Motif Name	Consensus	P-value	Log P-value	q-value (Benjamini)	# of Target Sequences with Motif(of 1612)	% of Target Sequences with Motif	# of Background Sequences with Motif(of 44662)	% of Background Sequences with Motif
ABF1/SacCer-Promoters/Homer	CGTRNAAARTGA	1e-52	-1.199e+02	0.0000	270.0	16.75%	2644.0	5.92%
REB1/SacCer-Promoters/Homer	KCCGGGTAAYRR	1e-48	-1.114e+02	0.0000	178.0	11.04%	1335.0	2.99%
RLR1?/SacCer-Promoters/Homer	WTTTTCYYTTTT	1e-17	-4.060e+01	0.0000	319.0	19.79%	5434.7	12.17%
SeqBias: GA-repeat	GAGAGAGAGA	1e-15	-3.550e+01	0.0000	1027.0	63.71%	23996.9	53.75%
SeqBias: TA-repeat	TATATATATA	1e-13	-3.079e+01	0.0000	972.0	60.30%	22773.3	51.01%
SUT1?/SacCer-Promoters/Homer	CCCCGCGC	1e-12	-2.876e+01	0.0000	708.0	43.92%	15716.4	35.21%
GAGA-repeat/SacCer-Promoters/Homer	CTYTCTYTCTCTCTC	1e-12	-2.781e+01	0.0000	775.0	48.08%	17575.3	39.37%
c-Myc(bHLH)/LNCAP-cMyc-ChIP-Seq(Unpublished)/Homer	VCCACGTG	1e-8	-2.028e+01	0.0000	88.0	5.46%	1214.3	2.72%
SeqBias: CG bias	SSSSSSSSSS	1e-8	-1.858e+01	0.0000	1060.0	65.76%	26286.3	58.88%
Usf2(bHLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer	GTCACGTGGT	1e-7	-1.816e+01	0.0000	64.0	3.97%	810.5	1.82%
TATA-box/SacCer-Promoters/Homer	BBHWTATATA	1e-7	-1.763e+01	0.0000	301.0	18.67%	6135.9	13.74%
bHLHE40(bHLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer	KCACGTGMCN	1e-7	-1.727e+01	0.0000	66.0	4.09%	868.6	1.95%
n-Myc(bHLH)/mES-nMyc-ChIP-Seq(GSE11431)/Homer	VRCCACGTGG	1e-7	-1.712e+01	0.0000	101.0	6.27%	1569.6	3.52%
CLOCK(bHLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer	GHCACGTG	1e-6	-1.601e+01	0.0000	86.0	5.33%	1296.7	2.90%
SPCH(bHLH)/Seedling-SPCH-ChIP-Seq(GSE57497)/Homer	WNBCACGTGA	1e-6	-1.564e+01	0.0000	184.0	11.41%	3469.0	7.77%
Cbf1(bHLH)/Yeast-Cbf1-ChIP-Seq(GSE29506)/Homer	TCACGTGAYH	1e-6	-1.466e+01	0.0000	58.0	3.60%	780.8	1.75%
SFP1/SacCer-Promoters/Homer	DDAAAAATTTTY	1e-5	-1.260e+01	0.0001	76.0	4.71%	1202.5	2.69%
PIF5ox(bHLH)/Arabidopsis-PIF5ox-ChIP-Seq(GSE35062)/Homer	BCACGTGVDN	1e-5	-1.240e+01	0.0001	137.0	8.50%	2555.0	5.72%
IBL1(bHLH)/Seedling-IBL1-ChIP-Seq(GSE51120)/Homer	CACGTGCC	1e-5	-1.203e+01	0.0001	223.0	13.83%	4616.1	10.34%
Max(bHLH)/K562-Max-ChIP-Seq(GSE31477)/Homer	RCCACGTGGYYN	1e-5	-1.163e+01	0.0002	86.0	5.33%	1451.2	3.25%
