/HepG2-HSF1-ChIP-Seq(GSE31477)/Homer	BSTTCTRGAABVTTCYAGAA	1e-1	-4.269e+00	0.1806	10.0	1.55%	306.2	0.68%
Unknown1/Arabidopsis-Promoters/Homer	RGGGTAWWWTHGTAA	1e-1	-4.221e+00	0.1834	14.0	2.17%	501.1	1.11%
BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer	DATGASTCAT	1e-1	-4.072e+00	0.2062	36.0	5.58%	1727.9	3.83%
E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer	GGCGGGAAAH	1e-1	-4.033e+00	0.2077	49.0	7.60%	2505.5	5.55%
c-Jun-CRE(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	ATGACGTCATCY	1e-1	-4.024e+00	0.2077	19.0	2.95%	775.0	1.72%
Sox2(HMG)/mES-Sox2-ChIP-Seq(GSE11431)/Homer	BCCATTGTTC	1e-1	-3.810e+00	0.2448	87.0	13.49%	4915.0	10.89%
Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer	TGCGTGGGYG	1e-1	-3.547e+00	0.3096	19.0	2.95%	818.4	1.81%
PIF5ox(bHLH)/Arabidopsis-PIF5ox-ChIP-Seq(GSE35062)/Homer	BCACGTGVDN	1e-1	-3.516e+00	0.3107	48.0	7.44%	2529.7	5.60%
Jun-AP1(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	GATGASTCATCN	1e-1	-3.454e+00	0.3221	8.0	1.24%	254.5	0.56%
Sox15(HMG)/CPA-Sox15-ChIP-Seq(GSE62909)/Homer	RAACAATGGN	1e-1	-3.434e+00	0.3221	100.0	15.50%	5841.9	12.94%
n-Myc(bHLH)/mES-nMyc-ChIP-Seq(GSE11431)/Homer	VRCCACGTGG	1e-1	-3.426e+00	0.3221	32.0	4.96%	1578.4	3.50%
Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer	SCCTAGCAACAG	1e-1	-3.327e+00	0.3390	18.0	2.79%	784.8	1.74%
Atf2(bZIP)/3T3L1-Atf2-ChIP-Seq(GSE56872)/Homer	NRRTGACGTCAT	1e-1	-3.273e+00	0.3492	21.0	3.26%	958.8	2.12%
E-box/Arabidopsis-Promoters/Homer	GCCACGTG	1e-1	-3.259e+00	0.3492	27.0	4.19%	1306.8	2.89%
ZNF41(Zf)/HEK293-ZNF41.GFP-ChIP-Seq(GSE58341)/Homer	CCTCATGGTGYCYTWYTCCCTTGTG	1e-1	-3.185e+00	0.3639	3.0	0.47%	53.1	0.12%
Tlx?(NR)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	CTGGCAGSCTGCCA	1e-1	-3.167e+00	0.3639	10.0	1.55%	369.5	0.82%
PIF4(bHLH)/Seedling-PIF4-ChIP-Seq(GSE35315)/Homer	NNBCACGTGN	1e-1	-3.160e+00	0.3639	53.0	8.22%	2904.2	6.43%
Fli1(ETS)/CD8-FLI-ChIP-Seq(GSE20898)/Homer	NRYTTCCGGH	1e-1	-3.155e+00	0.3639	88.0	13.64%	5136.7	11.38%
HRE(HSF)/Striatum-HSF1-ChIP-Seq(GSE38000)/Homer	TTCTAGAABNTTCTA	1e-1	-3.017e+00	0.3946	17.0	2.64%	759.9	1.68%
ZFX(Zf)/mES-Zfx-ChIP-Seq(GSE11431)/Homer	AGGCCTRG	1e-1	-2.967e+00	0.4063	34.0	5.27%	1766.9	3.91%
MITF(bHLH)/MastCells-MITF-ChIP-Seq(GSE48085)/Homer	RTCATGTGAC	1e-1	-2.959e+00	0.4063	44.0	6.82%	2382.9	5.28%
USF1(bHLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer	SGTCACGTGR	1e-1	-2.910e+00	0.4136	22.0	3.41%	1058.5	2.34%
DPL-1(E2F)/cElegans-Adult-ChIP-Seq(modEncode)/Homer	TAGCGCGC	1e-1	-2.860e+00	0.4261	58.0	8.99%	3282.9	7.27%
Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer	NRYTTCCGGY	1e-1	-2.858e+00	0.4261	66.0	10.23%	3793.3	8.40%
FHY3(FAR1)/Arabidopsis-FHY3-ChIP-Seq(GSE30711)/Homer	HHCACGCGCBTN	1e-1	-2.846e+00	0.4261	22.0	3.41%	1066.1	2.36%
BMAL1(bHLH)/Liver-Bmal1-ChIP-Seq(GSE39860)/Homer	GNCACGTG	1e-1	-2.758e+00	0.4463	87.0	13.49%	5178.3	11.47%
SeqBias: polyC-repeat	CCCCCCCCCC	1e-1	-2.754e+00	0.4463	631.0	97.83%	43661.0	96.72%
ZNF669(Zf)/HEK293-ZNF669.GFP-ChIP-Seq(GSE58341)/Homer	GARTGGTCATCGCCC	1e-1	-2.738e+00	0.4463	6.0	0.93%	197.0	0.44%
Sox10(HMG)/SciaticNerve-Sox3-ChIP-Seq(GSE35132)/Homer	CCWTTGTYYB	1e-1	-2.687e+00	0.4543	125.0	19.38%	7708.7	17.08%
GLI3(Zf)/Limb-GLI3-ChIP-Chip(GSE11077)/Homer	CGTGGGTGGTCC	1e-1	-2.650e+00	0.4635	5.0	0.78%	153.3	0.34%
NRF1(NRF)/MCF7-NRF1-ChIP-Seq(Unpublished)/Homer	CTGCGCATGCGC	1e-1	-2.646e+00	0.4635	4.0	0.62%	108.3	0.24%
PHA-4(Forkhead)/cElegans-Embryos-PHA4-ChIP-Seq(modEncode)/Homer	KTGTTTGC	1e-1	-2.622e+00	0.4635	244.0	37.83%	15804.7	35.01%
Atf3(bZIP)/GBM-ATF3-ChIP-Seq(GSE33912)/Homer	DATGASTCATHN	1e-1	-2.609e+00	0.4635	32.0	4.96%	1703.6	3.77%
ZNF189(Zf)/HEK293-ZNF189.GFP-ChIP-Seq(GSE58341)/Homer	TGGAACAGMA	1e-1	-2.588e+00	0.4635	41.0	6.36%	2266.0	5.02%
Unknown3/Arabidopsis-Promoters/Homer	AYTAAACCGG	1e-1	-2.565e+00	0.4649	34.0	5.27%	1835.0	4.06%
DMRT1(DM)/Testis-DMRT1-ChIP-Seq(GSE64892)/Homer	TWGHWACAWTGTWDC	1e-1	-2.545e+00	0.4674	22.0	3.41%	1106.1	2.45%
SeqBias: CA-repeat	CACACACACA	1e-1	-2.495e+00	0.4836	305.0	47.29%	20084.4	44.49%
Sox3(HMG)/NPC-Sox3-ChIP-Seq(GSE33059)/Homer	CCWTTGTY	1e-1	-2.488e+00	0.4836	150.0	23.26%	9456.6	20.95%
VDR(NR),DR3/GM10855-VDR+vitD-ChIP-Seq(GSE22484)/Homer	ARAGGTCANWGAGTTCANNN	1e-1	-2.473e+00	0.4836	9.0	1.40%	367.6	0.81%
RBFox2(?)/Heart-RBFox2-CLIP-Seq(GSE57926)/Homer	TGCATGCA	1e-1	-2.424e+00	0.4968	117.0	18.14%	7266.0	16.10%
Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer	GTTGCCATGGCAACM	1e-1	-2.399e+00	0.5023	6.0	0.93%	215.7	0.48%
ZNF317(Zf)/HEK293-ZNF317.GFP-ChIP-Seq(GSE58341)/Homer	GTCWGCTGTYYCTCT	1e-1	-2.367e+00	0.5111	5.0	0.78%	167.4	0.37%
CRE(bZIP)/Promoter/Homer	CSGTGACGTCAC	1e-1	-2.365e+00	0.5111	12.0	1.86%	543.9	1.20%
X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	GGTTGCCATGGCAA	1e-1	-2.334e+00	0.5135	8.0	1.24%	324.3	0.72%
STAT6(Stat)/Macrophage-Stat6-ChIP-Seq(GSE38377)/Homer	TTCCKNAGAA	1e0	-2.271e+00	0.5397	47.0	7.29%	2715.6	6.02%
