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 2502)	% of Background Sequences with Motif
GATA3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATAASR	1e-617	-1.421e+03	0.0000	2315.0	77.17%	230.4	9.21%
Gata4(Zf)/Heart-Gata4-ChIP-Seq(GSE35151)/Homer	NBWGATAAGR	1e-503	-1.159e+03	0.0000	1974.0	65.80%	158.1	6.32%
Gata2(Zf)/K562-GATA2-ChIP-Seq(GSE18829)/Homer	BBCTTATCTS	1e-430	-9.923e+02	0.0000	1694.0	56.47%	104.1	4.16%
Gata1(Zf)/K562-GATA1-ChIP-Seq(GSE18829)/Homer	SAGATAAGRV	1e-402	-9.274e+02	0.0000	1604.0	53.47%	95.9	3.83%
ELT-3(Gata)/cElegans-L1-ELT3-ChIP-Seq(modEncode)/Homer	AWTGATAAGA	1e-110	-2.535e+02	0.0000	666.0	22.20%	74.0	2.96%
GATA:SCL(Zf,bHLH)/Ter119-SCL-ChIP-Seq(GSE18720)/Homer	CRGCTGBNGNSNNSAGATAA	1e-110	-2.534e+02	0.0000	481.0	16.03%	16.8	0.67%
PQM-1(?)/cElegans-L3-ChIP-Seq(modEncode)/Homer	ACTGATAAGA	1e-105	-2.434e+02	0.0000	625.0	20.83%	65.3	2.61%
Unknown5/Drosophila-Promoters/Homer	GCTGATAASV	1e-65	-1.509e+02	0.0000	482.0	16.07%	72.7	2.90%
CRX(Homeobox)/Retina-Crx-ChIP-Seq(GSE20012)/Homer	GCTAATCC	1e-26	-6.162e+01	0.0000	816.0	27.20%	381.1	15.23%
SCL(bHLH)/HPC7-Scl-ChIP-Seq(GSE13511)/Homer	AVCAGCTG	1e-24	-5.646e+01	0.0000	1153.0	38.43%	635.5	25.40%
GATA3(Zf),DR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATGKDGAGATAAG	1e-21	-5.025e+01	0.0000	102.0	3.40%	4.2	0.17%
SeqBias: polyA-repeat	AAAAAAAAAA	1e-21	-4.861e+01	0.0000	2945.0	98.17%	2327.2	93.03%
Atf3(bZIP)/GBM-ATF3-ChIP-Seq(GSE33912)/Homer	DATGASTCATHN	1e-21	-4.842e+01	0.0000	219.0	7.30%	49.8	1.99%
BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer	DATGASTCAT	1e-20	-4.835e+01	0.0000	221.0	7.37%	50.4	2.01%
Tcf21(bHLH)/ArterySmoothMuscle-Tcf21-ChIP-Seq(GSE61369)/Homer	NAACAGCTGG	1e-20	-4.830e+01	0.0000	309.0	10.30%	94.7	3.79%
AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	VTGACTCATC	1e-20	-4.680e+01	0.0000	228.0	7.60%	55.6	2.22%
ETV1(ETS)/GIST48-ETV1-ChIP-Seq(GSE22441)/Homer	AACCGGAAGT	1e-19	-4.543e+01	0.0000	327.0	10.90%	109.0	4.36%
Etv2(ETS)/ES-ER71-ChIP-Seq(GSE59402)/Homer(0.967)	NNAYTTCCTGHN	1e-19	-4.438e+01	0.0000	218.0	7.27%	54.0	2.16%
Fra1(bZIP)/BT549-Fra1-ChIP-Seq(GSE46166)/Homer	NNATGASTCATH	1e-18	-4.328e+01	0.0000	194.0	6.47%	43.5	1.74%
RUNX(Runt)/HPC7-Runx1-ChIP-Seq(GSE22178)/Homer	SAAACCACAG	1e-18	-4.242e+01	0.0000	192.0	6.40%	43.4	1.73%
ERG(ETS)/VCaP-ERG-ChIP-Seq(GSE14097)/Homer	ACAGGAAGTG	1e-18	-4.226e+01	0.0000	348.0	11.60%	125.3	5.01%
Atoh1(bHLH)/Cerebellum-Atoh1-ChIP-Seq(GSE22111)/Homer	VNRVCAGCTGGY	1e-18	-4.157e+01	0.0000	316.0	10.53%	108.0	4.32%
Ap4(bHLH)/AML-Tfap4-ChIP-Seq(GSE45738)/Homer	NAHCAGCTGD	1e-17	-4.131e+01	0.0000	376.0	12.53%	143.9	5.75%
MyoD(bHLH)/Myotube-MyoD-ChIP-Seq(GSE21614)/Homer	RRCAGCTGYTSY	1e-17	-4.001e+01	0.0000	247.0	8.23%	73.2	2.92%
RUNX-AML(Runt)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	GCTGTGGTTW	1e-17	-3.987e+01	0.0000	186.0	6.20%	43.8	1.75%
Fli1(ETS)/CD8-FLI-ChIP-Seq(GSE20898)/Homer	NRYTTCCGGH	1e-17	-3.917e+01	0.0000	239.0	7.97%	70.5	2.82%
Ascl1(bHLH)/NeuralTubes-Ascl1-ChIP-Seq(GSE55840)/Homer	NNVVCAGCTGBN	1e-16	-3.836e+01	0.0000	385.0	12.83%	154.8	6.19%
Tcf12(bHLH)/GM12878-Tcf12-ChIP-Seq(GSE32465)/Homer	VCAGCTGYTG	1e-16	-3.823e+01	0.0000	292.0	9.73%	100.8	4.03%
RUNX2(Runt)/PCa-RUNX2-ChIP-Seq(GSE33889)/Homer	NWAACCACADNN	1e-16	-3.706e+01	0.0000	202.0	6.73%	54.5	2.18%
Fosl2(bZIP)/3T3L1-Fosl2-ChIP-Seq(GSE56872)/Homer	NATGASTCABNN	1e-15	-3.653e+01	0.0000	154.0	5.13%	32.4	1.30%
Ptf1a(bHLH)/Panc1-Ptf1a-ChIP-Seq(GSE47459)/Homer	ACAGCTGTTN	1e-15	-3.504e+01	0.0000	615.0	20.50%	311.2	12.44%
HLH-1(bHLH)/cElegans-Embryo-HLH1-ChIP-Seq(modEncode)/Homer	RACAGCTGTTBH	1e-14	-3.344e+01	0.0000	214.0	7.13%	66.0	2.64%
Olig2(bHLH)/Neuron-Olig2-ChIP-Seq(GSE30882)/Homer	RCCATMTGTT	1e-14	-3.261e+01	0.0000	451.0	15.03%	208.9	8.35%
ETS1(ETS)/Jurkat-ETS1-ChIP-Seq(GSE17954)/Homer	ACAGGAAGTG	1e-13	-3.195e+01	0.0000	234.0	7.80%	78.4	3.13%
GABPA(ETS)/Jurkat-GABPa-ChIP-Seq(GSE17954)/Homer	RACCGGAAGT	1e-13	-3.141e+01	0.0000	197.0	6.57%	59.8	2.39%
EHF(ETS)/LoVo-EHF-ChIP-Seq(GSE49402)/Homer	AVCAGGAAGT	1e-13	-3.080e+01	0.0000	285.0	9.50%	109.6	4.38%
Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer	BAACAGCTGT	1e-13	-3.062e+01	0.0000	221.0	7.37%	73.8	2.95%
Jun-AP1(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	GATGASTCATCN	1e-13	-3.034e+01	0.0000	124.0	4.13%	25.8	1.03%
RUNX1(Runt)/Jurkat-RUNX1-ChIP-Seq(GSE29180)/Homer	AAACCACARM	1e-12	-2.964e+01	0.0000	229.0	7.63%	79.5	3.18%
MyoG(bHLH)/C2C12-MyoG-ChIP-Seq(GSE36024)/Homer	AACAGCTG	1e-12	-2.813e+01	0.0000	283.0	9.43%	113.4	4.53%
NeuroD1(bHLH)/Islet-NeuroD1-ChIP-Seq(GSE30298)/Homer	GCCATCTGTT	1e-12	-2.788e+01	0.0000	229.0	7.63%	82.4	3.30%
HEB(bHLH)/mES-Heb-ChIP-Seq(GSE53233)/Homer	VCAGCTGBNN	1e-9	-2.294e+01	0.0000	406.0	13.53%	204.8	8.19%
BMYB(HTH)/Hela-BMYB-ChIP-Seq(GSE27030)/Homer	NHAACBGYYV	1e-9	-2.278e+01	0.0000	320.0	10.67%	148.6	5.94%
ELF5(ETS)/T47D-ELF5-ChIP-Seq(GSE30407)/Homer	ACVAGGAAGT	1e-9	-2.271e+01	0.0000	174.0	5.80%	60.6	2.42%
SpiB(ETS)/OCILY3-SPIB-ChIP-Seq(GSE56857)/Homer	AAAGRGGAAGTG	1e-9	-2.246e+01	0.0000	73.0	2.43%	11.7	0.47%
Pdx1(Homeobox)/Islet-Pdx1-ChIP-Seq(SRA008281)/Homer	YCATYAATCA	1e-9	-2.219e+01	0.0000	221.0	7.37%	88.2	3.53%
Eomes(T-box)/H9-Eomes-ChIP-Seq(GSE26097)/Homer	ATTAACACCT	1e-9	-2.194e+01	0.0000	456.0	15.20%	241.4	9.65%