USF1(bHLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer	SGTCACGTGR	1e-4	-1.112e+01	0.0003	67.0	4.16%	1066.0	2.39%
TOD6?/SacCer-Promoters/Homer	GCGATGAGMT	1e-4	-1.089e+01	0.0003	49.0	3.04%	706.0	1.58%
E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer	GGCGGGAAAH	1e-4	-1.013e+01	0.0007	128.0	7.94%	2471.9	5.54%
E-box/Arabidopsis-Promoters/Homer	GCCACGTG	1e-4	-9.325e+00	0.0014	75.0	4.65%	1308.0	2.93%
Pho2(bHLH)/Yeast-Pho2-ChIP-Seq(GSE29506)/Homer	CCCACGTGCT	1e-4	-9.227e+00	0.0015	60.0	3.72%	986.6	2.21%
PIF4(bHLH)/Seedling-PIF4-ChIP-Seq(GSE35315)/Homer	NNBCACGTGN	1e-3	-9.174e+00	0.0015	145.0	9.00%	2931.7	6.57%
DPL-1(E2F)/cElegans-Adult-ChIP-Seq(modEncode)/Homer	TAGCGCGC	1e-3	-8.544e+00	0.0028	159.0	9.86%	3312.6	7.42%
NPAS2(bHLH)/Liver-NPAS2-ChIP-Seq(GSE39860)/Homer	KCCACGTGAC	1e-3	-8.505e+00	0.0028	121.0	7.51%	2404.1	5.39%
PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	MGGAAGTGAAAC	1e-3	-8.126e+00	0.0039	214.0	13.28%	4702.4	10.53%
AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	VTGACTCATC	1e-3	-7.885e+00	0.0049	99.0	6.14%	1925.7	4.31%
BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer	DATGASTCAT	1e-3	-7.816e+00	0.0050	90.0	5.58%	1720.1	3.85%
Jun-AP1(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	GATGASTCATCN	1e-3	-7.735e+00	0.0053	21.0	1.30%	250.3	0.56%
Atf7(bZIP)/3T3L1-Atf7-ChIP-Seq(GSE56872)/Homer	NGRTGACGTCAY	1e-3	-7.541e+00	0.0062	87.0	5.40%	1666.7	3.73%
Atf2(bZIP)/3T3L1-Atf2-ChIP-Seq(GSE56872)/Homer	NRRTGACGTCAT	1e-3	-7.495e+00	0.0063	54.0	3.35%	925.6	2.07%
MITF(bHLH)/MastCells-MITF-ChIP-Seq(GSE48085)/Homer	RTCATGTGAC	1e-3	-7.225e+00	0.0081	117.0	7.26%	2393.5	5.36%
Atf3(bZIP)/GBM-ATF3-ChIP-Seq(GSE33912)/Homer	DATGASTCATHN	1e-3	-7.041e+00	0.0094	88.0	5.46%	1718.7	3.85%
Atf1(bZIP)/K562-ATF1-ChIP-Seq(GSE31477)/Homer	GATGACGTCA	1e-2	-6.734e+00	0.0124	168.0	10.42%	3679.9	8.24%
Sox6(HMG)/Myotubes-Sox6-ChIP-Seq(GSE32627)/Homer	CCATTGTTNY	1e-2	-6.266e+00	0.0193	405.0	25.12%	9849.7	22.06%
BMAL1(bHLH)/Liver-Bmal1-ChIP-Seq(GSE39860)/Homer	GNCACGTG	1e-2	-6.161e+00	0.0209	223.0	13.83%	5123.2	11.48%
SeqBias: CG-repeat	CGCGCGCGCG	1e-2	-6.153e+00	0.0209	103.0	6.39%	2132.7	4.78%
TATA-box/Drosophila-Promoters/Homer	CTATAAAAGCSV	1e-2	-6.072e+00	0.0218	36.0	2.23%	593.2	1.33%
Sox2(HMG)/mES-Sox2-ChIP-Seq(GSE11431)/Homer	BCCATTGTTC	1e-2	-5.949e+00	0.0240	209.0	12.97%	4789.8	10.73%