Pbx3(Homeobox)/GM12878-PBX3-ChIP-Seq(GSE32465)/Homer	SCTGTCAMTCAN	1e0	-2.233e+00	0.5534	9.0	1.40%	387.8	0.86%
Fra1(bZIP)/BT549-Fra1-ChIP-Seq(GSE46166)/Homer	NNATGASTCATH	1e0	-2.191e+00	0.5695	28.0	4.34%	1529.6	3.39%
Egr2(Zf)/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer	NGCGTGGGCGGR	1e0	-2.148e+00	0.5863	6.0	0.93%	231.9	0.51%
RORgt(NR)/EL4-RORgt.Flag-ChIP-Seq(GSE56019)/Homer	AAYTAGGTCA	1e0	-2.132e+00	0.5884	9.0	1.40%	396.7	0.88%
Atf4(bZIP)/MEF-Atf4-ChIP-Seq(GSE35681)/Homer	MTGATGCAAT	1e0	-2.131e+00	0.5884	35.0	5.43%	1981.7	4.39%
AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	VTGACTCATC	1e0	-2.105e+00	0.5895	34.0	5.27%	1923.6	4.26%
RFX(HTH)/K562-RFX3-ChIP-Seq(SRA012198)/Homer	CGGTTGCCATGGCAAC	1e0	-2.102e+00	0.5895	5.0	0.78%	182.5	0.40%
Nkx2.1(Homeobox)/LungAC-Nkx2.1-ChIP-Seq(GSE43252)/Homer	RSCACTYRAG	1e0	-2.096e+00	0.5895	155.0	24.03%	9956.4	22.06%
Brachyury(T-box)/Mesoendoderm-Brachyury-ChIP-exo(GSE54963)/Homer	ANTTMRCASBNNNGTGYKAAN	1e0	-2.040e+00	0.6064	15.0	2.33%	756.9	1.68%
Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo_et_al.)/Homer	TBGCACGCAA	1e0	-2.039e+00	0.6064	58.0	8.99%	3489.0	7.73%
Stat3(Stat)/mES-Stat3-ChIP-Seq(GSE11431)/Homer	CTTCCGGGAA	1e0	-1.994e+00	0.6197	28.0	4.34%	1566.2	3.47%
GFX(?)/Promoter/Homer	ATTCTCGCGAGA	1e0	-1.959e+00	0.6346	2.0	0.31%	46.9	0.10%
Tbet(T-box)/CD8-Tbet-ChIP-Seq(GSE33802)/Homer	AGGTGTGAAM	1e0	-1.938e+00	0.6405	66.0	10.23%	4044.9	8.96%
Tgif2(Homeobox)/mES-Tgif2-ChIP-Seq(GSE55404)/Homer	TGTCANYT	1e0	-1.929e+00	0.6405	198.0	30.70%	12972.1	28.74%
Pit1(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGMATATDC	1e0	-1.915e+00	0.6410	120.0	18.60%	7664.6	16.98%
Mouse_Recombination_Hotspot(Zf)/Testis-DMC1-ChIP-Seq(GSE24438)/Homer	ACTYKNATTCGTGNTACTTC	1e0	-1.913e+00	0.6410	6.0	0.93%	248.9	0.55%
STAT6(Stat)/CD4-Stat6-ChIP-Seq(GSE22104)/Homer	ABTTCYYRRGAA	1e0	-1.886e+00	0.6448	47.0	7.29%	2812.8	6.23%
Chop(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	ATTGCATCAT	1e0	-1.875e+00	0.6448	26.0	4.03%	1463.2	3.24%
Isl1(Homeobox)/Neuron-Isl1-ChIP-Seq(GSE31456)/Homer	CTAATKGV	1e0	-1.858e+00	0.6490	169.0	26.20%	11021.9	24.42%
Nkx2.2(Homeobox)/NPC-Nkx2.2-ChIP-Seq(GSE61673)/Homer	BTBRAGTGSN	1e0	-1.844e+00	0.6515	99.0	15.35%	6278.5	13.91%
JunD(bZIP)/K562-JunD-ChIP-Seq/Homer	ATGACGTCATCN	1e0	-1.841e+00	0.6515	5.0	0.78%	199.1	0.44%
SeqBias: CG-repeat	CGCGCGCGCG	1e0	-1.832e+00	0.6515	36.0	5.58%	2112.6	4.68%
LHY(Myb)/Seedling-LHY-ChIP-Seq(GSE52175)/Homer	ADAAATATCT	1e0	-1.806e+00	0.6557	128.0	19.84%	8253.7	18.28%
Pknox1(Homeobox)/ES-Prep1-ChIP-Seq(GSE63282)/Homer	SCTGTCAVTCAV	1e0	-1.781e+00	0.6656	9.0	1.40%	431.6	0.96%
TEAD4(TEA)/Tropoblast-Tead4-ChIP-Seq(GSE37350)/Homer	CCWGGAATGY	1e0	-1.746e+00	0.6821	45.0	6.98%	2720.5	6.03%
ZNF467(Zf)/HEK293-ZNF467.GFP-ChIP-Seq(GSE58341)/Homer	TGGGGAAGGGCM	1e0	-1.737e+00	0.6821	15.0	2.33%	799.6	1.77%
NFAT(RHD)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	ATTTTCCATT	1e0	-1.679e+00	0.7151	83.0	12.87%	5268.2	11.67%
Smad2(MAD)/ES-SMAD2-ChIP-Seq(GSE29422)/Homer	CTGTCTGG	1e0	-1.674e+00	0.7151	59.0	9.15%	3666.2	8.12%
Initiator/Drosophila-Promoters/Homer	NTCAGTYG	1e0	-1.668e+00	0.7151	128.0	19.84%	8317.4	18.42%
PABPC1(?)/MEL-PABC1-CLIP-Seq(GSE69755)/Homer	HAATAAAGNN	1e0	-1.650e+00	0.7151	215.0	33.33%	14294.3	31.66%
Trl(Zf)/S2-GAGAfactor-ChIP-Seq(GSE40646)/Homer	RGAGAGAG	1e0	-1.636e+00	0.7179	99.0	15.35%	6364.7	14.10%
Tbx5(T-box)/HL1-Tbx5.biotin-ChIP-Seq(GSE21529)/Homer	AGGTGTCA	1e0	-1.620e+00	0.7225	164.0	25.43%	10801.7	23.93%
Zelda(Zf)/Embryo-zld-ChIP-Seq(GSE65441)/Homer	KBCTACCTGW	1e0	-1.614e+00	0.7225	23.0	3.57%	1325.6	2.94%
FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer	NYYTGTTTACHN	1e0	-1.583e+00	0.7358	39.0	6.05%	2372.6	5.26%
ELF1(ETS)/Jurkat-ELF1-ChIP-Seq(SRA014231)/Homer	AVCCGGAAGT	1e0	-1.579e+00	0.7358	33.0	5.12%	1980.9	4.39%
Tbox:Smad(T-box,MAD)/ESCd5-Smad2_3-ChIP-Seq(GSE29422)/Homer	AGGTGHCAGACA	1e0	-1.561e+00	0.7389	6.0	0.93%	278.6	0.62%
THRa(NR)/C17.2-THRa-ChIP-Seq(GSE38347)/Homer	GGTCANYTGAGGWCA	1e0	-1.539e+00	0.7478	9.0	1.40%	459.7	1.02%
Bapx1(Homeobox)/VertebralCol-Bapx1-ChIP-Seq(GSE36672)/Homer	TTRAGTGSYK	1e0	-1.536e+00	0.7478	112.0	17.36%	7291.7	16.15%
Oct6(POU,Homeobox)/NPC-Oct6-ChIP-Seq(GSE35496)/Homer	WATGCAAATGAG	1e0	-1.535e+00	0.7478	34.0	5.27%	2057.2	4.56%
HOXA2(Homeobox)/mES-Hoxa2-ChIP-Seq(Donaldson_et_al.)/Homer	GYCATCMATCAT	1e0	-1.532e+00	0.7478	10.0	1.55%	521.6	1.16%
E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer	VDTTTCCCGCCA	1e0	-1.529e+00	0.7478	7.0	1.09%	340.6	0.75%
Smad4(MAD)/ESC-SMAD4-ChIP-Seq(GSE29422)/Homer	VBSYGTCTGG	1e0	-1.489e+00	0.7524	58.0	8.99%	3663.9	8.12%
HIF-1b(HLH)/T47D-HIF1b-ChIP-Seq(GSE59937)/Homer	RTACGTGC	1e0	-1.441e+00	0.7829	99.0	15.35%	6452.6	14.29%
Rfx1(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	KGTTGCCATGGCAA	1e0	-1.437e+00	0.7829	10.0	1.55%	534.5	1.18%
Srebp1a(bHLH)/HepG2-Srebp1a-ChIP-Seq(GSE31477)/Homer	RTCACSCCAY	1e0	-1.431e+00	0.7829	9.0	1.40%	473.1	1.05%