EWS:ERG-fusion(ETS)/CADO_ES1-EWS:ERG-ChIP-Seq(SRA014231)/Homer	ATTTCCTGTN	1e-8	-2.067e+01	0.0000	157.0	5.23%	54.7	2.19%
PU.1(ETS)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	AGAGGAAGTG	1e-8	-2.038e+01	0.0000	134.0	4.47%	42.5	1.70%
PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	MGGAAGTGAAAC	1e-8	-2.012e+01	0.0000	192.0	6.40%	75.8	3.03%
SeqBias: G/A bias	RRRRRRRRRR	1e-8	-1.992e+01	0.0000	2973.0	99.10%	2424.3	96.92%
E2A(bHLH)/proBcell-E2A-ChIP-Seq(GSE21978)/Homer	DNRCAGCTGY	1e-8	-1.965e+01	0.0000	318.0	10.60%	155.9	6.23%
Ets1-distal(ETS)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	MACAGGAAGT	1e-8	-1.922e+01	0.0000	89.0	2.97%	21.1	0.84%
Bach2(bZIP)/OCILy7-Bach2-ChIP-Seq(GSE44420)/Homer	TGCTGAGTCA	1e-8	-1.887e+01	0.0000	86.0	2.87%	20.1	0.80%
ETS:E-box(ETS,bHLH)/HPC7-Scl-ChIP-Seq(GSE22178)/Homer	AGGAARCAGCTG	1e-8	-1.872e+01	0.0000	46.0	1.53%	4.4	0.18%
EWS:FLI1-fusion(ETS)/SK_N_MC-EWS:FLI1-ChIP-Seq(SRA014231)/Homer	VACAGGAAAT	1e-7	-1.826e+01	0.0000	126.0	4.20%	41.4	1.66%
MYB(HTH)/ERMYB-Myb-ChIPSeq(GSE22095)/Homer	GGCVGTTR	1e-7	-1.783e+01	0.0000	346.0	11.53%	179.7	7.18%
AMYB(HTH)/Testes-AMYB-ChIP-Seq(GSE44588)/Homer	TGGCAGTTGG	1e-7	-1.746e+01	0.0000	310.0	10.33%	156.3	6.25%
Tal1	CATCTG	1e-7	-1.738e+01	0.0000	335.0	11.17%	173.7	6.94%
Otx2(Homeobox)/EpiLC-Otx2-ChIP-Seq(GSE56098)/Homer	NYTAATCCYB	1e-7	-1.660e+01	0.0000	188.0	6.27%	80.7	3.23%
GSC(Homeobox)/FrogEmbryos-GSC-ChIP-Seq(DRA000576)/Homer	RGGATTAR	1e-6	-1.563e+01	0.0000	353.0	11.77%	191.6	7.66%
SeqBias: GA-repeat	GAGAGAGAGA	1e-6	-1.559e+01	0.0000	1195.0	39.83%	829.7	33.17%
ELF1(ETS)/Jurkat-ELF1-ChIP-Seq(SRA014231)/Homer	AVCCGGAAGT	1e-6	-1.523e+01	0.0000	85.0	2.83%	24.3	0.97%
LIN-39(Homeobox)/cElegans.L3-LIN39-ChIP-Seq(modEncode)/Homer	ATGATTRATG	1e-6	-1.460e+01	0.0000	198.0	6.60%	91.8	3.67%
PIF5ox(bHLH)/Arabidopsis-PIF5ox-ChIP-Seq(GSE35062)/Homer	BCACGTGVDN	1e-6	-1.439e+01	0.0000	130.0	4.33%	50.8	2.03%
ETS(ETS)/Promoter/Homer	AACCGGAAGT	1e-6	-1.398e+01	0.0000	59.0	1.97%	13.9	0.56%
GAGA-repeat/SacCer-Promoters/Homer	CTYTCTYTCTCTCTC	1e-5	-1.348e+01	0.0000	772.0	25.73%	509.3	20.36%
Foxo1(Forkhead)/RAW-Foxo1-ChIP-Seq(Fan_et_al.)/Homer	CTGTTTAC	1e-5	-1.344e+01	0.0000	346.0	11.53%	194.0	7.76%
E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer	GGCGGGAARN	1e-5	-1.332e+01	0.0000	53.0	1.77%	11.6	0.46%
ZBTB18(Zf)/HEK293-ZBTB18.GFP-ChIP-Seq(GSE58341)/Homer	AACATCTGGA	1e-5	-1.292e+01	0.0000	125.0	4.17%	50.2	2.01%
NF-E2(bZIP)/K562-NFE2-ChIP-Seq(GSE31477)/Homer	GATGACTCAGCA	1e-5	-1.268e+01	0.0000	25.0	0.83%	1.2	0.05%
E-box/Drosophila-Promoters/Homer	AACAGCTGTTHN	1e-5	-1.255e+01	0.0000	96.0	3.20%	34.8	1.39%
n-Myc(bHLH)/mES-nMyc-ChIP-Seq(GSE11431)/Homer	VRCCACGTGG	1e-5	-1.156e+01	0.0001	71.0	2.37%	22.4	0.90%
SeqBias: A/T bias	WWWWWWWWWW	1e-4	-1.147e+01	0.0001	2137.0	71.23%	1647.9	65.88%
c-Myc(bHLH)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	VVCCACGTGG	1e-4	-1.072e+01	0.0001	51.0	1.70%	14.0	0.56%
Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer	HACTTCCGGY	1e-4	-1.061e+01	0.0001	81.0	2.70%	29.9	1.20%
FOXM1(Forkhead)/MCF7-FOXM1-ChIP-Seq(GSE72977)/Homer	TRTTTACTTW	1e-4	-1.001e+01	0.0002	132.0	4.40%	61.8	2.47%
Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer	NRYTTCCGGY	1e-4	-9.521e+00	0.0004	74.0	2.47%	28.0	1.12%
Smad4(MAD)/ESC-SMAD4-ChIP-Seq(GSE29422)/Homer	VBSYGTCTGG	1e-3	-9.202e+00	0.0005	264.0	8.80%	153.2	6.12%
ZFX(Zf)/mES-Zfx-ChIP-Seq(GSE11431)/Homer	AGGCCTRG	1e-3	-9.132e+00	0.0005	228.0	7.60%	128.1	5.12%
Pho2(bHLH)/Yeast-Pho2-ChIP-Seq(GSE29506)/Homer	CCCACGTGCT	1e-3	-8.563e+00	0.0009	33.0	1.10%	7.6	0.30%
Bach1(bZIP)/K562-Bach1-ChIP-Seq(GSE31477)/Homer	AWWNTGCTGAGTCAT	1e-3	-8.548e+00	0.0009	26.0	0.87%	4.4	0.18%
FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer	NYYTGTTTACHN	1e-3	-8.538e+00	0.0009	81.0	2.70%	33.2	1.33%
Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer	GGGGGGGG	1e-3	-8.438e+00	0.0010	130.0	4.33%	64.8	2.59%
ZNF189(Zf)/HEK293-ZNF189.GFP-ChIP-Seq(GSE58341)/Homer	TGGAACAGMA	1e-3	-8.282e+00	0.0012	106.0	3.53%	49.5	1.98%
Rbpj1(?)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	HTTTCCCASG	1e-3	-8.031e+00	0.0015	167.0	5.57%	90.8	3.63%
STAT1(Stat)/HelaS3-STAT1-ChIP-Seq(GSE12782)/Homer	NATTTCCNGGAAAT	1e-3	-8.026e+00	0.0015	38.0	1.27%	11.0	0.44%
Nr5a2(NR)/Pancreas-LRH1-ChIP-Seq(GSE34295)/Homer	BTCAAGGTCA	1e-3	-7.666e+00	0.0021	94.0	3.13%	43.0	1.72%
Unknown-ESC-element(?)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	CACAGCAGGGGG	1e-3	-7.599e+00	0.0022	114.0	3.80%	56.6	2.26%
ZNF711(Zf)/SHSY5Y-ZNF711-ChIP-Seq(GSE20673)/Homer	AGGCCTAG	1e-3	-7.513e+00	0.0023	273.0	9.10%	167.9	6.71%
Tgif1(Homeobox)/mES-Tgif1-ChIP-Seq(GSE55404)/Homer	YTGWCADY	1e-3	-7.402e+00	0.0026	502.0	16.73%	339.1	13.56%
PIF4(bHLH)/Seedling-PIF4-ChIP-Seq(GSE35315)/Homer	NNBCACGTGN	1e-3	-7.178e+00	0.0032	145.0	4.83%	78.1	3.12%
STAT5(Stat)/mCD4+-Stat5-ChIP-Seq(GSE12346)/Homer	RTTTCTNAGAAA	1e-3	-7.153e+00	0.0032	47.0	1.57%	16.4	0.66%
MafK(bZIP)/C2C12-MafK-ChIP-Seq(GSE36030)/Homer	GCTGASTCAGCA	1e-3	-7.153e+00	0.0032	47.0	1.57%	16.6	0.66%
Smad2(MAD)/ES-SMAD2-ChIP-Seq(GSE29422)/Homer	CTGTCTGG	1e-3	-7.067e+00	0.0035	259.0	8.63%	159.3	6.37%
BMAL1(bHLH)/Liver-Bmal1-ChIP-Seq(GSE39860)/Homer	GNCACGTG	1e-2	-6.888e+00	0.0041	226.0	7.53%	136.1	5.44%