FHY3(FAR1)/Arabidopsis-FHY3-ChIP-Seq(GSE30711)/Homer	HHCACGCGCBTN	1e-2	-5.872e+00	0.0254	56.0	3.47%	1044.6	2.34%
Fra1(bZIP)/BT549-Fra1-ChIP-Seq(GSE46166)/Homer	NNATGASTCATH	1e-2	-5.745e+00	0.0281	77.0	4.78%	1540.0	3.45%
c-Jun-CRE(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer	ATGACGTCATCY	1e-2	-5.659e+00	0.0300	43.0	2.67%	762.5	1.71%
E-box(bHLH)/Promoter/Homer	SSGGTCACGTGA	1e-2	-5.044e+00	0.0543	15.0	0.93%	197.5	0.44%
CRE(bZIP)/Promoter/Homer	CSGTGACGTCAC	1e-2	-5.032e+00	0.0543	32.0	1.99%	547.6	1.23%
Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer	GGGGGGGG	1e-2	-4.994e+00	0.0547	43.0	2.67%	793.0	1.78%
Tgif2(Homeobox)/mES-Tgif2-ChIP-Seq(GSE55404)/Homer	TGTCANYT	1e-2	-4.872e+00	0.0605	508.0	31.51%	12825.0	28.73%
HIF-1b(HLH)/T47D-HIF1b-ChIP-Seq(GSE59937)/Homer	RTACGTGC	1e-1	-4.512e+00	0.0849	263.0	16.32%	6365.9	14.26%
Sox15(HMG)/CPA-Sox15-ChIP-Seq(GSE62909)/Homer	RAACAATGGN	1e-1	-4.446e+00	0.0889	237.0	14.70%	5695.4	12.76%
Pho4(bHLH)/Yeast-Pho4-ChIP-Seq(GSE29506)/Homer	AAGCACGTGBGD	1e-1	-4.313e+00	0.0997	21.0	1.30%	338.3	0.76%
Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer	SCCTAGCAACAG	1e-1	-4.222e+00	0.1071	41.0	2.54%	787.9	1.77%
SeqBias: CA-repeat	CACACACACA	1e-1	-4.127e+00	0.1157	754.0	46.77%	19683.7	44.09%
MafA(bZIP)/Islet-MafA-ChIP-Seq(GSE30298)/Homer	TGCTGACTCA	1e-1	-4.047e+00	0.1229	81.0	5.02%	1759.7	3.94%
HRE(HSF)/HepG2-HSF1-ChIP-Seq(GSE31477)/Homer	BSTTCTRGAABVTTCYAGAA	1e-1	-4.014e+00	0.1248	19.0	1.18%	306.1	0.69%
Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer	TGCGTGGGYG	1e-1	-3.942e+00	0.1318	42.0	2.61%	826.4	1.85%
TATA-Box(TBP)/Promoter/Homer	CCTTTTAWAGSC	1e-1	-3.836e+00	0.1439	295.0	18.30%	7315.0	16.39%
c-Myc(bHLH)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	VVCCACGTGG	1e-1	-3.797e+00	0.1471	46.0	2.85%	929.0	2.08%
E2F(E2F)/Hela-CellCycle-Expression/Homer	TTSGCGCGAAAA	1e-1	-3.734e+00	0.1541	21.0	1.30%	359.7	0.81%
RORgt(NR)/EL4-RORgt.Flag-ChIP-Seq(GSE56019)/Homer	AAYTAGGTCA	1e-1	-3.656e+00	0.1639	22.0	1.36%	384.5	0.86%
SeqBias: polyC-repeat	CCCCCCCCCC	1e-1	-3.590e+00	0.1723	1573.0	97.58%	43180.8	96.73%
Trl(Zf)/S2-GAGAfactor-ChIP-Seq(GSE40646)/Homer	RGAGAGAG	1e-1	-3.569e+00	0.1730	256.0	15.88%	6327.6	14.17%
E2F1(E2F)/Hela-E2F1-ChIP-Seq(GSE22478)/Homer	CWGGCGGGAA	1e-1	-3.556e+00	0.1730	28.0	1.74%	523.1	1.17%