Pho4(bHLH)/Yeast-Pho4-ChIP-Seq(GSE29506)/Homer	AAGCACGTGBGD	1e0	-1.429e+00	0.7829	7.0	1.09%	352.0	0.78%
ZNF416(Zf)/HEK293-ZNF416.GFP-ChIP-Seq(GSE58341)/Homer	WDNCTGGGCA	1e0	-1.417e+00	0.7829	27.0	4.19%	1629.9	3.61%
Lhx2(Homeobox)/HFSC-Lhx2-ChIP-Seq(GSE48068)/Homer	TAATTAGN	1e0	-1.411e+00	0.7829	113.0	17.52%	7421.9	16.44%
LIN-39(Homeobox)/cElegans.L3-LIN39-ChIP-Seq(modEncode)/Homer	ATGATTRATG	1e0	-1.397e+00	0.7829	134.0	20.78%	8865.7	19.64%
Unknown1(NR/Ini-like)/Drosophila-Promoters/Homer	MYGGTCACACTG	1e0	-1.386e+00	0.7829	9.0	1.40%	479.6	1.06%
p63(p53)/Keratinocyte-p63-ChIP-Seq(GSE17611)/Homer	NNDRCATGYCYNRRCATGYH	1e0	-1.386e+00	0.7829	11.0	1.71%	604.6	1.34%
Foxo1(Forkhead)/RAW-Foxo1-ChIP-Seq(Fan_et_al.)/Homer	CTGTTTAC	1e0	-1.375e+00	0.7829	117.0	18.14%	7713.2	17.09%
PAX3:FKHR-fusion(Paired,Homeobox)/Rh4-PAX3:FKHR-ChIP-Seq(GSE19063)/Homer	ACCRTGACTAATTNN	1e0	-1.372e+00	0.7829	20.0	3.10%	1183.4	2.62%
Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer	HACTTCCGGY	1e0	-1.355e+00	0.7829	48.0	7.44%	3041.7	6.74%
Unknown6/Drosophila-Promoters/Homer	AATTTTAAAA	1e0	-1.354e+00	0.7829	93.0	14.42%	6085.4	13.48%
Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer	GCCACACCCA	1e0	-1.336e+00	0.7829	7.0	1.09%	363.0	0.80%
Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq(GSE22178)/Homer	MAATCACTGC	1e0	-1.335e+00	0.7829	29.0	4.50%	1782.7	3.95%
Bach2(bZIP)/OCILy7-Bach2-ChIP-Seq(GSE44420)/Homer	TGCTGAGTCA	1e0	-1.317e+00	0.7852	6.0	0.93%	303.5	0.67%
Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer	GGGGGGGG	1e0	-1.293e+00	0.7986	14.0	2.17%	811.9	1.80%
MYB(HTH)/ERMYB-Myb-ChIPSeq(GSE22095)/Homer	GGCVGTTR	1e0	-1.225e+00	0.8487	182.0	28.22%	12278.9	27.20%
EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer	NWGGGTGTGGCY	1e0	-1.217e+00	0.8491	5.0	0.78%	253.7	0.56%
PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer	ADGGYAGYAGCATCT	1e0	-1.206e+00	0.8523	26.0	4.03%	1619.8	3.59%
Hoxb4(Homeobox)/ES-Hoxb4-ChIP-Seq(GSE34014)/Homer	TGATTRATGGCY	1e0	-1.197e+00	0.8535	15.0	2.33%	895.4	1.98%
Hnf1(Homeobox)/Liver-Foxa2-Chip-Seq(GSE25694)/Homer	GGTTAAWCATTAA	1e0	-1.190e+00	0.8535	12.0	1.86%	701.7	1.55%
DMRT6(DM)/Testis-DMRT6-ChIP-Seq(GSE60440)/Homer	YDGHTACAWTGTADC	1e0	-1.181e+00	0.8549	14.0	2.17%	833.4	1.85%
ZNF519(Zf)/HEK293-ZNF519.GFP-ChIP-Seq(GSE58341)/Homer	GAGSCCGAGC	1e0	-1.165e+00	0.8619	3.0	0.47%	137.7	0.31%
ETS:E-box(ETS,bHLH)/HPC7-Scl-ChIP-Seq(GSE22178)/Homer	AGGAARCAGCTG	1e0	-1.141e+00	0.8770	3.0	0.47%	139.4	0.31%
FoxL2(Forkhead)/Ovary-FoxL2-ChIP-Seq(GSE60858)/Homer	WWTRTAAACAVG	1e0	-1.135e+00	0.8770	83.0	12.87%	5511.0	12.21%
Fosl2(bZIP)/3T3L1-Fosl2-ChIP-Seq(GSE56872)/Homer	NATGASTCABNN	1e0	-1.127e+00	0.8770	9.0	1.40%	518.6	1.15%
Eomes(T-box)/H9-Eomes-ChIP-Seq(GSE26097)/Homer	ATTAACACCT	1e0	-1.103e+00	0.8922	142.0	22.02%	9593.6	21.25%
GATA:SCL(Zf,bHLH)/Ter119-SCL-ChIP-Seq(GSE18720)/Homer	CRGCTGBNGNSNNSAGATAA	1e0	-1.102e+00	0.8922	5.0	0.78%	266.3	0.59%
NFAT:AP1(RHD,bZIP)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	SARTGGAAAAWRTGAGTCAB	1e0	-1.086e+00	0.8945	10.0	1.55%	590.8	1.31%
Pdx1(Homeobox)/Islet-Pdx1-ChIP-Seq(SRA008281)/Homer	YCATYAATCA	1e0	-1.062e+00	0.9100	86.0	13.33%	5756.7	12.75%
Hoxc9(Homeobox)/Ainv15-Hoxc9-ChIP-Seq(GSE21812)/Homer	GGCCATAAATCA	1e0	-1.058e+00	0.9100	52.0	8.06%	3428.4	7.59%
Mef2c(MADS)/GM12878-Mef2c-ChIP-Seq(GSE32465)/Homer	DCYAAAAATAGM	1e0	-1.051e+00	0.9100	43.0	6.67%	2817.0	6.24%
EWS:FLI1-fusion(ETS)/SK_N_MC-EWS:FLI1-ChIP-Seq(SRA014231)/Homer	VACAGGAAAT	1e0	-1.043e+00	0.9100	26.0	4.03%	1667.4	3.69%
TATA-box/Drosophila-Promoters/Homer	CTATAAAAGCSV	1e0	-1.043e+00	0.9100	10.0	1.55%	598.0	1.32%
ISRE(IRF)/ThioMac-LPS-Expression(GSE23622)/Homer	AGTTTCASTTTC	1e0	-1.037e+00	0.9100	5.0	0.78%	274.7	0.61%
ZNF415(Zf)/HEK293-ZNF415.GFP-ChIP-Seq(GSE58341)/Homer	GRTGMTRGAGCC	1e0	-1.031e+00	0.9100	15.0	2.33%	932.6	2.07%
Brn1(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	TATGCWAATBAV	1e0	-1.004e+00	0.9205	22.0	3.41%	1409.7	3.12%
Bcl6(Zf)/Liver-Bcl6-ChIP-Seq(GSE31578)/Homer	NNNCTTTCCAGGAAA	1e0	-9.956e-01	0.9225	65.0	10.08%	4348.2	9.63%
Sox9(HMG)/Limb-SOX9-ChIP-Seq(GSE73225)/Homer	AGGVNCCTTTGT	1e0	-9.888e-01	0.9229	46.0	7.13%	3048.3	6.75%
ZNF264(Zf)/HEK293-ZNF264.GFP-ChIP-Seq(GSE58341)/Homer	RGGGCACTAACY	1e0	-9.644e-01	0.9397	31.0	4.81%	2033.8	4.51%
p53(p53)/Saos-p53-ChIP-Seq(GSE15780)/Homer	RRCATGYCYRGRCATGYYYN	1e0	-9.345e-01	0.9560	3.0	0.47%	158.9	0.35%
p53(p53)/Saos-p53-ChIP-Seq/Homer	RRCATGYCYRGRCATGYYYN	1e0	-9.345e-01	0.9560	3.0	0.47%	158.9	0.35%
STAT5(Stat)/mCD4+-Stat5-ChIP-Seq(GSE12346)/Homer	RTTTCTNAGAAA	1e0	-9.162e-01	0.9676	18.0	2.79%	1165.0	2.58%
ZNF711(Zf)/SHSY5Y-ZNF711-ChIP-Seq(GSE20673)/Homer	AGGCCTAG	1e0	-9.139e-01	0.9676	44.0	6.82%	2944.0	6.52%
GATA(Zf),IR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NAGATWNBNATCTNN	1e0	-9.086e-01	0.9676	7.0	1.09%	424.6	0.94%
GSC(Homeobox)/FrogEmbryos-GSC-ChIP-Seq(DRA000576)/Homer	RGGATTAR	1e0	-8.912e-01	0.9738	94.0	14.57%	6411.5	14.20%