GATA3(Zf),DR8/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATSTNDNNDSAGATAASN	1e-2	-6.867e+00	0.0042	33.0	1.10%	9.2	0.37%
Foxa2(Forkhead)/Liver-Foxa2-ChIP-Seq(GSE25694)/Homer	CYTGTTTACWYW	1e-2	-6.830e+00	0.0043	89.0	2.97%	42.5	1.70%
SeqBias: polyC-repeat	CCCCCCCCCC	1e-2	-6.474e+00	0.0060	2697.0	89.90%	2185.0	87.35%
Meis1(Homeobox)/MastCells-Meis1-ChIP-Seq(GSE48085)/Homer	VGCTGWCAVB	1e-2	-6.358e+00	0.0067	265.0	8.83%	167.7	6.70%
Initiator/Drosophila-Promoters/Homer	NTCAGTYG	1e-2	-6.241e+00	0.0075	350.0	11.67%	231.6	9.26%
Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer	GCCACACCCA	1e-2	-6.180e+00	0.0079	44.0	1.47%	16.7	0.67%
MITF(bHLH)/MastCells-MITF-ChIP-Seq(GSE48085)/Homer	RTCATGTGAC	1e-2	-6.089e+00	0.0085	132.0	4.40%	73.5	2.94%
FOXA1(Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WAAGTAAACA	1e-2	-5.971e+00	0.0095	160.0	5.33%	93.1	3.72%
Egr2(Zf)/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer	NGCGTGGGCGGR	1e-2	-5.959e+00	0.0095	13.0	0.43%	1.8	0.07%
Fox:Ebox(Forkhead,bHLH)/Panc1-Foxa2-ChIP-Seq(GSE47459)/Homer	NNNVCTGWGYAAACASN	1e-2	-5.890e+00	0.0101	109.0	3.63%	58.7	2.35%
SPCH(bHLH)/Seedling-SPCH-ChIP-Seq(GSE57497)/Homer	WNBCACGTGA	1e-2	-5.777e+00	0.0112	104.0	3.47%	55.2	2.21%
Bcl6(Zf)/Liver-Bcl6-ChIP-Seq(GSE31578)/Homer	NNNCTTTCCAGGAAA	1e-2	-5.766e+00	0.0112	136.0	4.53%	77.1	3.08%
SeqBias: CA-repeat	CACACACACA	1e-2	-5.531e+00	0.0141	687.0	22.90%	498.6	19.93%
FOXA1(Forkhead)/MCF7-FOXA1-ChIP-Seq(GSE26831)/Homer	WAAGTAAACA	1e-2	-5.440e+00	0.0153	127.0	4.23%	72.6	2.90%
Sox6(HMG)/Myotubes-Sox6-ChIP-Seq(GSE32627)/Homer	CCATTGTTNY	1e-2	-5.411e+00	0.0156	158.0	5.27%	94.5	3.78%
Nrf2(bZIP)/Lymphoblast-Nrf2-ChIP-Seq(GSE37589)/Homer	HTGCTGAGTCAT	1e-2	-5.348e+00	0.0164	19.0	0.63%	4.7	0.19%
Tgif2(Homeobox)/mES-Tgif2-ChIP-Seq(GSE55404)/Homer	TGTCANYT	1e-2	-5.020e+00	0.0226	538.0	17.93%	385.0	15.39%
HOXA2(Homeobox)/mES-Hoxa2-ChIP-Seq(Donaldson_et_al.)/Homer	GYCATCMATCAT	1e-2	-4.903e+00	0.0252	22.0	0.73%	6.7	0.27%
Zfp809(Zf)/ES-Zfp809-ChIP-Seq(GSE70799)/Homer	GGGGCTYGKCTGGGA	1e-1	-4.590e+00	0.0342	32.0	1.07%	12.6	0.50%
ABF1/SacCer-Promoters/Homer	CGTRNAAARTGA	1e-1	-4.534e+00	0.0358	15.0	0.50%	3.4	0.13%
Max(bHLH)/K562-Max-ChIP-Seq(GSE31477)/Homer	RCCACGTGGYYN	1e-1	-4.492e+00	0.0370	65.0	2.17%	33.4	1.33%
Pitx1(Homeobox)/Chicken-Pitx1-ChIP-Seq(GSE38910)/Homer	TAATCCCN	1e-1	-4.295e+00	0.0447	693.0	23.10%	515.4	20.60%
LHY(Myb)/Seedling-LHY-ChIP-Seq(GSE52175)/Homer	ADAAATATCT	1e-1	-4.280e+00	0.0450	202.0	6.73%	132.7	5.31%
E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer	GGCGGGAAAH	1e-1	-4.188e+00	0.0490	29.0	0.97%	11.5	0.46%
SPDEF(ETS)/VCaP-SPDEF-ChIP-Seq(SRA014231)/Homer	ASWTCCTGBT	1e-1	-4.111e+00	0.0524	126.0	4.20%	77.1	3.08%
EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer	NWGGGTGTGGCY	1e-1	-4.009e+00	0.0576	25.0	0.83%	9.1	0.36%
Brachyury(T-box)/Mesoendoderm-Brachyury-ChIP-exo(GSE54963)/Homer	ANTTMRCASBNNNGTGYKAAN	1e-1	-3.942e+00	0.0610	38.0	1.27%	17.3	0.69%
HIF-1a(bHLH)/MCF7-HIF1a-ChIP-Seq(GSE28352)/Homer	TACGTGCV	1e-1	-3.926e+00	0.0616	23.0	0.77%	8.4	0.34%
PAX5(Paired,Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GCAGCCAAGCRTGACH	1e-1	-3.901e+00	0.0626	41.0	1.37%	19.4	0.78%
Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer	SCCTAGCAACAG	1e-1	-3.789e+00	0.0695	31.0	1.03%	13.3	0.53%
GRHL2(CP2)/HBE-GRHL2-ChIP-Seq(GSE46194)/Homer	AAACYKGTTWDACMRGTTTB	1e-1	-3.733e+00	0.0729	48.0	1.60%	24.8	0.99%
EBF1(EBF)/Near-E2A-ChIP-Seq(GSE21512)/Homer	GTCCCCWGGGGA	1e-1	-3.679e+00	0.0764	101.0	3.37%	61.9	2.48%
Esrrb(NR)/mES-Esrrb-ChIP-Seq(GSE11431)/Homer	KTGACCTTGA	1e-1	-3.670e+00	0.0764	77.0	2.57%	44.6	1.78%
MafA(bZIP)/Islet-MafA-ChIP-Seq(GSE30298)/Homer	TGCTGACTCA	1e-1	-3.668e+00	0.0764	138.0	4.60%	88.6	3.54%
KLF5(Zf)/LoVo-KLF5-ChIP-Seq(GSE49402)/Homer	DGGGYGKGGC	1e-1	-3.609e+00	0.0800	113.0	3.77%	70.9	2.83%
RBPJ:Ebox(?,bHLH)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	GGGRAARRGRMCAGMTG	1e-1	-3.395e+00	0.0983	45.0	1.50%	23.5	0.94%
NFkB-p65-Rel(RHD)/ThioMac-LPS-Expression(GSE23622)/Homer	GGAAATTCCC	1e-1	-3.239e+00	0.1141	10.0	0.33%	2.2	0.09%
STAT4(Stat)/CD4-Stat4-ChIP-Seq(GSE22104)/Homer	NYTTCCWGGAAR	1e-1	-3.217e+00	0.1158	113.0	3.77%	72.1	2.88%
NFAT:AP1(RHD,bZIP)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	SARTGGAAAAWRTGAGTCAB	1e-1	-3.178e+00	0.1194	24.0	0.80%	11.0	0.44%
Nr5a2(NR)/mES-Nr5a2-ChIP-Seq(GSE19019)/Homer	BTCAAGGTCA	1e-1	-3.150e+00	0.1220	57.0	1.90%	33.0	1.32%
REB1/SacCer-Promoters/Homer	KCCGGGTAAYRR	1e-1	-3.076e+00	0.1304	17.0	0.57%	6.9	0.27%
MafF(bZIP)/HepG2-MafF-ChIP-Seq(GSE31477)/Homer	HWWGTCAGCAWWTTT	1e-1	-3.062e+00	0.1313	42.0	1.40%	22.7	0.91%
ZNF382(Zf)/HEK293-ZNF382.GFP-ChIP-Seq(GSE58341)/Homer	GNCTGTASTRNTGBCTCHTT	1e-1	-3.033e+00	0.1341	5.0	0.17%	0.3	0.01%
STAT6(Stat)/CD4-Stat6-ChIP-Seq(GSE22104)/Homer	ABTTCYYRRGAA	1e-1	-3.018e+00	0.1352	52.0	1.73%	29.6	1.18%
ZNF264(Zf)/HEK293-ZNF264.GFP-ChIP-Seq(GSE58341)/Homer	RGGGCACTAACY	1e-1	-2.980e+00	0.1394	66.0	2.20%	39.8	1.59%
Sox10(HMG)/SciaticNerve-Sox3-ChIP-Seq(GSE35132)/Homer	CCWTTGTYYB	1e-1	-2.962e+00	0.1410	180.0	6.00%	124.3	4.97%
Usf2(bHLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer	GTCACGTGGT	1e-1	-2.940e+00	0.1430	34.0	1.13%	17.3	0.69%
PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer	ADGGYAGYAGCATCT	1e-1	-2.915e+00	0.1456	60.0	2.00%	35.1	1.40%