Unknown1/Arabidopsis-Promoters/Homer	RGGGTAWWWTHGTAA	1e-1	-3.484e+00	0.1827	26.0	1.61%	481.9	1.08%
Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer	NRYTTCCGGY	1e-1	-3.479e+00	0.1827	153.0	9.49%	3646.0	8.17%
PAX6(Paired,Homeobox)/Forebrain-Pax6-ChIP-Seq(GSE66961)/Homer	NGTGTTCAVTSAAGCGKAAA	1e-1	-3.452e+00	0.1829	17.0	1.05%	283.8	0.64%
DMRT1(DM)/Testis-DMRT1-ChIP-Seq(GSE64892)/Homer	TWGHWACAWTGTWDC	1e-1	-3.356e+00	0.1985	50.0	3.10%	1055.6	2.36%
Tbox:Smad(T-box,MAD)/ESCd5-Smad2_3-ChIP-Seq(GSE29422)/Homer	AGGTGHCAGACA	1e-1	-3.262e+00	0.2148	17.0	1.05%	290.5	0.65%
Fli1(ETS)/CD8-FLI-ChIP-Seq(GSE20898)/Homer	NRYTTCCGGH	1e-1	-3.247e+00	0.2151	203.0	12.59%	4983.4	11.16%
NFkB-p65-Rel(RHD)/ThioMac-LPS-Expression(GSE23622)/Homer	GGAAATTCCC	1e-1	-3.099e+00	0.2459	11.0	0.68%	168.7	0.38%
NF1(CTF)/LNCAP-NF1-ChIP-Seq(Unpublished)/Homer	CYTGGCABNSTGCCAR	1e-1	-3.063e+00	0.2512	22.0	1.36%	410.8	0.92%
GAGA-repeat/Arabidopsis-Promoters/Homer	CTCTCTCTCY	1e-1	-3.056e+00	0.2512	65.0	4.03%	1449.2	3.25%
SEP3(MADS)/Arabidoposis-Flower-Sep3-ChIP-Seq/Homer	CCAAAAAGGG	1e-1	-2.927e+00	0.2801	360.0	22.33%	9226.6	20.67%
Unknown1(NR/Ini-like)/Drosophila-Promoters/Homer	MYGGTCACACTG	1e-1	-2.884e+00	0.2885	24.0	1.49%	465.7	1.04%
E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer	VDTTTCCCGCCA	1e-1	-2.873e+00	0.2885	18.0	1.12%	328.6	0.74%
Hnf1(Homeobox)/Liver-Foxa2-Chip-Seq(GSE25694)/Homer	GGTTAAWCATTAA	1e-1	-2.785e+00	0.3103	33.0	2.05%	684.4	1.53%
Stat3(Stat)/mES-Stat3-ChIP-Seq(GSE11431)/Homer	CTTCCGGGAA	1e-1	-2.766e+00	0.3121	68.0	4.22%	1553.0	3.48%
HRE(HSF)/Striatum-HSF1-ChIP-Seq(GSE38000)/Homer	TTCTAGAABNTTCTA	1e-1	-2.759e+00	0.3121	35.0	2.17%	734.4	1.65%
ZNF467(Zf)/HEK293-ZNF467.GFP-ChIP-Seq(GSE58341)/Homer	TGGGGAAGGGCM	1e-1	-2.738e+00	0.3131	37.0	2.30%	784.6	1.76%
FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer	NYYTGTTTACHN	1e-1	-2.688e+00	0.3248	97.0	6.02%	2301.1	5.15%
Sox3(HMG)/NPC-Sox3-ChIP-Seq(GSE33059)/Homer	CCWTTGTY	1e-1	-2.688e+00	0.3248	357.0	22.15%	9199.5	20.61%
Pit1(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGMATATDC	1e-1	-2.654e+00	0.3281	298.0	18.49%	7619.5	17.07%
Egr2(Zf)/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer	NGCGTGGGCGGR	1e-1	-2.644e+00	0.3281	14.0	0.87%	248.8	0.56%
CRX(Homeobox)/Retina-Crx-ChIP-Seq(GSE20012)/Homer	GCTAATCC	1e-1	-2.642e+00	0.3281	468.0	29.03%	12217.9	27.37%