NFkB-p65-Rel(RHD)/ThioMac-LPS-Expression(GSE23622)/Homer	GGAAATTCCC	1e0	-8.781e-01	0.9806	3.0	0.47%	164.0	0.36%
Klf9(Zf)/GBM-Klf9-ChIP-Seq(GSE62211)/Homer	GCCACRCCCACY	1e0	-8.771e-01	0.9806	5.0	0.78%	296.1	0.66%
CRX(Homeobox)/Retina-Crx-ChIP-Seq(GSE20012)/Homer	GCTAATCC	1e0	-8.724e-01	0.9806	179.0	27.75%	12334.3	27.32%
ETV1(ETS)/GIST48-ETV1-ChIP-Seq(GSE22441)/Homer	AACCGGAAGT	1e0	-8.151e-01	1.0000	65.0	10.08%	4447.9	9.85%
GAGA-repeat/Arabidopsis-Promoters/Homer	CTCTCTCTCY	1e0	-8.094e-01	1.0000	22.0	3.41%	1472.5	3.26%
ELT-3(Gata)/cElegans-L1-ELT3-ChIP-Seq(modEncode)/Homer	AWTGATAAGA	1e0	-8.059e-01	1.0000	52.0	8.06%	3550.3	7.86%
Tgif1(Homeobox)/mES-Tgif1-ChIP-Seq(GSE55404)/Homer	YTGWCADY	1e0	-7.863e-01	1.0000	177.0	27.44%	12271.0	27.18%
STAT1(Stat)/HelaS3-STAT1-ChIP-Seq(GSE12782)/Homer	NATTTCCNGGAAAT	1e0	-7.860e-01	1.0000	19.0	2.95%	1273.7	2.82%
ZNF675(Zf)/HEK293-ZNF675.GFP-ChIP-Seq(GSE58341)/Homer	ARGAGGMCAAAATGW	1e0	-7.856e-01	1.0000	7.0	1.09%	447.5	0.99%
Zic(Zf)/Cerebellum-ZIC1.2-ChIP-Seq(GSE60731)/Homer	CCTGCTGAGH	1e0	-7.834e-01	1.0000	20.0	3.10%	1343.7	2.98%
Unknown(Homeobox)/Limb-p300-ChIP-Seq/Homer	SSCMATWAAA	1e0	-7.741e-01	1.0000	62.0	9.61%	4263.8	9.45%
PRDM1(Zf)/Hela-PRDM1-ChIP-Seq(GSE31477)/Homer	ACTTTCACTTTC	1e0	-7.736e-01	1.0000	34.0	5.27%	2317.7	5.13%
ZBTB33(Zf)/GM12878-ZBTB33-ChIP-Seq(GSE32465)/Homer	GGVTCTCGCGAGAAC	1e0	-7.634e-01	1.0000	2.0	0.31%	110.7	0.25%
OCT4-SOX2-TCF-NANOG(POU,Homeobox,HMG)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAACAATG	1e0	-7.528e-01	1.0000	15.0	2.33%	1007.7	2.23%
Meis1(Homeobox)/MastCells-Meis1-ChIP-Seq(GSE48085)/Homer	VGCTGWCAVB	1e0	-7.501e-01	1.0000	64.0	9.92%	4417.6	9.79%
EFL-1(E2F)/cElegans-L1-EFL1-ChIP-Seq(modEncode)/Homer	TGCAARYGCGCTCYA	1e0	-7.456e-01	1.0000	1.0	0.16%	45.7	0.10%
CEBP:AP1(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	DRTGTTGCAA	1e0	-7.313e-01	1.0000	68.0	10.54%	4708.9	10.43%
Mef2b(MADS)/HEK293-Mef2b.V5-ChIP-Seq(GSE67450)/Homer	GCTATTTTTGGM	1e0	-7.286e-01	1.0000	77.0	11.94%	5338.8	11.83%
Etv2(ETS)/ES-ER71-ChIP-Seq(GSE59402)/Homer(0.967)	NNAYTTCCTGHN	1e0	-7.175e-01	1.0000	35.0	5.43%	2413.2	5.35%
FOXA1(Forkhead)/MCF7-FOXA1-ChIP-Seq(GSE26831)/Homer	WAAGTAAACA	1e0	-7.029e-01	1.0000	78.0	12.09%	5426.3	12.02%
HOXA9(Homeobox)/HSC-Hoxa9-ChIP-Seq(GSE33509)/Homer	GGCCATAAATCA	1e0	-6.974e-01	1.0000	62.0	9.61%	4311.8	9.55%
Nkx2.5(Homeobox)/HL1-Nkx2.5.biotin-ChIP-Seq(GSE21529)/Homer	RRSCACTYAA	1e0	-6.903e-01	1.0000	108.0	16.74%	7534.8	16.69%
ZBTB12(Zf)/HEK293-ZBTB12.GFP-ChIP-Seq(GSE58341)/Homer	NGNTCTAGAACCNGV	1e0	-6.873e-01	1.0000	14.0	2.17%	958.6	2.12%
E2F1(E2F)/Hela-E2F1-ChIP-Seq(GSE22478)/Homer	CWGGCGGGAA	1e0	-6.828e-01	1.0000	8.0	1.24%	539.2	1.19%
Nkx3.1(Homeobox)/LNCaP-Nkx3.1-ChIP-Seq(GSE28264)/Homer	AAGCACTTAA	1e0	-6.806e-01	1.0000	120.0	18.60%	8382.3	18.57%
AARE(HLH)/mES-cMyc-ChIP-Seq/Homer	GATTGCATCA	1e0	-6.793e-01	1.0000	9.0	1.40%	610.4	1.35%
Otx2(Homeobox)/EpiLC-Otx2-ChIP-Seq(GSE56098)/Homer	NYTAATCCYB	1e0	-6.742e-01	1.0000	55.0	8.53%	3836.6	8.50%
Nkx6.1(Homeobox)/Islet-Nkx6.1-ChIP-Seq(GSE40975)/Homer	GKTAATGR	1e0	-6.714e-01	1.0000	299.0	46.36%	20917.2	46.34%
TATA-Box(TBP)/Promoter/Homer	CCTTTTAWAGSC	1e0	-6.665e-01	1.0000	107.0	16.59%	7484.4	16.58%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	AGGTCAAGGTCA	1e0	-6.591e-01	1.0000	3.0	0.47%	192.0	0.43%
HOXB13(Homeobox)/ProstateTumor-HOXB13-ChIP-Seq(GSE56288)/Homer	TTTTATKRGG	1e0	-6.552e-01	1.0000	111.0	17.21%	7774.9	17.22%
RXR(NR),DR1/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer	TAGGGCAAAGGTCA	1e0	-6.457e-01	1.0000	24.0	3.72%	1676.5	3.71%
AP-2alpha(AP2)/Hela-AP2alpha-ChIP-Seq(GSE31477)/Homer	ATGCCCTGAGGC	1e0	-6.428e-01	1.0000	8.0	1.24%	549.8	1.22%
ERE(NR),IR3/MCF7-ERa-ChIP-Seq(Unpublished)/Homer	VAGGTCACNSTGACC	1e0	-6.210e-01	1.0000	5.0	0.78%	341.7	0.76%
FOXM1(Forkhead)/MCF7-FOXM1-ChIP-Seq(GSE72977)/Homer	TRTTTACTTW	1e0	-6.125e-01	1.0000	74.0	11.47%	5213.4	11.55%
Smad3(MAD)/NPC-Smad3-ChIP-Seq(GSE36673)/Homer	TWGTCTGV	1e0	-6.050e-01	1.0000	98.0	15.19%	6906.2	15.30%
ERG(ETS)/VCaP-ERG-ChIP-Seq(GSE14097)/Homer	ACAGGAAGTG	1e0	-6.046e-01	1.0000	60.0	9.30%	4234.3	9.38%
Srebp2(bHLH)/HepG2-Srebp2-ChIP-Seq(GSE31477)/Homer	CGGTCACSCCAC	1e0	-5.955e-01	1.0000	3.0	0.47%	202.7	0.45%
EBF1(EBF)/Near-E2A-ChIP-Seq(GSE21512)/Homer	GTCCCCWGGGGA	1e0	-5.877e-01	1.0000	13.0	2.02%	921.5	2.04%
Lhx1(Homeobox)/EmbryoCarcinoma-Lhx1-ChIP-Seq(GSE70957)/Homer	NNYTAATTAR	1e0	-5.840e-01	1.0000	108.0	16.74%	7628.6	16.90%
Brn2(POU,Homeobox)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATATTC	1e0	-5.789e-01	1.0000	9.0	1.40%	638.1	1.41%
KLF10(Zf)/HEK293-KLF10.GFP-ChIP-Seq(GSE58341)/Homer	GGGGGTGTGTCC	1e0	-5.689e-01	1.0000	9.0	1.40%	641.9	1.42%
EWS:ERG-fusion(ETS)/CADO_ES1-EWS:ERG-ChIP-Seq(SRA014231)/Homer	ATTTCCTGTN	1e0	-5.678e-01	1.0000	35.0	5.43%	2493.0	5.52%
TEAD2(TEA)/Py2T-Tead2-ChIP-Seq(GSE55709)/Homer	CCWGGAATGY	1e0	-5.650e-01	1.0000	20.0	3.10%	1429.5	3.17%
Rbpj1(?)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	HTTTCCCASG	1e0	-5.563e-01	1.0000	52.0	8.06%	3704.1	8.21%