Sox3(HMG)/NPC-Sox3-ChIP-Seq(GSE33059)/Homer	CCWTTGTY	1e-1	-2.875e+00	0.1505	187.0	6.23%	130.8	5.23%
Pax8(Paired,Homeobox)/Thyroid-Pax8-ChIP-Seq(GSE26938)/Homer	GTCATGCHTGRCTGS	1e-1	-2.834e+00	0.1559	38.0	1.27%	20.5	0.82%
p53(p53)/Saos-p53-ChIP-Seq(GSE15780)/Homer	RRCATGYCYRGRCATGYYYN	1e-1	-2.834e+00	0.1559	11.0	0.37%	3.3	0.13%
p53(p53)/Saos-p53-ChIP-Seq/Homer	RRCATGYCYRGRCATGYYYN	1e-1	-2.834e+00	0.1559	11.0	0.37%	3.3	0.13%
c-Myc(bHLH)/LNCAP-cMyc-ChIP-Seq(Unpublished)/Homer	VCCACGTG	1e-1	-2.831e+00	0.1559	29.0	0.97%	14.2	0.57%
USF1(bHLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer	SGTCACGTGR	1e-1	-2.825e+00	0.1559	35.0	1.17%	18.8	0.75%
Unknown3/Drosophila-Promoters/Homer	ACVAKCTGGCAGCGC	1e-1	-2.793e+00	0.1569	9.0	0.30%	2.8	0.11%
Zic(Zf)/Cerebellum-ZIC1.2-ChIP-Seq(GSE60731)/Homer	CCTGCTGAGH	1e-1	-2.729e+00	0.1662	120.0	4.00%	80.3	3.21%
CArG(MADS)/PUER-Srf-ChIP-Seq(Sullivan_et_al.)/Homer	CCATATATGGNM	1e-1	-2.664e+00	0.1763	43.0	1.43%	24.7	0.99%
Stat3+il21(Stat)/CD4-Stat3-ChIP-Seq(GSE19198)/Homer	SVYTTCCNGGAARB	1e-1	-2.663e+00	0.1763	71.0	2.37%	44.9	1.79%
PU.1:IRF8(ETS:IRF)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	GGAAGTGAAAST	1e-1	-2.470e+00	0.2112	23.0	0.77%	11.0	0.44%
CTCF-SatelliteElement(Zf?)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	TGCAGTTCCMVNWRTGGCCA	1e-1	-2.426e+00	0.2178	4.0	0.13%	0.6	0.02%
ZNF669(Zf)/HEK293-ZNF669.GFP-ChIP-Seq(GSE58341)/Homer	GARTGGTCATCGCCC	1e-1	-2.426e+00	0.2178	4.0	0.13%	0.9	0.03%
ERE(NR),IR3/MCF7-ERa-ChIP-Seq(Unpublished)/Homer	VAGGTCACNSTGACC	1e-1	-2.343e+00	0.2353	24.0	0.80%	13.0	0.52%
CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	AYAGTGCCMYCTRGTGGCCA	1e-1	-2.324e+00	0.2383	6.0	0.20%	1.9	0.08%
E2F1(E2F)/Hela-E2F1-ChIP-Seq(GSE22478)/Homer	CWGGCGGGAA	1e0	-2.301e+00	0.2423	13.0	0.43%	5.7	0.23%
ZNF317(Zf)/HEK293-ZNF317.GFP-ChIP-Seq(GSE58341)/Homer	GTCWGCTGTYYCTCT	1e0	-2.218e+00	0.2616	22.0	0.73%	11.9	0.48%
Unknown2/Drosophila-Promoters/Homer	CATCMCTA	1e0	-2.216e+00	0.2616	166.0	5.53%	119.5	4.78%
Sox4(HMG)/proB-Sox4-ChIP-Seq(GSE50066)/Homer	YCTTTGTTCC	1e0	-2.183e+00	0.2675	93.0	3.10%	63.7	2.54%
PPARE(NR),DR1/3T3L1-Pparg-ChIP-Seq(GSE13511)/Homer	TGACCTTTGCCCCA	1e0	-2.178e+00	0.2675	89.0	2.97%	60.0	2.40%
STAT6(Stat)/Macrophage-Stat6-ChIP-Seq(GSE38377)/Homer	TTCCKNAGAA	1e0	-2.161e+00	0.2702	50.0	1.67%	31.7	1.27%
ETS:RUNX(ETS,Runt)/Jurkat-RUNX1-ChIP-Seq(GSE17954)/Homer	RCAGGATGTGGT	1e0	-1.977e+00	0.3230	21.0	0.70%	11.5	0.46%
bHLHE40(bHLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer	KCACGTGMCN	1e0	-1.960e+00	0.3263	18.0	0.60%	9.0	0.36%
Stat3(Stat)/mES-Stat3-ChIP-Seq(GSE11431)/Homer	CTTCCGGGAA	1e0	-1.948e+00	0.3284	50.0	1.67%	32.7	1.31%
Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer	TGCGTGGGYG	1e0	-1.847e+00	0.3611	52.0	1.73%	34.4	1.37%
Pho4(bHLH)/Yeast-Pho4-ChIP-Seq(GSE29506)/Homer	AAGCACGTGBGD	1e0	-1.820e+00	0.3688	13.0	0.43%	6.6	0.26%
E2F(E2F)/Hela-CellCycle-Expression/Homer	TTSGCGCGAAAA	1e0	-1.819e+00	0.3688	3.0	0.10%	0.6	0.03%
Smad3(MAD)/NPC-Smad3-ChIP-Seq(GSE36673)/Homer	TWGTCTGV	1e0	-1.721e+00	0.4025	446.0	14.87%	349.5	13.97%
CLOCK(bHLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer	GHCACGTG	1e0	-1.706e+00	0.4063	51.0	1.70%	34.5	1.38%
PAX5(Paired,Homeobox),condensed/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GTCACGCTCSCTGM	1e0	-1.677e+00	0.4159	11.0	0.37%	5.7	0.23%
FoxL2(Forkhead)/Ovary-FoxL2-ChIP-Seq(GSE60858)/Homer	WWTRTAAACAVG	1e0	-1.612e+00	0.4410	121.0	4.03%	89.3	3.57%
NPAS2(bHLH)/Liver-NPAS2-ChIP-Seq(GSE39860)/Homer	KCCACGTGAC	1e0	-1.560e+00	0.4620	109.0	3.63%	80.4	3.21%
Nur77(NR)/K562-NR4A1-ChIP-Seq(GSE31363)/Homer	TGACCTTTNCNT	1e0	-1.543e+00	0.4671	12.0	0.40%	6.2	0.25%
NFkB-p65(RHD)/GM12787-p65-ChIP-Seq(GSE19485)/Homer	WGGGGATTTCCC	1e0	-1.501e+00	0.4844	39.0	1.30%	26.3	1.05%
KLF10(Zf)/HEK293-KLF10.GFP-ChIP-Seq(GSE58341)/Homer	GGGGGTGTGTCC	1e0	-1.493e+00	0.4844	31.0	1.03%	20.4	0.81%
E-box/Arabidopsis-Promoters/Homer	GCCACGTG	1e0	-1.493e+00	0.4844	31.0	1.03%	20.0	0.80%
PR(NR)/T47D-PR-ChIP-Seq(GSE31130)/Homer	VAGRACAKNCTGTBC	1e0	-1.488e+00	0.4844	248.0	8.27%	192.2	7.68%
Oct2(POU,Homeobox)/Bcell-Oct2-ChIP-Seq(GSE21512)/Homer	ATATGCAAAT	1e0	-1.453e+00	0.4975	20.0	0.67%	12.9	0.52%
GATA(Zf),IR3/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NNNNNBAGATAWYATCTVHN	1e0	-1.441e+00	0.5005	32.0	1.07%	21.9	0.87%
DMRT1(DM)/Testis-DMRT1-ChIP-Seq(GSE64892)/Homer	TWGHWACAWTGTWDC	1e0	-1.398e+00	0.5198	17.0	0.57%	10.8	0.43%
GFY(?)/Promoter/Homer	ACTACAATTCCC	1e0	-1.389e+00	0.5213	4.0	0.13%	1.5	0.06%
Tbx20(T-box)/Heart-Tbx20-ChIP-Seq(GSE29636)/Homer	GGTGYTGACAGS	1e0	-1.385e+00	0.5213	29.0	0.97%	19.5	0.78%
RBFox2(?)/Heart-RBFox2-CLIP-Seq(GSE57926)/Homer	TGCATGCA	1e0	-1.345e+00	0.5390	248.0	8.27%	195.0	7.79%
Rfx1(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	KGTTGCCATGGCAA	1e0	-1.342e+00	0.5390	14.0	0.47%	8.6	0.35%
Klf9(Zf)/GBM-Klf9-ChIP-Seq(GSE62211)/Homer	GCCACRCCCACY	1e0	-1.322e+00	0.5460	22.0	0.73%	14.2	0.57%
PHA-4(Forkhead)/cElegans-Embryos-PHA4-ChIP-Seq(modEncode)/Homer	KTGTTTGC	1e0	-1.271e+00	0.5713	407.0	13.57%	325.6	13.02%
ZNF467(Zf)/HEK293-ZNF467.GFP-ChIP-Seq(GSE58341)/Homer	TGGGGAAGGGCM	1e0	-1.268e+00	0.5713	78.0	2.60%	58.6	2.34%
Unknown1(NR/Ini-like)/Drosophila-Promoters/Homer	MYGGTCACACTG	1e0	-1.260e+00	0.5719	19.0	0.63%	12.7	0.51%