STAT1(Stat)/HelaS3-STAT1-ChIP-Seq(GSE12782)/Homer	NATTTCCNGGAAAT	1e-1	-2.599e+00	0.3346	56.0	3.47%	1266.0	2.84%
ARE(NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	RGRACASNSTGTYCYB	1e-1	-2.572e+00	0.3398	19.0	1.18%	365.4	0.82%
Sox4(HMG)/proB-Sox4-ChIP-Seq(GSE50066)/Homer	YCTTTGTTCC	1e-1	-2.496e+00	0.3624	149.0	9.24%	3684.9	8.25%
Mef2d(MADS)/Retina-Mef2d-ChIP-Seq(GSE61391)/Homer	GCTATTTTTAGC	1e-1	-2.445e+00	0.3773	52.0	3.23%	1180.2	2.64%
GRE(NR),IR3/A549-GR-ChIP-Seq(GSE32465)/Homer	NRGVACABNVTGTYCY	1e0	-2.249e+00	0.4535	13.0	0.81%	242.5	0.54%
SeqBias: G/A bias	RRRRRRRRRR	1e0	-2.204e+00	0.4692	1612.0	100.00%	44580.1	99.86%
E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer	GGCGGGAARN	1e0	-2.198e+00	0.4692	39.0	2.42%	876.3	1.96%
Isl1(Homeobox)/Neuron-Isl1-ChIP-Seq(GSE31456)/Homer	CTAATKGV	1e0	-2.195e+00	0.4692	418.0	25.93%	10977.9	24.59%
Rfx1(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	KGTTGCCATGGCAA	1e0	-2.192e+00	0.4692	25.0	1.55%	530.5	1.19%
Pknox1(Homeobox)/ES-Prep1-ChIP-Seq(GSE63282)/Homer	SCTGTCAVTCAV	1e0	-2.145e+00	0.4767	20.0	1.24%	412.1	0.92%
Pit1+1bp(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer	ATGCATAATTCA	1e0	-2.116e+00	0.4859	101.0	6.27%	2483.5	5.56%
ELF1(ETS)/Jurkat-ELF1-ChIP-Seq(SRA014231)/Homer	AVCCGGAAGT	1e0	-2.084e+00	0.4964	79.0	4.90%	1913.9	4.29%
PHA-4(Forkhead)/cElegans-Embryos-PHA4-ChIP-Seq(modEncode)/Homer	KTGTTTGC	1e0	-2.079e+00	0.4964	584.0	36.23%	15549.3	34.83%
Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo_et_al.)/Homer	TBGCACGCAA	1e0	-2.071e+00	0.4964	138.0	8.56%	3466.2	7.76%
Fosl2(bZIP)/3T3L1-Fosl2-ChIP-Seq(GSE56872)/Homer	NATGASTCABNN	1e0	-2.055e+00	0.4964	24.0	1.49%	515.6	1.15%
Smad2(MAD)/ES-SMAD2-ChIP-Seq(GSE29422)/Homer	CTGTCTGG	1e0	-2.047e+00	0.4964	145.0	9.00%	3657.0	8.19%
Pbx3(Homeobox)/GM12878-PBX3-ChIP-Seq(GSE32465)/Homer	SCTGTCAMTCAN	1e0	-2.044e+00	0.4964	18.0	1.12%	370.1	0.83%
Sox10(HMG)/SciaticNerve-Sox3-ChIP-Seq(GSE35132)/Homer	CCWTTGTYYB	1e0	-2.016e+00	0.5003	288.0	17.87%	7499.4	16.80%
RXR(NR),DR1/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer	TAGGGCAAAGGTCA	1e0	-2.001e+00	0.5029	69.0	4.28%	1664.2	3.73%
Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer	HACTTCCGGY	1e0	-1.989e+00	0.5044	116.0	7.20%	2898.8	6.49%