ZBTB18(Zf)/HEK293-ZBTB18.GFP-ChIP-Seq(GSE58341)/Homer	AACATCTGGA	1e0	-5.470e-01	1.0000	12.0	1.86%	864.5	1.91%
SeqBias: G/A bias	RRRRRRRRRR	1e0	-5.432e-01	1.0000	645.0	100.00%	45105.2	99.92%
Znf263(Zf)/K562-Znf263-ChIP-Seq(GSE31477)/Homer	CVGTSCTCCC	1e0	-5.320e-01	1.0000	39.0	6.05%	2799.7	6.20%
SEP3(MADS)/Arabidoposis-Flower-Sep3-ChIP-Seq/Homer	CCAAAAAGGG	1e0	-5.296e-01	1.0000	132.0	20.47%	9372.6	20.76%
ARE(NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	RGRACASNSTGTYCYB	1e0	-5.277e-01	1.0000	5.0	0.78%	362.5	0.80%
ZNF143|STAF(Zf)/CUTLL-ZNF143-ChIP-Seq(GSE29600)/Homer	ATTTCCCAGVAKSCY	1e0	-5.236e-01	1.0000	5.0	0.78%	363.2	0.80%
HIF-1a(bHLH)/MCF7-HIF1a-ChIP-Seq(GSE28352)/Homer	TACGTGCV	1e0	-4.881e-01	1.0000	22.0	3.41%	1610.0	3.57%
Stat3+il21(Stat)/CD4-Stat3-ChIP-Seq(GSE19198)/Homer	SVYTTCCNGGAARB	1e0	-4.786e-01	1.0000	32.0	4.96%	2334.2	5.17%
SPDEF(ETS)/VCaP-SPDEF-ChIP-Seq(SRA014231)/Homer	ASWTCCTGBT	1e0	-4.774e-01	1.0000	46.0	7.13%	3336.4	7.39%
KANADI1(Myb)/Seedling-KAN1-ChIP-Seq(GSE48081)/Homer	ARGAATAWWN	1e0	-4.755e-01	1.0000	150.0	23.26%	10703.0	23.71%
Oct4:Sox17(POU,Homeobox,HMG)/F9-Sox17-ChIP-Seq(GSE44553)/Homer	CCATTGTATGCAAAT	1e0	-4.733e-01	1.0000	10.0	1.55%	746.6	1.65%
SpiB(ETS)/OCILY3-SPIB-ChIP-Seq(GSE56857)/Homer	AAAGRGGAAGTG	1e0	-4.690e-01	1.0000	11.0	1.71%	821.4	1.82%
MafK(bZIP)/C2C12-MafK-ChIP-Seq(GSE36030)/Homer	GCTGASTCAGCA	1e0	-4.679e-01	1.0000	4.0	0.62%	302.2	0.67%
T1ISRE(IRF)/ThioMac-Ifnb-Expression/Homer	ACTTTCGTTTCT	1e0	-4.581e-01	1.0000	1.0	0.16%	70.2	0.16%
IRF2(IRF)/Erythroblas-IRF2-ChIP-Seq(GSE36985)/Homer	GAAASYGAAASY	1e0	-4.513e-01	1.0000	7.0	1.09%	532.6	1.18%
IRF:BATF(IRF:bZIP)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	CTTTCANTATGACTV	1e0	-4.453e-01	1.0000	7.0	1.09%	534.4	1.18%
SeqBias: GCW-triplet	GCWGCWGCWGCW	1e0	-4.288e-01	1.0000	645.0	100.00%	45113.4	99.93%
Ets1-distal(ETS)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	MACAGGAAGT	1e0	-4.276e-01	1.0000	8.0	1.24%	615.6	1.36%
TCFL2(HMG)/K562-TCF7L2-ChIP-Seq(GSE29196)/Homer	ACWTCAAAGG	1e0	-4.170e-01	1.0000	5.0	0.78%	392.4	0.87%
Cdx2(Homeobox)/mES-Cdx2-ChIP-Seq(GSE14586)/Homer	GYMATAAAAH	1e0	-4.085e-01	1.0000	75.0	11.63%	5468.5	12.11%
FOXA1(Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WAAGTAAACA	1e0	-4.048e-01	1.0000	90.0	13.95%	6541.0	14.49%
ELF5(ETS)/T47D-ELF5-ChIP-Seq(GSE30407)/Homer	ACVAGGAAGT	1e0	-3.944e-01	1.0000	38.0	5.89%	2827.9	6.26%
ZNF322(Zf)/HEK293-ZNF322.GFP-ChIP-Seq(GSE58341)/Homer	GAGCCTGGTACTGWGCCTGR	1e0	-3.911e-01	1.0000	2.0	0.31%	163.7	0.36%
ZNF382(Zf)/HEK293-ZNF382.GFP-ChIP-Seq(GSE58341)/Homer	GNCTGTASTRNTGBCTCHTT	1e0	-3.903e-01	1.0000	1.0	0.16%	79.8	0.18%
Pax7(Paired,Homeobox),long/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCHGATTAC	1e0	-3.863e-01	1.0000	2.0	0.31%	164.1	0.36%
SOC1(MADS)/Seedling-SOC1-ChIP-Seq(GSE45846)/Homer	TWCCAWWTWTGG	1e0	-3.842e-01	1.0000	37.0	5.74%	2763.6	6.12%
c-Myc(bHLH)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	VVCCACGTGG	1e0	-3.809e-01	1.0000	12.0	1.86%	934.1	2.07%
Foxh1(Forkhead)/hESC-FOXH1-ChIP-Seq(GSE29422)/Homer	NNTGTGGATTSS	1e0	-3.735e-01	1.0000	42.0	6.51%	3134.2	6.94%
SeqBias: A/T bias	WWWWWWWWWW	1e0	-3.685e-01	1.0000	638.0	98.91%	44697.8	99.01%
PPARE(NR),DR1/3T3L1-Pparg-ChIP-Seq(GSE13511)/Homer	TGACCTTTGCCCCA	1e0	-3.681e-01	1.0000	21.0	3.26%	1608.6	3.56%
AP-2gamma(AP2)/MCF7-TFAP2C-ChIP-Seq(GSE21234)/Homer	SCCTSAGGSCAW	1e0	-3.668e-01	1.0000	11.0	1.71%	866.0	1.92%
EBF(EBF)/proBcell-EBF-ChIP-Seq(GSE21978)/Homer	DGTCCCYRGGGA	1e0	-3.634e-01	1.0000	2.0	0.31%	169.0	0.37%
bZIP:IRF(bZIP,IRF)/Th17-BatF-ChIP-Seq(GSE39756)/Homer	NAGTTTCABTHTGACTNW	1e0	-3.630e-01	1.0000	24.0	3.72%	1832.8	4.06%
PU.1(ETS)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	AGAGGAAGTG	1e0	-3.629e-01	1.0000	13.0	2.02%	1018.7	2.26%
ETS1(ETS)/Jurkat-ETS1-ChIP-Seq(GSE17954)/Homer	ACAGGAAGTG	1e0	-3.513e-01	1.0000	40.0	6.20%	3009.3	6.67%
Tbx20(T-box)/Heart-Tbx20-ChIP-Seq(GSE29636)/Homer	GGTGYTGACAGS	1e0	-3.508e-01	1.0000	8.0	1.24%	646.1	1.43%
Oct4(POU,Homeobox)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAW	1e0	-3.459e-01	1.0000	35.0	5.43%	2650.8	5.87%
Oct2(POU,Homeobox)/Bcell-Oct2-ChIP-Seq(GSE21512)/Homer	ATATGCAAAT	1e0	-3.454e-01	1.0000	23.0	3.57%	1771.2	3.92%
PQM-1(?)/cElegans-L3-ChIP-Seq(modEncode)/Homer	ACTGATAAGA	1e0	-3.421e-01	1.0000	38.0	5.89%	2872.2	6.36%
NRF(NRF)/Promoter/Homer	STGCGCATGCGC	1e0	-3.416e-01	1.0000	3.0	0.47%	257.2	0.57%
PU.1:IRF8(ETS:IRF)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	GGAAGTGAAAST	1e0	-3.374e-01	1.0000	8.0	1.24%	652.2	1.44%
KLF5(Zf)/LoVo-KLF5-ChIP-Seq(GSE49402)/Homer	DGGGYGKGGC	1e0	-3.318e-01	1.0000	18.0	2.79%	1410.9	3.13%
GATA3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATAASR	1e0	-3.310e-01	1.0000	145.0	22.48%	10552.2	23.37%
LXRE(NR),DR4/RAW-LXRb.biotin-ChIP-Seq(GSE21512)/Homer	RGGTTACTANAGGTCA	1e0	-3.285e-01	1.0000	1.0	0.16%	90.0	0.20%