HIF2a(bHLH)/785_O-HIF2a-ChIP-Seq(GSE34871)/Homer	GCACGTACCC	1e0	-1.245e+00	0.5771	32.0	1.07%	23.0	0.92%
ZNF41(Zf)/HEK293-ZNF41.GFP-ChIP-Seq(GSE58341)/Homer	CCTCATGGTGYCYTWYTCCCTTGTG	1e0	-1.213e+00	0.5902	2.0	0.07%	0.3	0.01%
YY1(Zf)/Promoter/Homer	CAAGATGGCGGC	1e0	-1.213e+00	0.5902	2.0	0.07%	0.3	0.01%
E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer	VDTTTCCCGCCA	1e0	-1.180e+00	0.6007	5.0	0.17%	2.6	0.10%
Unknown1/Arabidopsis-Promoters/Homer	RGGGTAWWWTHGTAA	1e0	-1.180e+00	0.6007	5.0	0.17%	2.8	0.11%
NF1:FOXA1(CTF,Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WNTGTTTRYTTTGGCA	1e0	-1.180e+00	0.6007	5.0	0.17%	2.4	0.10%
AR-halfsite(NR)/LNCaP-AR-ChIP-Seq(GSE27824)/Homer	CCAGGAACAG	1e0	-1.137e+00	0.6237	524.0	17.47%	424.5	16.97%
ZNF165(Zf)/WHIM12-ZNF165-ChIP-Seq(GSE65937)/Homer	AAGGKGRCGCAGGCA	1e0	-1.123e+00	0.6294	13.0	0.43%	8.8	0.35%
ZNF143|STAF(Zf)/CUTLL-ZNF143-ChIP-Seq(GSE29600)/Homer	ATTTCCCAGVAKSCY	1e0	-1.101e+00	0.6370	22.0	0.73%	15.5	0.62%
Pbx3(Homeobox)/GM12878-PBX3-ChIP-Seq(GSE32465)/Homer	SCTGTCAMTCAN	1e0	-1.101e+00	0.6370	22.0	0.73%	15.3	0.61%
Brn2(POU,Homeobox)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATATTC	1e0	-1.048e+00	0.6651	6.0	0.20%	3.4	0.13%
X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	GGTTGCCATGGCAA	1e0	-1.048e+00	0.6651	6.0	0.20%	3.1	0.12%
p63(p53)/Keratinocyte-p63-ChIP-Seq(GSE17611)/Homer	NNDRCATGYCYNRRCATGYH	1e0	-1.007e+00	0.6897	34.0	1.13%	25.8	1.03%
ZNF675(Zf)/HEK293-ZNF675.GFP-ChIP-Seq(GSE58341)/Homer	ARGAGGMCAAAATGW	1e0	-1.005e+00	0.6897	15.0	0.50%	10.4	0.42%
PAX3:FKHR-fusion(Paired,Homeobox)/Rh4-PAX3:FKHR-ChIP-Seq(GSE19063)/Homer	ACCRTGACTAATTNN	1e0	-1.005e+00	0.6897	15.0	0.50%	10.4	0.42%
ISRE(IRF)/ThioMac-LPS-Expression(GSE23622)/Homer	AGTTTCASTTTC	1e0	-9.588e-01	0.7133	3.0	0.10%	1.1	0.04%
DMRT6(DM)/Testis-DMRT6-ChIP-Seq(GSE60440)/Homer	YDGHTACAWTGTADC	1e0	-9.563e-01	0.7133	16.0	0.53%	11.0	0.44%
BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer	CNNBRGCGCCCCCTGSTGGC	1e0	-9.548e-01	0.7133	7.0	0.23%	4.2	0.17%
ZNF692(Zf)/HEK293-ZNF692.GFP-ChIP-Seq(GSE58341)/Homer	GTGGGCCCCA	1e0	-9.548e-01	0.7133	7.0	0.23%	4.4	0.18%
Sox15(HMG)/CPA-Sox15-ChIP-Seq(GSE62909)/Homer	RAACAATGGN	1e0	-9.248e-01	0.7240	96.0	3.20%	76.6	3.06%
CRE(bZIP)/Promoter/Homer	CSGTGACGTCAC	1e0	-9.219e-01	0.7240	12.0	0.40%	8.2	0.33%
TR4(NR),DR1/Hela-TR4-ChIP-Seq(GSE24685)/Homer	GAGGTCAAAGGTCA	1e0	-9.219e-01	0.7240	12.0	0.40%	8.0	0.32%
Hoxb4(Homeobox)/ES-Hoxb4-ChIP-Seq(GSE34014)/Homer	TGATTRATGGCY	1e0	-9.139e-01	0.7240	27.0	0.90%	20.0	0.80%
RXR(NR),DR1/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer	TAGGGCAAAGGTCA	1e0	-8.809e-01	0.7425	99.0	3.30%	79.4	3.17%
Cbf1(bHLH)/Yeast-Cbf1-ChIP-Seq(GSE29506)/Homer	TCACGTGAYH	1e0	-8.784e-01	0.7425	23.0	0.77%	17.6	0.70%
NFAT(RHD)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	ATTTTCCATT	1e0	-8.588e-01	0.7521	56.0	1.87%	44.9	1.80%
NRF(NRF)/Promoter/Homer	STGCGCATGCGC	1e0	-8.391e-01	0.7533	4.0	0.13%	2.3	0.09%
p53(p53)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	ACATGCCCGGGCAT	1e0	-8.391e-01	0.7533	4.0	0.13%	2.1	0.08%
ZNF136(Zf)/HEK293-ZNF136.GFP-ChIP-Seq(GSE58341)/Homer	YTKGATAHAGTATTCTWGGTNGGCA	1e0	-8.391e-01	0.7533	4.0	0.13%	2.0	0.08%
EBNA1(EBV-virus)/Raji-EBNA1-ChIP-Seq(GSE30709)/Homer	GGYAGCAYDTGCTDCCCNNN	1e0	-8.391e-01	0.7533	4.0	0.13%	2.3	0.09%
HNF4a(NR),DR1/HepG2-HNF4a-ChIP-Seq(GSE25021)/Homer	CARRGKBCAAAGTYCA	1e0	-8.053e-01	0.7757	31.0	1.03%	24.8	0.99%
Nkx6.1(Homeobox)/Islet-Nkx6.1-ChIP-Seq(GSE40975)/Homer	GKTAATGR	1e0	-7.876e-01	0.7860	311.0	10.37%	256.0	10.24%
JunD(bZIP)/K562-JunD-ChIP-Seq/Homer	ATGACGTCATCN	1e0	-7.634e-01	0.7946	5.0	0.17%	3.8	0.15%
GEI-11(Myb?)/cElegans-L4-GEI11-ChIP-Seq(modEncode)/Homer	CCGACAYYTYACGGG	1e0	-7.634e-01	0.7946	5.0	0.17%	3.2	0.13%
E-box(bHLH)/Promoter/Homer	SSGGTCACGTGA	1e0	-7.634e-01	0.7946	5.0	0.17%	4.0	0.16%
SeqBias: GCW-triplet	GCWGCWGCWGCW	1e0	-7.380e-01	0.8115	2925.0	97.50%	2437.9	97.46%
Pknox1(Homeobox)/ES-Prep1-ChIP-Seq(GSE63282)/Homer	SCTGTCAVTCAV	1e0	-7.301e-01	0.8143	17.0	0.57%	13.6	0.54%
GATA(Zf),IR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NAGATWNBNATCTNN	1e0	-7.251e-01	0.8149	23.0	0.77%	19.0	0.76%
GLI3(Zf)/Limb-GLI3-ChIP-Chip(GSE11077)/Homer	CGTGGGTGGTCC	1e0	-6.660e-01	0.8607	7.0	0.23%	5.7	0.23%
c-Jun-CRE(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	ATGACGTCATCY	1e0	-6.594e-01	0.8627	26.0	0.87%	21.8	0.87%
ZNF322(Zf)/HEK293-ZNF322.GFP-ChIP-Seq(GSE58341)/Homer	GAGCCTGGTACTGWGCCTGR	1e0	-6.544e-01	0.8633	20.0	0.67%	16.4	0.65%
NFkB-p50,p52(RHD)/Monocyte-p50-ChIP-Chip(Schreiber_et_al.)/Homer	GGGGGAATCCCC	1e0	-6.311e-01	0.8799	8.0	0.27%	6.5	0.26%
bZIP:IRF(bZIP,IRF)/Th17-BatF-ChIP-Seq(GSE39756)/Homer	NAGTTTCABTHTGACTNW	1e0	-6.286e-01	0.8799	34.0	1.13%	28.6	1.14%
ZBTB33(Zf)/GM12878-ZBTB33-ChIP-Seq(GSE32465)/Homer	GGVTCTCGCGAGAAC	1e0	-6.063e-01	0.8799	1.0	0.03%	0.0	0.00%
REST-NRSF(Zf)/Jurkat-NRSF-ChIP-Seq/Homer	GGMGCTGTCCATGGTGCTGA	1e0	-6.063e-01	0.8799	1.0	0.03%	0.0	0.00%
NRF1(NRF)/MCF7-NRF1-ChIP-Seq(Unpublished)/Homer	CTGCGCATGCGC	1e0	-6.063e-01	0.8799	1.0	0.03%	0.8	0.03%
Pax7(Paired,Homeobox),long/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCHGATTAC	1e0	-6.063e-01	0.8799	1.0	0.03%	0.7	0.03%
ZFP3(Zf)/HEK293-ZFP3.GFP-ChIP-Seq(GSE58341)/Homer	GGGTTTTGAAGGATGARTAGGAGTT	1e0	-6.063e-01	0.8799	1.0	0.03%	0.0	0.00%