PRDM1(Zf)/Hela-PRDM1-ChIP-Seq(GSE31477)/Homer	ACTTTCACTTTC	1e0	-1.880e+00	0.5569	90.0	5.58%	2230.0	5.00%
ZNF519(Zf)/HEK293-ZNF519.GFP-ChIP-Seq(GSE58341)/Homer	GAGSCCGAGC	1e0	-1.866e+00	0.5597	8.0	0.50%	144.7	0.32%
VDR(NR),DR3/GM10855-VDR+vitD-ChIP-Seq(GSE22484)/Homer	ARAGGTCANWGAGTTCANNN	1e0	-1.842e+00	0.5678	17.0	1.05%	358.2	0.80%
Zic(Zf)/Cerebellum-ZIC1.2-ChIP-Seq(GSE60731)/Homer	CCTGCTGAGH	1e0	-1.792e+00	0.5917	55.0	3.41%	1327.4	2.97%
ZNF711(Zf)/SHSY5Y-ZNF711-ChIP-Seq(GSE20673)/Homer	AGGCCTAG	1e0	-1.791e+00	0.5917	115.0	7.13%	2906.2	6.51%
PU.1(ETS)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer	AGAGGAAGTG	1e0	-1.766e+00	0.5964	42.0	2.61%	994.2	2.23%
STAT5(Stat)/mCD4+-Stat5-ChIP-Seq(GSE12346)/Homer	RTTTCTNAGAAA	1e0	-1.764e+00	0.5964	48.0	2.98%	1149.4	2.57%
Brn1(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	TATGCWAATBAV	1e0	-1.746e+00	0.5976	60.0	3.72%	1463.9	3.28%
Brachyury(T-box)/Mesoendoderm-Brachyury-ChIP-exo(GSE54963)/Homer	ANTTMRCASBNNNGTGYKAAN	1e0	-1.736e+00	0.5980	32.0	1.99%	742.0	1.66%
KLF14(Zf)/HEK293-KLF14.GFP-ChIP-Seq(GSE58341)/Homer	RGKGGGCGKGGC	1e0	-1.698e+00	0.6161	68.0	4.22%	1679.5	3.76%
JunD(bZIP)/K562-JunD-ChIP-Seq/Homer	ATGACGTCATCN	1e0	-1.669e+00	0.6286	10.0	0.62%	199.8	0.45%
GATA:SCL(Zf,bHLH)/Ter119-SCL-ChIP-Seq(GSE18720)/Homer	CRGCTGBNGNSNNSAGATAA	1e0	-1.637e+00	0.6436	13.0	0.81%	273.4	0.61%
X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	GGTTGCCATGGCAA	1e0	-1.637e+00	0.6436	15.0	0.93%	322.1	0.72%
Bach2(bZIP)/OCILy7-Bach2-ChIP-Seq(GSE44420)/Homer	TGCTGAGTCA	1e0	-1.611e+00	0.6491	14.0	0.87%	299.3	0.67%
p53(p53)/Saos-p53-ChIP-Seq(GSE15780)/Homer	RRCATGYCYRGRCATGYYYN	1e0	-1.598e+00	0.6491	8.0	0.50%	155.6	0.35%
p53(p53)/Saos-p53-ChIP-Seq/Homer	RRCATGYCYRGRCATGYYYN	1e0	-1.598e+00	0.6491	8.0	0.50%	155.6	0.35%
Ets1-distal(ETS)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	MACAGGAAGT	1e0	-1.597e+00	0.6491	26.0	1.61%	601.4	1.35%
RBFox2(?)/Heart-RBFox2-CLIP-Seq(GSE57926)/Homer	TGCATGCA	1e0	-1.579e+00	0.6491	274.0	17.00%	7239.6	16.22%
DMRT6(DM)/Testis-DMRT6-ChIP-Seq(GSE60440)/Homer	YDGHTACAWTGTADC	1e0	-1.568e+00	0.6507	34.0	2.11%	809.0	1.81%
PPARE(NR),DR1/3T3L1-Pparg-ChIP-Seq(GSE13511)/Homer	TGACCTTTGCCCCA	1e0	-1.539e+00	0.6646	64.0	3.97%	1597.7	3.58%
PGR(NR)/EndoStromal-PGR-ChIP-Seq(GSE69539)/Homer	AAGAACATWHTGTTC	1e0	-1.500e+00	0.6851	29.0	1.80%	687.7	1.54%