RBPJ:Ebox(?,bHLH)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	GGGRAARRGRMCAGMTG	1e0	-3.231e-01	1.0000	5.0	0.78%	424.4	0.94%
E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer	GGCGGGAARN	1e0	-3.171e-01	1.0000	11.0	1.71%	892.2	1.98%
GABPA(ETS)/Jurkat-GABPa-ChIP-Seq(GSE17954)/Homer	RACCGGAAGT	1e0	-3.131e-01	1.0000	36.0	5.58%	2753.1	6.10%
Tcfcp2l1(CP2)/mES-Tcfcp2l1-ChIP-Seq(GSE11431)/Homer	NRAACCRGTTYRAACCRGYT	1e0	-3.088e-01	1.0000	3.0	0.47%	267.5	0.59%
E-box(bHLH)/Promoter/Homer	SSGGTCACGTGA	1e0	-3.064e-01	1.0000	2.0	0.31%	183.1	0.41%
FOXA1:AR(Forkhead,NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	AGTAAACAAAAAAGAACAND	1e0	-2.965e-01	1.0000	3.0	0.47%	271.6	0.60%
Pax7(Paired,Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCAATTA	1e0	-2.939e-01	1.0000	9.0	1.40%	751.2	1.66%
Mef2d(MADS)/Retina-Mef2d-ChIP-Seq(GSE61391)/Homer	GCTATTTTTAGC	1e0	-2.914e-01	1.0000	15.0	2.33%	1212.7	2.69%
NF1-halfsite(CTF)/LNCaP-NF1-ChIP-Seq(Unpublished)/Homer	YTGCCAAG	1e0	-2.830e-01	1.0000	74.0	11.47%	5549.8	12.29%
GATA(Zf),IR3/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NNNNNBAGATAWYATCTVHN	1e0	-2.700e-01	1.0000	8.0	1.24%	686.4	1.52%
BMYB(HTH)/Hela-BMYB-ChIP-Seq(GSE27030)/Homer	NHAACBGYYV	1e0	-2.598e-01	1.0000	130.0	20.16%	9607.5	21.28%
Pit1+1bp(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGCATAATTCA	1e0	-2.484e-01	1.0000	32.0	4.96%	2524.2	5.59%
IRF1(IRF)/PBMC-IRF1-ChIP-Seq(GSE43036)/Homer	GAAAGTGAAAGT	1e0	-2.475e-01	1.0000	8.0	1.24%	699.5	1.55%
Reverb(NR),DR2/RAW-Reverba.biotin-ChIP-Seq(GSE45914)/Homer	GTRGGTCASTGGGTCA	1e0	-2.439e-01	1.0000	1.0	0.16%	107.0	0.24%
SeqBias: C/A-bias	MMMMMMMMMM	1e0	-2.429e-01	1.0000	645.0	100.00%	45126.9	99.96%
HOXD13(Homeobox)/Chicken-Hoxd13-ChIP-Seq(GSE38910)/Homer	NCYAATAAAA	1e0	-2.424e-01	1.0000	100.0	15.50%	7488.3	16.59%
Erra(NR)/HepG2-Erra-ChIP-Seq(GSE31477)/Homer	CAAAGGTCAG	1e0	-2.337e-01	1.0000	58.0	8.99%	4458.7	9.88%
GATA3(Zf),DR8/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATSTNDNNDSAGATAASN	1e0	-2.298e-01	1.0000	4.0	0.62%	382.8	0.85%
YY1(Zf)/Promoter/Homer	CAAGATGGCGGC	1e0	-2.293e-01	1.0000	2.0	0.31%	207.7	0.46%
SeqBias: polyA-repeat	AAAAAAAAAA	1e0	-2.286e-01	1.0000	645.0	100.00%	45127.4	99.96%
Lhx3(Homeobox)/Neuron-Lhx3-ChIP-Seq(GSE31456)/Homer	ADBTAATTAR	1e0	-2.209e-01	1.0000	161.0	24.96%	11899.7	26.36%
NF1:FOXA1(CTF,Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WNTGTTTRYTTTGGCA	1e0	-2.159e-01	1.0000	2.0	0.31%	212.8	0.47%
TR4(NR),DR1/Hela-TR4-ChIP-Seq(GSE24685)/Homer	GAGGTCAAAGGTCA	1e0	-2.144e-01	1.0000	1.0	0.16%	116.0	0.26%
Zfp809(Zf)/ES-Zfp809-ChIP-Seq(GSE70799)/Homer	GGGGCTYGKCTGGGA	1e0	-2.144e-01	1.0000	1.0	0.16%	115.2	0.26%
FXR(NR),IR1/Liver-FXR-ChIP-Seq(Chong_et_al.)/Homer	AGGTCANTGACCTB	1e0	-2.133e-01	1.0000	8.0	1.24%	721.0	1.60%
CArG(MADS)/PUER-Srf-ChIP-Seq(Sullivan_et_al.)/Homer	CCATATATGGNM	1e0	-2.104e-01	1.0000	20.0	3.10%	1661.3	3.68%
HIF2a(bHLH)/785_O-HIF2a-ChIP-Seq(GSE34871)/Homer	GCACGTACCC	1e0	-2.101e-01	1.0000	31.0	4.81%	2494.5	5.53%
Nur77(NR)/K562-NR4A1-ChIP-Seq(GSE31363)/Homer	TGACCTTTNCNT	1e0	-2.090e-01	1.0000	8.0	1.24%	724.2	1.60%
ETS:RUNX(ETS,Runt)/Jurkat-RUNX1-ChIP-Seq(GSE17954)/Homer	RCAGGATGTGGT	1e0	-2.077e-01	1.0000	1.0	0.16%	117.9	0.26%
AR-halfsite(NR)/LNCaP-AR-ChIP-Seq(GSE27824)/Homer	CCAGGAACAG	1e0	-2.057e-01	1.0000	137.0	21.24%	10219.0	22.64%
Pitx1(Homeobox)/Chicken-Pitx1-ChIP-Seq(GSE38910)/Homer	TAATCCCN	1e0	-2.055e-01	1.0000	309.0	47.91%	22386.5	49.59%
Foxa2(Forkhead)/Liver-Foxa2-ChIP-Seq(GSE25694)/Homer	CYTGTTTACWYW	1e0	-1.905e-01	1.0000	51.0	7.91%	4011.1	8.89%
CEBP(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	ATTGCGCAAC	1e0	-1.889e-01	1.0000	70.0	10.85%	5411.5	11.99%
Six1(Homeobox)/Myoblast-Six1-ChIP-Chip(GSE20150)/Homer	GKVTCADRTTWC	1e0	-1.884e-01	1.0000	11.0	1.71%	981.6	2.17%
KLF14(Zf)/HEK293-KLF14.GFP-ChIP-Seq(GSE58341)/Homer	RGKGGGCGKGGC	1e0	-1.828e-01	1.0000	20.0	3.10%	1691.7	3.75%
EHF(ETS)/LoVo-EHF-ChIP-Seq(GSE49402)/Homer	AVCAGGAAGT	1e0	-1.703e-01	1.0000	64.0	9.92%	5007.8	11.09%
CES-1(Homeobox)/cElegans-L1-CES1-ChIP-Seq(modEncode)/Homer	AAATTSAATTTN	1e0	-1.680e-01	1.0000	55.0	8.53%	4347.9	9.63%
NFkB-p65(RHD)/GM12787-p65-ChIP-Seq(GSE19485)/Homer	WGGGGATTTCCC	1e0	-1.678e-01	1.0000	13.0	2.02%	1160.2	2.57%
Mef2a(MADS)/HL1-Mef2a.biotin-ChIP-Seq(GSE21529)/Homer	CYAAAAATAG	1e0	-1.676e-01	1.0000	30.0	4.65%	2476.2	5.49%
Nanog(Homeobox)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	RGCCATTAAC	1e0	-1.664e-01	1.0000	317.0	49.15%	23060.4	51.08%
Unknown2/Arabidopsis-Promoters/Homer	AAACGACGTCGTTTT	1e0	-1.640e-01	1.0000	1.0	0.16%	132.0	0.29%
Tal1	CATCTG	1e0	-1.628e-01	1.0000	51.0	7.91%	4060.0	8.99%
GRE(NR),IR3/RAW264.7-GRE-ChIP-Seq(Unpublished)/Homer	VAGRACAKWCTGTYC	1e0	-1.599e-01	1.0000	6.0	0.93%	595.9	1.32%
Sp1(Zf)/Promoter/Homer	GGCCCCGCCCCC	1e0	-1.565e-01	1.0000	1.0	0.16%	135.4	0.30%
PRDM14(Zf)/H1-PRDM14-ChIP-Seq(GSE22767)/Homer	RGGTCTCTAACY	1e0	-1.547e-01	1.0000	9.0	1.40%	850.9	1.88%