DREF/Drosophila-Promoters/Homer	AVYTATCGATAD	1e0	-6.063e-01	0.8799	1.0	0.03%	0.0	0.00%
FOXA1:AR(Forkhead,NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	AGTAAACAAAAAAGAACAND	1e0	-6.063e-01	0.8799	1.0	0.03%	0.4	0.02%
Tcfcp2l1(CP2)/mES-Tcfcp2l1-ChIP-Seq(GSE11431)/Homer	NRAACCRGTTYRAACCRGYT	1e0	-5.996e-01	0.8799	16.0	0.53%	13.8	0.55%
IRF2(IRF)/Erythroblas-IRF2-ChIP-Seq(GSE36985)/Homer	GAAASYGAAASY	1e0	-5.368e-01	0.9272	3.0	0.10%	2.4	0.10%
Lhx3(Homeobox)/Neuron-Lhx3-ChIP-Seq(GSE31456)/Homer	ADBTAATTAR	1e0	-5.105e-01	0.9481	175.0	5.83%	149.1	5.96%
Phox2a(Homeobox)/Neuron-Phox2a-ChIP-Seq(GSE31456)/Homer	YTAATYNRATTA	1e0	-4.973e-01	0.9567	22.0	0.73%	19.5	0.78%
TCFL2(HMG)/K562-TCF7L2-ChIP-Seq(GSE29196)/Homer	ACWTCAAAGG	1e0	-4.935e-01	0.9567	5.0	0.17%	5.0	0.20%
GRE(NR),IR3/RAW264.7-GRE-ChIP-Seq(Unpublished)/Homer	VAGRACAKWCTGTYC	1e0	-4.830e-01	0.9627	15.0	0.50%	13.2	0.53%
Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer	GTTGCCATGGCAACM	1e0	-4.761e-01	0.9655	6.0	0.20%	5.2	0.21%
PRDM14(Zf)/H1-PRDM14-ChIP-Seq(GSE22767)/Homer	RGGTCTCTAACY	1e0	-4.480e-01	0.9890	26.0	0.87%	23.1	0.93%
IRF1(IRF)/PBMC-IRF1-ChIP-Seq(GSE43036)/Homer	GAAAGTGAAAGT	1e0	-4.463e-01	0.9890	8.0	0.27%	7.2	0.29%
IBL1(bHLH)/Seedling-IBL1-ChIP-Seq(GSE51120)/Homer	CACGTGCC	1e0	-4.346e-01	0.9944	128.0	4.27%	111.6	4.46%
Oct4:Sox17(POU,Homeobox,HMG)/F9-Sox17-ChIP-Seq(GSE44553)/Homer	CCATTGTATGCAAAT	1e0	-4.333e-01	0.9944	9.0	0.30%	8.5	0.34%
Sox2(HMG)/mES-Sox2-ChIP-Seq(GSE11431)/Homer	BCCATTGTTC	1e0	-3.994e-01	1.0000	70.0	2.33%	62.3	2.49%
Atf4(bZIP)/MEF-Atf4-ChIP-Seq(GSE35681)/Homer	MTGATGCAAT	1e0	-3.910e-01	1.0000	23.0	0.77%	21.2	0.85%
SUT1?/SacCer-Promoters/Homer	CCCCGCGC	1e0	-3.828e-01	1.0000	714.0	23.80%	608.8	24.34%
ARE(NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	RGRACASNSTGTYCYB	1e0	-3.631e-01	1.0000	16.0	0.53%	15.1	0.60%
Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo_et_al.)/Homer	TBGCACGCAA	1e0	-3.559e-01	1.0000	45.0	1.50%	41.2	1.65%
Oct4(POU,Homeobox)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAW	1e0	-3.516e-01	1.0000	37.0	1.23%	34.3	1.37%
TOD6?/SacCer-Promoters/Homer	GCGATGAGMT	1e0	-3.400e-01	1.0000	19.0	0.63%	18.2	0.73%
Sox9(HMG)/Limb-SOX9-ChIP-Seq(GSE73225)/Homer	AGGVNCCTTTGT	1e0	-3.277e-01	1.0000	82.0	2.73%	74.5	2.98%
Dorsal(RHD)/Embryo-dl-ChIP-Seq(GSE65441)/Homer	GGGAAAAMCCCG	1e0	-3.120e-01	1.0000	8.0	0.27%	8.6	0.34%
RORgt(NR)/EL4-RORgt.Flag-ChIP-Seq(GSE56019)/Homer	AAYTAGGTCA	1e0	-3.085e-01	1.0000	9.0	0.30%	9.7	0.39%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	AGGTCAAGGTCA	1e0	-3.085e-01	1.0000	9.0	0.30%	9.8	0.39%
FHY3(FAR1)/Arabidopsis-FHY3-ChIP-Seq(GSE30711)/Homer	HHCACGCGCBTN	1e0	-3.085e-01	1.0000	9.0	0.30%	9.6	0.38%
Six1(Homeobox)/Myoblast-Six1-ChIP-Chip(GSE20150)/Homer	GKVTCADRTTWC	1e0	-2.959e-01	1.0000	26.0	0.87%	25.4	1.02%
SeqBias: CG bias	SSSSSSSSSS	1e0	-2.771e-01	1.0000	1229.0	40.97%	1047.8	41.89%
NF1(CTF)/LNCAP-NF1-ChIP-Seq(Unpublished)/Homer	CYTGGCABNSTGCCAR	1e0	-2.750e-01	1.0000	30.0	1.00%	29.8	1.19%
PCF/Arabidopsis-Promoters/Homer	NNWWWTGGGCYTDDN	1e0	-2.655e-01	1.0000	19.0	0.63%	20.0	0.80%
CEBP:AP1(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	DRTGTTGCAA	1e0	-2.636e-01	1.0000	71.0	2.37%	66.9	2.68%
CEBP(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	ATTGCGCAAC	1e0	-2.599e-01	1.0000	63.0	2.10%	60.0	2.40%
TEAD(TEA)/Fibroblast-PU.1-ChIP-Seq(Unpublished)/Homer	YCWGGAATGY	1e0	-2.510e-01	1.0000	46.0	1.53%	44.7	1.79%
KLF14(Zf)/HEK293-KLF14.GFP-ChIP-Seq(GSE58341)/Homer	RGKGGGCGKGGC	1e0	-2.465e-01	1.0000	133.0	4.43%	121.2	4.85%
Tbox:Smad(T-box,MAD)/ESCd5-Smad2_3-ChIP-Seq(GSE29422)/Homer	AGGTGHCAGACA	1e0	-2.453e-01	1.0000	24.0	0.80%	24.8	0.99%
GFY-Staf(?,Zf)/Promoter/Homer	RACTACAATTCCCAGAAKGC	1e0	-2.315e-01	1.0000	1.0	0.03%	1.6	0.07%
Pit1+1bp(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGCATAATTCA	1e0	-2.146e-01	1.0000	14.0	0.47%	15.8	0.63%
AARE(HLH)/mES-cMyc-ChIP-Seq/Homer	GATTGCATCA	1e0	-2.124e-01	1.0000	7.0	0.23%	8.0	0.32%
PAX6(Paired,Homeobox)/Forebrain-Pax6-ChIP-Seq(GSE66961)/Homer	NGTGTTCAVTSAAGCGKAAA	1e0	-2.007e-01	1.0000	5.0	0.17%	6.2	0.25%
Atf2(bZIP)/3T3L1-Atf2-ChIP-Seq(GSE56872)/Homer	NRRTGACGTCAT	1e0	-1.941e-01	1.0000	24.0	0.80%	25.9	1.03%
Znf263(Zf)/K562-Znf263-ChIP-Seq(GSE31477)/Homer	CVGTSCTCCC	1e0	-1.795e-01	1.0000	205.0	6.83%	187.5	7.50%
Hoxc9(Homeobox)/Ainv15-Hoxc9-ChIP-Seq(GSE21812)/Homer	GGCCATAAATCA	1e0	-1.766e-01	1.0000	46.0	1.53%	46.1	1.84%
Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq(GSE22178)/Homer	MAATCACTGC	1e0	-1.663e-01	1.0000	73.0	2.43%	71.8	2.87%
Chop(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	ATTGCATCAT	1e0	-1.587e-01	1.0000	15.0	0.50%	17.8	0.71%
IRF4(IRF)/GM12878-IRF4-ChIP-Seq(GSE32465)/Homer	ACTGAAACCA	1e0	-1.547e-01	1.0000	42.0	1.40%	43.5	1.74%
SeqBias: CG-repeat	CGCGCGCGCG	1e0	-1.372e-01	1.0000	35.0	1.17%	37.7	1.51%
NF1-halfsite(CTF)/LNCaP-NF1-ChIP-Seq(Unpublished)/Homer	YTGCCAAG	1e0	-1.325e-01	1.0000	190.0	6.33%	177.3	7.09%
Reverb(NR),DR2/RAW-Reverba.biotin-ChIP-Seq(GSE45914)/Homer	GTRGGTCASTGGGTCA	1e0	-1.254e-01	1.0000	5.0	0.17%	7.6	0.31%
AP-2gamma(AP2)/MCF7-TFAP2C-ChIP-Seq(GSE21234)/Homer	SCCTSAGGSCAW	1e0	-1.251e-01	1.0000	83.0	2.77%	82.2	3.29%