HEB(bHLH)/mES-Heb-ChIP-Seq(GSE53233)/Homer	VCAGCTGBNN	1e0	-1.481e+00	0.6927	134.0	8.31%	3476.4	7.79%
Nkx6.1(Homeobox)/Islet-Nkx6.1-ChIP-Seq(GSE40975)/Homer	GKTAATGR	1e0	-1.466e+00	0.6977	768.0	47.64%	20846.1	46.70%
GFX(?)/Promoter/Homer	ATTCTCGCGAGA	1e0	-1.459e+00	0.6977	3.0	0.19%	46.5	0.10%
ZNF41(Zf)/HEK293-ZNF41.GFP-ChIP-Seq(GSE58341)/Homer	CCTCATGGTGYCYTWYTCCCTTGTG	1e0	-1.459e+00	0.6977	3.0	0.19%	46.1	0.10%
ZFX(Zf)/mES-Zfx-ChIP-Seq(GSE11431)/Homer	AGGCCTRG	1e0	-1.451e+00	0.6977	69.0	4.28%	1743.0	3.90%
ZNF416(Zf)/HEK293-ZNF416.GFP-ChIP-Seq(GSE58341)/Homer	WDNCTGGGCA	1e0	-1.425e+00	0.7054	63.0	3.91%	1588.6	3.56%
Lhx2(Homeobox)/HFSC-Lhx2-ChIP-Seq(GSE48068)/Homer	TAATTAGN	1e0	-1.418e+00	0.7054	277.0	17.18%	7370.9	16.51%
Foxo1(Forkhead)/RAW-Foxo1-ChIP-Seq(Fan_et_al.)/Homer	CTGTTTAC	1e0	-1.417e+00	0.7054	283.0	17.56%	7535.0	16.88%
Tgif1(Homeobox)/mES-Tgif1-ChIP-Seq(GSE55404)/Homer	YTGWCADY	1e0	-1.403e+00	0.7054	450.0	27.92%	12109.1	27.12%
FOXM1(Forkhead)/MCF7-FOXM1-ChIP-Seq(GSE72977)/Homer	TRTTTACTTW	1e0	-1.402e+00	0.7054	193.0	11.97%	5090.3	11.40%
KLF5(Zf)/LoVo-KLF5-ChIP-Seq(GSE49402)/Homer	DGGGYGKGGC	1e0	-1.369e+00	0.7189	56.0	3.47%	1411.5	3.16%
p63(p53)/Keratinocyte-p63-ChIP-Seq(GSE17611)/Homer	NNDRCATGYCYNRRCATGYH	1e0	-1.367e+00	0.7189	25.0	1.55%	597.9	1.34%
HOXD13(Homeobox)/Chicken-Hoxd13-ChIP-Seq(GSE38910)/Homer	NCYAATAAAA	1e0	-1.366e+00	0.7189	278.0	17.25%	7414.8	16.61%
ETS:E-box(ETS,bHLH)/HPC7-Scl-ChIP-Seq(GSE22178)/Homer	AGGAARCAGCTG	1e0	-1.361e+00	0.7189	7.0	0.43%	142.1	0.32%
Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer	GTTGCCATGGCAACM	1e0	-1.353e+00	0.7189	10.0	0.62%	216.9	0.49%
Tlx?(NR)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer	CTGGCAGSCTGCCA	1e0	-1.340e+00	0.7189	16.0	0.99%	368.6	0.83%
Smad4(MAD)/ESC-SMAD4-ChIP-Seq(GSE29422)/Homer	VBSYGTCTGG	1e0	-1.326e+00	0.7189	138.0	8.56%	3620.4	8.11%
PABPC1(?)/MEL-PABC1-CLIP-Seq(GSE69755)/Homer	HAATAAAGNN	1e0	-1.307e+00	0.7274	520.0	32.26%	14072.6	31.52%
Tbet(T-box)/CD8-Tbet-ChIP-Seq(GSE33802)/Homer	AGGTGTGAAM	1e0	-1.275e+00	0.7461	150.0	9.31%	3958.0	8.87%
HOXA9(Homeobox)/HSC-Hoxa9-ChIP-Seq(GSE33509)/Homer	GGCCATAAATCA	1e0	-1.270e+00	0.7461	163.0	10.11%	4312.2	9.66%
FOXA1:AR(Forkhead,NR)/LNCAP-AR-ChIP-Seq(GSE27824)/Homer	AGTAAACAAAAAAGAACAND	1e0	-1.258e+00	0.7480	11.0	0.68%	247.5	0.55%