NFY(CCAAT)/Promoter/Homer	RGCCAATSRG	1e0	-1.453e-01	1.0000	60.0	9.30%	4764.7	10.55%
OCT:OCT(POU,Homeobox,IR1)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATWATTCATGA	1e0	-1.427e-01	1.0000	1.0	0.16%	141.0	0.31%
TEAD(TEA)/Fibroblast-PU.1-ChIP-Seq(Unpublished)/Homer	YCWGGAATGY	1e0	-1.417e-01	1.0000	30.0	4.65%	2517.7	5.58%
RUNX2(Runt)/PCa-RUNX2-ChIP-Seq(GSE33889)/Homer	NWAACCACADNN	1e0	-1.399e-01	1.0000	30.0	4.65%	2520.2	5.58%
MafA(bZIP)/Islet-MafA-ChIP-Seq(GSE30298)/Homer	TGCTGACTCA	1e0	-1.362e-01	1.0000	20.0	3.10%	1752.3	3.88%
ETS(ETS)/Promoter/Homer	AACCGGAAGT	1e0	-1.346e-01	1.0000	12.0	1.86%	1117.5	2.48%
GRE(NR),IR3/A549-GR-ChIP-Seq(GSE32465)/Homer	NRGVACABNVTGTYCY	1e0	-1.318e-01	1.0000	2.0	0.31%	253.1	0.56%
DREF/Drosophila-Promoters/Homer	AVYTATCGATAD	1e0	-1.299e-01	1.0000	4.0	0.62%	445.0	0.99%
AMYB(HTH)/Testes-AMYB-ChIP-Seq(GSE44588)/Homer	TGGCAGTTGG	1e0	-1.270e-01	1.0000	106.0	16.43%	8188.4	18.14%
Gata4(Zf)/Heart-Gata4-ChIP-Seq(GSE35151)/Homer	NBWGATAAGR	1e0	-1.110e-01	1.0000	85.0	13.18%	6701.9	14.85%
Fox:Ebox(Forkhead,bHLH)/Panc1-Foxa2-ChIP-Seq(GSE47459)/Homer	NNNVCTGWGYAAACASN	1e0	-1.064e-01	1.0000	38.0	5.89%	3200.6	7.09%
STAT4(Stat)/CD4-Stat4-ChIP-Seq(GSE22104)/Homer	NYTTCCWGGAAR	1e0	-9.847e-02	1.0000	51.0	7.91%	4208.7	9.32%
CEBP:CEBP(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	NTNATGCAAYMNNHTGMAAY	1e0	-9.793e-02	1.0000	7.0	1.09%	744.1	1.65%
Unknown3/Drosophila-Promoters/Homer	ACVAKCTGGCAGCGC	1e0	-9.751e-02	1.0000	1.0	0.16%	166.5	0.37%
EGL-5(Homeobox)/cElegans-L3-EGL5-ChIP-Seq(modEncode)/Homer	ATTTAATGGG	1e0	-9.153e-02	1.0000	131.0	20.31%	10134.1	22.45%
caudal(Homeobox)/Drosophila-Embryos-ChIP-Chip(modEncode)/Homer	GGYCATAAAW	1e0	-8.360e-02	1.0000	83.0	12.87%	6650.9	14.73%
PCF/Arabidopsis-Promoters/Homer	NNWWWTGGGCYTDDN	1e0	-8.332e-02	1.0000	14.0	2.17%	1360.5	3.01%
Unknown4/Drosophila-Promoters/Homer	AAAAATACCRMA	1e0	-7.686e-02	1.0000	13.0	2.02%	1290.4	2.86%
Nr5a2(NR)/mES-Nr5a2-ChIP-Seq(GSE19019)/Homer	BTCAAGGTCA	1e0	-7.354e-02	1.0000	13.0	2.02%	1297.3	2.87%
ZNF136(Zf)/HEK293-ZNF136.GFP-ChIP-Seq(GSE58341)/Homer	YTKGATAHAGTATTCTWGGTNGGCA	1e0	-7.243e-02	1.0000	3.0	0.47%	407.0	0.90%
Pax7(Paired,Homeobox),longest/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	NTAATTDGCYAATTANNWWD	1e0	-7.229e-02	1.0000	1.0	0.16%	186.3	0.41%
GRHL2(CP2)/HBE-GRHL2-ChIP-Seq(GSE46194)/Homer	AAACYKGTTWDACMRGTTTB	1e0	-7.108e-02	1.0000	14.0	2.17%	1386.7	3.07%
E2A(bHLH)/proBcell-E2A-ChIP-Seq(GSE21978)/Homer	DNRCAGCTGY	1e0	-7.017e-02	1.0000	27.0	4.19%	2441.6	5.41%
Phox2a(Homeobox)/Neuron-Phox2a-ChIP-Seq(GSE31456)/Homer	YTAATYNRATTA	1e0	-6.628e-02	1.0000	31.0	4.81%	2769.6	6.14%
PAX5(Paired,Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GCAGCCAAGCRTGACH	1e0	-6.331e-02	1.0000	5.0	0.78%	615.2	1.36%
Atoh1(bHLH)/Cerebellum-Atoh1-ChIP-Seq(GSE22111)/Homer	VNRVCAGCTGGY	1e0	-6.149e-02	1.0000	23.0	3.57%	2148.8	4.76%
GATA3(Zf),DR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATGKDGAGATAAG	1e0	-5.602e-02	1.0000	3.0	0.47%	431.2	0.96%
HNF6(Homeobox)/Liver-Hnf6-ChIP-Seq(ERP000394)/Homer	NTATYGATCH	1e0	-5.470e-02	1.0000	65.0	10.08%	5433.8	12.04%
Gata1(Zf)/K562-GATA1-ChIP-Seq(GSE18829)/Homer	SAGATAAGRV	1e0	-5.137e-02	1.0000	37.0	5.74%	3297.8	7.31%
Esrrb(NR)/mES-Esrrb-ChIP-Seq(GSE11431)/Homer	KTGACCTTGA	1e0	-4.979e-02	1.0000	18.0	2.79%	1778.6	3.94%
Unknown-ESC-element(?)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	CACAGCAGGGGG	1e0	-4.818e-02	1.0000	4.0	0.62%	547.6	1.21%
Dorsal(RHD)/Embryo-dl-ChIP-Seq(GSE65441)/Homer	GGGAAAAMCCCG	1e0	-4.725e-02	1.0000	5.0	0.78%	647.8	1.43%
MafF(bZIP)/HepG2-MafF-ChIP-Seq(GSE31477)/Homer	HWWGTCAGCAWWTTT	1e0	-4.598e-02	1.0000	14.0	2.17%	1455.4	3.22%
Unknown5/Drosophila-Promoters/Homer	GCTGATAASV	1e0	-3.762e-02	1.0000	42.0	6.51%	3760.6	8.33%
Tcf3(HMG)/mES-Tcf3-ChIP-Seq(GSE11724)/Homer	ASWTCAAAGG	1e0	-3.454e-02	1.0000	13.0	2.02%	1412.8	3.13%
RUNX-AML(Runt)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	GCTGTGGTTW	1e0	-3.422e-02	1.0000	18.0	2.79%	1841.9	4.08%
HEB(bHLH)/mES-Heb-ChIP-Seq(GSE53233)/Homer	VCAGCTGBNN	1e0	-3.223e-02	1.0000	38.0	5.89%	3479.8	7.71%
RUNX(Runt)/HPC7-Runx1-ChIP-Seq(GSE22178)/Homer	SAAACCACAG	1e0	-3.016e-02	1.0000	22.0	3.41%	2197.7	4.87%
PGR(NR)/EndoStromal-PGR-ChIP-Seq(GSE69539)/Homer	AAGAACATWHTGTTC	1e0	-2.931e-02	1.0000	5.0	0.78%	698.2	1.55%
HNF4a(NR),DR1/HepG2-HNF4a-ChIP-Seq(GSE25021)/Homer	CARRGKBCAAAGTYCA	1e0	-2.808e-02	1.0000	7.0	1.09%	897.4	1.99%
Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer	BAACAGCTGT	1e0	-2.689e-02	1.0000	9.0	1.40%	1089.5	2.41%
E2A(bHLH),near_PU.1/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	NVCACCTGBN	1e0	-2.684e-02	1.0000	30.0	4.65%	2875.5	6.37%
IRF4(IRF)/GM12878-IRF4-ChIP-Seq(GSE32465)/Homer	ACTGAAACCA	1e0	-2.481e-02	1.0000	21.0	3.26%	2147.7	4.76%
CHR(?)/Hela-CellCycle-Expression/Homer	SRGTTTCAAA	1e0	-2.326e-02	1.0000	52.0	8.06%	4654.5	10.31%
MyoD(bHLH)/Myotube-MyoD-ChIP-Seq(GSE21614)/Homer	RRCAGCTGYTSY	1e0	-2.100e-02	1.0000	12.0	1.86%	1394.3	3.09%