Tbet(T-box)/CD8-Tbet-ChIP-Seq(GSE33802)/Homer	AGGTGTGAAM	1e0	-1.222e-01	1.0000	116.0	3.87%	112.0	4.48%
Brn1(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	TATGCWAATBAV	1e0	-1.193e-01	1.0000	21.0	0.70%	24.2	0.97%
Tcf3(HMG)/mES-Tcf3-ChIP-Seq(GSE11724)/Homer	ASWTCAAAGG	1e0	-1.189e-01	1.0000	18.0	0.60%	21.9	0.88%
Srebp2(bHLH)/HepG2-Srebp2-ChIP-Seq(GSE31477)/Homer	CGGTCACSCCAC	1e0	-1.189e-01	1.0000	18.0	0.60%	21.0	0.84%
EBF(EBF)/proBcell-EBF-ChIP-Seq(GSE21978)/Homer	DGTCCCYRGGGA	1e0	-1.185e-01	1.0000	17.0	0.57%	20.5	0.82%
Oct6(POU,Homeobox)/NPC-Oct6-ChIP-Seq(GSE35496)/Homer	WATGCAAATGAG	1e0	-1.175e-01	1.0000	26.0	0.87%	29.6	1.18%
Srebp1a(bHLH)/HepG2-Srebp1a-ChIP-Seq(GSE31477)/Homer	RTCACSCCAY	1e0	-1.148e-01	1.0000	30.0	1.00%	34.0	1.36%
Mouse_Recombination_Hotspot(Zf)/Testis-DMC1-ChIP-Seq(GSE24438)/Homer	ACTYKNATTCGTGNTACTTC	1e0	-1.135e-01	1.0000	4.0	0.13%	6.9	0.28%
PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer	GSCTGTCACTCA	1e0	-1.135e-01	1.0000	4.0	0.13%	6.8	0.27%
Erra(NR)/HepG2-Erra-ChIP-Seq(GSE31477)/Homer	CAAAGGTCAG	1e0	-1.084e-01	1.0000	215.0	7.17%	201.4	8.05%
HRE(HSF)/Striatum-HSF1-ChIP-Seq(GSE38000)/Homer	TTCTAGAABNTTCTA	1e0	-1.065e-01	1.0000	10.0	0.33%	13.3	0.53%
ZNF416(Zf)/HEK293-ZNF416.GFP-ChIP-Seq(GSE58341)/Homer	WDNCTGGGCA	1e0	-9.922e-02	1.0000	142.0	4.73%	137.6	5.50%
RFX(HTH)/K562-RFX3-ChIP-Seq(SRA012198)/Homer	CGGTTGCCATGGCAAC	1e0	-9.731e-02	1.0000	3.0	0.10%	5.5	0.22%
HIF-1b(HLH)/T47D-HIF1b-ChIP-Seq(GSE59937)/Homer	RTACGTGC	1e0	-9.011e-02	1.0000	85.0	2.83%	86.3	3.45%
GAGA-repeat/Arabidopsis-Promoters/Homer	CTCTCTCTCY	1e0	-8.039e-02	1.0000	178.0	5.93%	171.8	6.87%
VDR(NR),DR3/GM10855-VDR+vitD-ChIP-Seq(GSE22484)/Homer	ARAGGTCANWGAGTTCANNN	1e0	-7.900e-02	1.0000	12.0	0.40%	16.2	0.65%
Unknown4/Arabidopsis-Promoters/Homer	CKTCKTCTTY	1e0	-7.528e-02	1.0000	87.0	2.90%	89.1	3.56%
SFP1/SacCer-Promoters/Homer	DDAAAAATTTTY	1e0	-7.503e-02	1.0000	2.0	0.07%	4.8	0.19%
TEAD4(TEA)/Tropoblast-Tead4-ChIP-Seq(GSE37350)/Homer	CCWGGAATGY	1e0	-7.267e-02	1.0000	59.0	1.97%	63.9	2.56%
TEAD2(TEA)/Py2T-Tead2-ChIP-Seq(GSE55709)/Homer	CCWGGAATGY	1e0	-7.039e-02	1.0000	34.0	1.13%	39.7	1.59%
IRF:BATF(IRF:bZIP)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	CTTTCANTATGACTV	1e0	-6.482e-02	1.0000	8.0	0.27%	12.4	0.50%
LXRE(NR),DR4/RAW-LXRb.biotin-ChIP-Seq(GSE21512)/Homer	RGGTTACTANAGGTCA	1e0	-5.373e-02	1.0000	6.0	0.20%	10.2	0.41%
Nkx3.1(Homeobox)/LNCaP-Nkx3.1-ChIP-Seq(GSE28264)/Homer	AAGCACTTAA	1e0	-5.251e-02	1.0000	232.0	7.73%	223.6	8.94%
RARg(NR)/ES-RARg-ChIP-Seq(GSE30538)/Homer	AGGTCAAGGTCA	1e0	-4.361e-02	1.0000	1.0	0.03%	3.9	0.15%
Tcf4(HMG)/Hct116-Tcf4-ChIP-Seq(SRA012054)/Homer	ASATCAAAGGVA	1e0	-4.301e-02	1.0000	33.0	1.10%	40.6	1.62%
Unknown3/Arabidopsis-Promoters/Homer	AYTAAACCGG	1e0	-3.881e-02	1.0000	4.0	0.13%	8.4	0.33%
Hnf1(Homeobox)/Liver-Foxa2-Chip-Seq(GSE25694)/Homer	GGTTAAWCATTAA	1e0	-3.881e-02	1.0000	4.0	0.13%	8.1	0.32%
CEBP:CEBP(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	NTNATGCAAYMNNHTGMAAY	1e0	-3.793e-02	1.0000	7.0	0.23%	12.8	0.51%
ZNF415(Zf)/HEK293-ZNF415.GFP-ChIP-Seq(GSE58341)/Homer	GRTGMTRGAGCC	1e0	-3.381e-02	1.0000	36.0	1.20%	44.8	1.79%
DPL-1(E2F)/cElegans-Adult-ChIP-Seq(modEncode)/Homer	TAGCGCGC	1e0	-2.906e-02	1.0000	14.0	0.47%	21.6	0.87%
ZNF519(Zf)/HEK293-ZNF519.GFP-ChIP-Seq(GSE58341)/Homer	GAGSCCGAGC	1e0	-2.375e-02	1.0000	7.0	0.23%	13.9	0.56%
ZSCAN22(Zf)/HEK293-ZSCAN22.GFP-ChIP-Seq(GSE58341)/Homer	SMCAGTCWGAKGGAGGAGGC	1e0	-1.946e-02	1.0000	2.0	0.07%	6.8	0.27%
Foxh1(Forkhead)/hESC-FOXH1-ChIP-Seq(GSE29422)/Homer	NNTGTGGATTSS	1e0	-1.486e-02	1.0000	34.0	1.13%	45.1	1.80%
THRa(NR)/C17.2-THRa-ChIP-Seq(GSE38347)/Homer	GGTCANYTGAGGWCA	1e0	-1.486e-02	1.0000	34.0	1.13%	45.6	1.82%
SeqBias: C/A-bias	MMMMMMMMMM	1e0	-1.455e-02	1.0000	2778.0	92.60%	2352.6	94.05%
Lhx2(Homeobox)/HFSC-Lhx2-ChIP-Seq(GSE48068)/Homer	TAATTAGN	1e0	-1.365e-02	1.0000	72.0	2.40%	85.0	3.40%
PRDM1(Zf)/Hela-PRDM1-ChIP-Seq(GSE31477)/Homer	ACTTTCACTTTC	1e0	-1.345e-02	1.0000	50.0	1.67%	62.9	2.51%
GRE(NR),IR3/A549-GR-ChIP-Seq(GSE32465)/Homer	NRGVACABNVTGTYCY	1e0	-1.251e-02	1.0000	4.0	0.13%	10.9	0.43%
OCT4-SOX2-TCF-NANOG(POU,Homeobox,HMG)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAACAATG	1e0	-1.212e-02	1.0000	6.0	0.20%	13.0	0.52%
Atf7(bZIP)/3T3L1-Atf7-ChIP-Seq(GSE56872)/Homer	NGRTGACGTCAY	1e0	-1.180e-02	1.0000	37.0	1.23%	49.2	1.97%
HOXA9(Homeobox)/HSC-Hoxa9-ChIP-Seq(GSE33509)/Homer	GGCCATAAATCA	1e0	-1.071e-02	1.0000	53.0	1.77%	66.8	2.67%
SOC1(MADS)/Seedling-SOC1-ChIP-Seq(GSE45846)/Homer	TWCCAWWTWTGG	1e0	-1.052e-02	1.0000	22.0	0.73%	33.0	1.32%
AP-2alpha(AP2)/Hela-AP2alpha-ChIP-Seq(GSE31477)/Homer	ATGCCCTGAGGC	1e0	-8.430e-03	1.0000	54.0	1.80%	68.5	2.74%
Tlx?(NR)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	CTGGCAGSCTGCCA	1e0	-8.132e-03	1.0000	33.0	1.10%	46.8	1.87%
Lhx1(Homeobox)/EmbryoCarcinoma-Lhx1-ChIP-Seq(GSE70957)/Homer	NNYTAATTAR	1e0	-5.688e-03	1.0000	86.0	2.87%	102.0	4.08%
Pax7(Paired,Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCAATTA	1e0	-4.539e-03	1.0000	3.0	0.10%	10.6	0.42%
Unknown4/Drosophila-Promoters/Homer	AAAAATACCRMA	1e0	-4.005e-03	1.0000	1.0	0.03%	6.0	0.24%
Atf1(bZIP)/K562-ATF1-ChIP-Seq(GSE31477)/Homer	GATGACGTCA	1e0	-3.278e-03	1.0000	61.0	2.03%	79.4	3.17%
PGR(NR)/EndoStromal-PGR-ChIP-Seq(GSE69539)/Homer	AAGAACATWHTGTTC	1e0	-3.187e-03	1.0000	7.0	0.23%	17.1	0.68%
HNF6(Homeobox)/Liver-Hnf6-ChIP-Seq(ERP000394)/Homer	NTATYGATCH	1e0	-3.061e-03	1.0000	25.0	0.83%	40.3	1.61%
Pit1(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGMATATDC	1e0	-2.739e-03	1.0000	69.0	2.30%	88.2	3.53%
HRE(HSF)/HepG2-HSF1-ChIP-Seq(GSE31477)/Homer	BSTTCTRGAABVTTCYAGAA	1e0	-2.418e-03	1.0000	2.0	0.07%	9.7	0.39%
Sp1(Zf)/Promoter/Homer	GGCCCCGCCCCC	1e0	-2.375e-03	1.0000	3.0	0.10%	11.1	0.44%
HOXB13(Homeobox)/ProstateTumor-HOXB13-ChIP-Seq(GSE56288)/Homer	TTTTATKRGG	1e0	-2.174e-03	1.0000	71.0	2.37%	91.9	3.67%
FXR(NR),IR1/Liver-FXR-ChIP-Seq(Chong_et_al.)/Homer	AGGTCANTGACCTB	1e0	-2.138e-03	1.0000	25.0	0.83%	42.0	1.68%
Tbx5(T-box)/HL1-Tbx5.biotin-ChIP-Seq(GSE21529)/Homer	AGGTGTCA	1e0	-1.504e-03	1.0000	456.0	15.20%	454.9	18.19%
ZBTB12(Zf)/HEK293-ZBTB12.GFP-ChIP-Seq(GSE58341)/Homer	NGNTCTAGAACCNGV	1e0	-1.375e-03	1.0000	24.0	0.80%	41.3	1.65%
Mef2d(MADS)/Retina-Mef2d-ChIP-Seq(GSE61391)/Homer	GCTATTTTTAGC	1e0	-1.090e-03	1.0000	9.0	0.30%	22.8	0.91%
Nanog(Homeobox)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	RGCCATTAAC	1e0	-1.053e-03	1.0000	464.0	15.47%	464.5	18.57%
RLR1?/SacCer-Promoters/Homer	WTTTTCYYTTTT	1e0	-8.620e-04	1.0000	23.0	0.77%	42.0	1.68%
caudal(Homeobox)/Drosophila-Embryos-ChIP-Chip(modEncode)/Homer	GGYCATAAAW	1e0	-4.910e-04	1.0000	61.0	2.03%	86.7	3.46%
CES-1(Homeobox)/cElegans-L1-CES1-ChIP-Seq(modEncode)/Homer	AAATTSAATTTN	1e0	-3.740e-04	1.0000	16.0	0.53%	34.9	1.40%
TATA-box/Drosophila-Promoters/Homer	CTATAAAAGCSV	1e0	-3.740e-04	1.0000	1.0	0.03%	9.9	0.40%
Cdx2(Homeobox)/mES-Cdx2-ChIP-Seq(GSE14586)/Homer	GYMATAAAAH	1e0	-1.100e-04	1.0000	46.0	1.53%	74.8	2.99%
Trl(Zf)/S2-GAGAfactor-ChIP-Seq(GSE40646)/Homer	RGAGAGAG	1e0	-1.010e-04	1.0000	272.0	9.07%	304.0	12.15%
TATA-Box(TBP)/Promoter/Homer	CCTTTTAWAGSC	1e0	-9.800e-05	1.0000	115.0	3.83%	149.7	5.98%
Nkx2.1(Homeobox)/LungAC-Nkx2.1-ChIP-Seq(GSE43252)/Homer	RSCACTYRAG	1e0	-4.400e-05	1.0000	284.0	9.47%	319.0	12.75%
CHR(?)/Hela-CellCycle-Expression/Homer	SRGTTTCAAA	1e0	-2.900e-05	1.0000	13.0	0.43%	35.9	1.44%
Mef2b(MADS)/HEK293-Mef2b.V5-ChIP-Seq(GSE67450)/Homer	GCTATTTTTGGM	1e0	-2.000e-05	1.0000	52.0	1.73%	86.3	3.45%
E2A(bHLH),near_PU.1/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	NVCACCTGBN	1e0	-1.400e-05	1.0000	106.0	3.53%	147.3	5.89%
Unknown(Homeobox)/Limb-p300-ChIP-Seq/Homer	SSCMATWAAA	1e0	-1.200e-05	1.0000	32.0	1.07%	63.3	2.53%
Zelda(Zf)/Embryo-zld-ChIP-Seq(GSE65441)/Homer	KBCTACCTGW	1e0	-6.000e-06	1.0000	15.0	0.50%	41.1	1.64%
Nkx2.5(Homeobox)/HL1-Nkx2.5.biotin-ChIP-Seq(GSE21529)/Homer	RRSCACTYAA	1e0	-6.000e-06	1.0000	215.0	7.17%	262.6	10.50%
Mef2c(MADS)/GM12878-Mef2c-ChIP-Seq(GSE32465)/Homer	DCYAAAAATAGM	1e0	-3.000e-06	1.0000	16.0	0.53%	44.4	1.78%
Mef2a(MADS)/HL1-Mef2a.biotin-ChIP-Seq(GSE21529)/Homer	CYAAAAATAG	1e0	-2.000e-06	1.0000	17.0	0.57%	46.3	1.85%
Nkx2.2(Homeobox)/NPC-Nkx2.2-ChIP-Seq(GSE61673)/Homer	BTBRAGTGSN	1e0	-2.000e-06	1.0000	165.0	5.50%	216.9	8.67%
Bapx1(Homeobox)/VertebralCol-Bapx1-ChIP-Seq(GSE36672)/Homer	TTRAGTGSYK	1e0	-1.000e-06	1.0000	199.0	6.63%	255.8	10.23%
Isl1(Homeobox)/Neuron-Isl1-ChIP-Seq(GSE31456)/Homer	CTAATKGV	1e0	-0.000e+00	1.0000	159.0	5.30%	218.4	8.73%
Unknown6/Drosophila-Promoters/Homer	AATTTTAAAA	1e0	-0.000e+00	1.0000	13.0	0.43%	48.3	1.93%
HOXD13(Homeobox)/Chicken-Hoxd13-ChIP-Seq(GSE38910)/Homer	NCYAATAAAA	1e0	-0.000e+00	1.0000	47.0	1.57%	101.7	4.07%
SEP3(MADS)/Arabidoposis-Flower-Sep3-ChIP-Seq/Homer	CCAAAAAGGG	1e0	-0.000e+00	1.0000	51.0	1.70%	109.0	4.36%
EGL-5(Homeobox)/cElegans-L3-EGL5-ChIP-Seq(modEncode)/Homer	ATTTAATGGG	1e0	-0.000e+00	1.0000	68.0	2.27%	132.9	5.31%
SeqBias: TA-repeat	TATATATATA	1e0	-0.000e+00	1.0000	197.0	6.57%	338.5	13.53%
PABPC1(?)/MEL-PABC1-CLIP-Seq(GSE69755)/Homer	HAATAAAGNN	1e0	-0.000e+00	1.0000	88.0	2.93%	171.5	6.86%
KANADI1(Myb)/Seedling-KAN1-ChIP-Seq(GSE48081)/Homer	ARGAATAWWN	1e0	-0.000e+00	1.0000	58.0	1.93%	163.7	6.55%
NFY(CCAAT)/Promoter/Homer	RGCCAATSRG	1e0	-0.000e+00	1.0000	19.0	0.63%	69.1	2.76%
TATA-box/SacCer-Promoters/Homer	BBHWTATATA	1e0	-0.000e+00	1.0000	10.0	0.33%	105.5	4.22%
T1ISRE(IRF)/ThioMac-Ifnb-Expression/Homer	ACTTTCGTTTCT	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
Unknown2/Arabidopsis-Promoters/Homer	AAACGACGTCGTTTT	1e0	0.000e+00	1.0000	0.0	0.00%	0.4	0.01%
ZNF16(Zf)/HEK293-ZNF16.GFP-ChIP-Seq(GSE58341)/Homer	MACCTTCYATGGCTCCCTAKTGCCY	1e0	0.000e+00	1.0000	0.0	0.00%	1.0	0.04%
OCT:OCT(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	ATGAATATTCATGAG	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%	2501.5	100.00%
EFL-1(E2F)/cElegans-L1-EFL1-ChIP-Seq(modEncode)/Homer	TGCAARYGCGCTCYA	1e0	0.000e+00	1.0000	0.0	0.00%	0.7	0.03%
GFX(?)/Promoter/Homer	ATTCTCGCGAGA	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
ZNF528(Zf)/HEK293-ZNF528.GFP-ChIP-Seq(GSE58341)/Homer	AGAAATGACTTCCCT	1e0	0.000e+00	1.0000	0.0	0.00%	0.0	0.00%
Pax7(Paired,Homeobox),longest/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	NTAATTDGCYAATTANNWWD	1e0	0.000e+00	1.0000	0.0	0.00%	0.7	0.03%
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%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	RGGTCADNNAGAGGTCAV	1e0	0.000e+00	1.0000	0.0	0.00%	1.6	0.06%
OCT:OCT(POU,Homeobox,IR1)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATWATTCATGA	1e0	0.000e+00	1.0000	0.0	0.00%	1.8	0.07%