HLH-1(bHLH)/cElegans-Embryo-HLH1-ChIP-Seq(modEncode)/Homer	RACAGCTGTTBH	1e0	-1.891e-02	1.0000	23.0	3.57%	2361.6	5.23%
NeuroD1(bHLH)/Islet-NeuroD1-ChIP-Seq(GSE30298)/Homer	GCCATCTGTT	1e0	-1.811e-02	1.0000	13.0	2.02%	1504.7	3.33%
PR(NR)/T47D-PR-ChIP-Seq(GSE31130)/Homer	VAGRACAKNCTGTBC	1e0	-1.755e-02	1.0000	76.0	11.78%	6578.8	14.57%
Unknown4/Arabidopsis-Promoters/Homer	CKTCKTCTTY	1e0	-1.697e-02	1.0000	71.0	11.01%	6203.7	13.74%
Gata2(Zf)/K562-GATA2-ChIP-Seq(GSE18829)/Homer	BBCTTATCTS	1e0	-1.607e-02	1.0000	41.0	6.36%	3865.2	8.56%
 Ik-1	NHTTGGGAATRCC	1e0	-1.429e-02	1.0000	645.0	100.00%	45143.3	100.00%
Tcf4(HMG)/Hct116-Tcf4-ChIP-Seq(SRA012054)/Homer	ASATCAAAGGVA	1e0	-1.311e-02	1.0000	22.0	3.41%	2337.4	5.18%
Ascl1(bHLH)/NeuralTubes-Ascl1-ChIP-Seq(GSE55840)/Homer	NNVVCAGCTGBN	1e0	-1.276e-02	1.0000	27.0	4.19%	2764.7	6.12%
Olig2(bHLH)/Neuron-Olig2-ChIP-Seq(GSE30882)/Homer	RCCATMTGTT	1e0	-1.126e-02	1.0000	71.0	11.01%	6304.9	13.97%
RUNX1(Runt)/Jurkat-RUNX1-ChIP-Seq(GSE29180)/Homer	AAACCACARM	1e0	-1.116e-02	1.0000	33.0	5.12%	3286.9	7.28%
Unknown2/Drosophila-Promoters/Homer	CATCMCTA	1e0	-1.053e-02	1.0000	30.0	4.65%	3048.8	6.75%
MyoG(bHLH)/C2C12-MyoG-ChIP-Seq(GSE36024)/Homer	AACAGCTG	1e0	-1.034e-02	1.0000	13.0	2.02%	1580.6	3.50%
Nr5a2(NR)/Pancreas-LRH1-ChIP-Seq(GSE34295)/Homer	BTCAAGGTCA	1e0	-7.990e-03	1.0000	16.0	2.48%	1887.0	4.18%
Tcf12(bHLH)/GM12878-Tcf12-ChIP-Seq(GSE32465)/Homer	VCAGCTGYTG	1e0	-1.961e-03	1.0000	10.0	1.55%	1495.4	3.31%
E-box/Drosophila-Promoters/Homer	AACAGCTGTTHN	1e0	-1.806e-03	1.0000	1.0	0.16%	440.6	0.98%
Tcf21(bHLH)/ArterySmoothMuscle-Tcf21-ChIP-Seq(GSE61369)/Homer	NAACAGCTGG	1e0	-1.538e-03	1.0000	10.0	1.55%	1522.8	3.37%
Ptf1a(bHLH)/Panc1-Ptf1a-ChIP-Seq(GSE47459)/Homer	ACAGCTGTTN	1e0	-1.515e-03	1.0000	56.0	8.68%	5541.2	12.27%
Ap4(bHLH)/AML-Tfap4-ChIP-Seq(GSE45738)/Homer	NAHCAGCTGD	1e0	-3.800e-04	1.0000	12.0	1.86%	1879.1	4.16%
SCL(bHLH)/HPC7-Scl-ChIP-Seq(GSE13511)/Homer	AVCAGCTG	1e0	-3.560e-04	1.0000	140.0	21.71%	12389.2	27.44%
Bach1(bZIP)/K562-Bach1-ChIP-Seq(GSE31477)/Homer	AWWNTGCTGAGTCAT	1e0	0.000e+00	1.0000	0.0	0.00%	79.4	0.18%
BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer	CNNBRGCGCCCCCTGSTGGC	1e0	0.000e+00	1.0000	0.0	0.00%	89.9	0.20%
CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	AYAGTGCCMYCTRGTGGCCA	1e0	0.000e+00	1.0000	0.0	0.00%	100.0	0.22%
CTCF-SatelliteElement(Zf?)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	TGCAGTTCCMVNWRTGGCCA	1e0	0.000e+00	1.0000	0.0	0.00%	33.5	0.07%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	RGGTCADNNAGAGGTCAV	1e0	0.000e+00	1.0000	0.0	0.00%	13.1	0.03%
EBNA1(EBV-virus)/Raji-EBNA1-ChIP-Seq(GSE30709)/Homer	GGYAGCAYDTGCTDCCCNNN	1e0	0.000e+00	1.0000	0.0	0.00%	22.2	0.05%
GFY(?)/Promoter/Homer	ACTACAATTCCC	1e0	0.000e+00	1.0000	0.0	0.00%	108.5	0.24%
GFY-Staf(?,Zf)/Promoter/Homer	RACTACAATTCCCAGAAKGC	1e0	0.000e+00	1.0000	0.0	0.00%	39.4	0.09%
NF-E2(bZIP)/K562-NFE2-ChIP-Seq(GSE31477)/Homer	GATGACTCAGCA	1e0	0.000e+00	1.0000	0.0	0.00%	78.4	0.17%
Nrf2(bZIP)/Lymphoblast-Nrf2-ChIP-Seq(GSE37589)/Homer	HTGCTGAGTCAT	1e0	0.000e+00	1.0000	0.0	0.00%	62.2	0.14%
OCT:OCT(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	ATGAATATTCATGAG	1e0	0.000e+00	1.0000	0.0	0.00%	41.0	0.09%
NFkB-p50,p52(RHD)/Monocyte-p50-ChIP-Chip(Schreiber_et_al.)/Homer	GGGGGAATCCCC	1e0	0.000e+00	1.0000	0.0	0.00%	97.9	0.22%
p53(p53)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	ACATGCCCGGGCAT	1e0	0.000e+00	1.0000	0.0	0.00%	5.6	0.01%
PAX5(Paired,Homeobox),condensed/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GTCACGCTCSCTGM	1e0	0.000e+00	1.0000	0.0	0.00%	232.0	0.51%
Pax8(Paired,Homeobox)/Thyroid-Pax8-ChIP-Seq(GSE26938)/Homer	GTCATGCHTGRCTGS	1e0	0.000e+00	1.0000	0.0	0.00%	342.4	0.76%
PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer	GSCTGTCACTCA	1e0	0.000e+00	1.0000	0.0	0.00%	61.9	0.14%
RARg(NR)/ES-RARg-ChIP-Seq(GSE30538)/Homer	AGGTCAAGGTCA	1e0	0.000e+00	1.0000	0.0	0.00%	32.5	0.07%
REST-NRSF(Zf)/Jurkat-NRSF-ChIP-Seq/Homer	GGMGCTGTCCATGGTGCTGA	1e0	0.000e+00	1.0000	0.0	0.00%	4.0	0.01%
ZFP3(Zf)/HEK293-ZFP3.GFP-ChIP-Seq(GSE58341)/Homer	GGGTTTTGAAGGATGARTAGGAGTT	1e0	0.000e+00	1.0000	0.0	0.00%	1.0	0.00%
ZNF165(Zf)/WHIM12-ZNF165-ChIP-Seq(GSE65937)/Homer	AAGGKGRCGCAGGCA	1e0	0.000e+00	1.0000	0.0	0.00%	94.6	0.21%
ZNF16(Zf)/HEK293-ZNF16.GFP-ChIP-Seq(GSE58341)/Homer	MACCTTCYATGGCTCCCTAKTGCCY	1e0	0.000e+00	1.0000	0.0	0.00%	1.4	0.00%
ZNF528(Zf)/HEK293-ZNF528.GFP-ChIP-Seq(GSE58341)/Homer	AGAAATGACTTCCCT	1e0	0.000e+00	1.0000	0.0	0.00%	16.3	0.04%
ZNF692(Zf)/HEK293-ZNF692.GFP-ChIP-Seq(GSE58341)/Homer	GTGGGCCCCA	1e0	0.000e+00	1.0000	0.0	0.00%	177.4	0.39%
ZSCAN22(Zf)/HEK293-ZSCAN22.GFP-ChIP-Seq(GSE58341)/Homer	SMCAGTCWGAKGGAGGAGGC	1e0	0.000e+00	1.0000	0.0	0.00%	22.3	0.05%
GEI-11(Myb?)/cElegans-L4-GEI11-ChIP-Seq(modEncode)/Homer	CCGACAYYTYACGGG	1e0	0.000e+00	1.0000	0.0	0.00%	100.2	0.22%
LIN-15B(Zf)/cElegans-L3-LIN15B-ChIP-Seq(modEncode)/Homer	CARTGGAGCGCRYTTGCATT	1e0	0.000e+00	1.0000	0.0	0.00%	18.8	0.04%