NRF1(NRF)/MCF7-NRF1-ChIP-Seq(Unpublished)/Homer	CTGCGCATGCGC	1e0	-1.248e+00	0.7504	6.0	0.37%	123.3	0.28%
FXR(NR),IR1/Liver-FXR-ChIP-Seq(Chong_et_al.)/Homer	AGGTCANTGACCTB	1e0	-1.240e+00	0.7519	29.0	1.80%	716.0	1.60%
ERG(ETS)/VCaP-ERG-ChIP-Seq(GSE14097)/Homer	ACAGGAAGTG	1e0	-1.237e+00	0.7519	157.0	9.74%	4158.6	9.32%
ZNF669(Zf)/HEK293-ZNF669.GFP-ChIP-Seq(GSE58341)/Homer	GARTGGTCATCGCCC	1e0	-1.204e+00	0.7690	9.0	0.56%	200.2	0.45%
ZNF322(Zf)/HEK293-ZNF322.GFP-ChIP-Seq(GSE58341)/Homer	GAGCCTGGTACTGWGCCTGR	1e0	-1.201e+00	0.7690	8.0	0.50%	175.1	0.39%
GRE(NR),IR3/RAW264.7-GRE-ChIP-Seq(Unpublished)/Homer	VAGRACAKWCTGTYC	1e0	-1.201e+00	0.7690	24.0	1.49%	588.5	1.32%
Unknown3/Arabidopsis-Promoters/Homer	AYTAAACCGG	1e0	-1.198e+00	0.7690	69.0	4.28%	1787.0	4.00%
CEBP:AP1(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	DRTGTTGCAA	1e0	-1.197e+00	0.7690	176.0	10.92%	4687.0	10.50%
bZIP:IRF(bZIP,IRF)/Th17-BatF-ChIP-Seq(GSE39756)/Homer	NAGTTTCABTHTGACTNW	1e0	-1.192e+00	0.7690	69.0	4.28%	1788.8	4.01%
KLF10(Zf)/HEK293-KLF10.GFP-ChIP-Seq(GSE58341)/Homer	GGGGGTGTGTCC	1e0	-1.188e+00	0.7690	26.0	1.61%	642.6	1.44%
Atf4(bZIP)/MEF-Atf4-ChIP-Seq(GSE35681)/Homer	MTGATGCAAT	1e0	-1.164e+00	0.7690	76.0	4.71%	1982.0	4.44%
Mef2b(MADS)/HEK293-Mef2b.V5-ChIP-Seq(GSE67450)/Homer	GCTATTTTTGGM	1e0	-1.148e+00	0.7725	194.0	12.03%	5192.0	11.63%
Nrf2(bZIP)/Lymphoblast-Nrf2-ChIP-Seq(GSE37589)/Homer	HTGCTGAGTCAT	1e0	-1.141e+00	0.7729	3.0	0.19%	55.5	0.12%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	RGGTCADNNAGAGGTCAV	1e0	-1.115e+00	0.7880	1.0	0.06%	11.3	0.03%
ETV1(ETS)/GIST48-ETV1-ChIP-Seq(GSE22441)/Homer	AACCGGAAGT	1e0	-1.097e+00	0.7972	162.0	10.05%	4334.9	9.71%
Rbpj1(?)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	HTTTCCCASG	1e0	-1.095e+00	0.7972	137.0	8.50%	3653.9	8.18%
RFX(HTH)/K562-RFX3-ChIP-Seq(SRA012198)/Homer	CGGTTGCCATGGCAAC	1e0	-1.070e+00	0.8094	8.0	0.50%	183.0	0.41%
Hoxb4(Homeobox)/ES-Hoxb4-ChIP-Seq(GSE34014)/Homer	TGATTRATGGCY	1e0	-1.056e+00	0.8161	36.0	2.23%	925.4	2.07%
Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer	GCCACACCCA	1e0	-1.048e+00	0.8172	15.0	0.93%	367.2	0.82%
Oct4(POU,Homeobox)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAW	1e0	-1.045e+00	0.8172	101.0	6.27%	2686.6	6.02%
ISRE(IRF)/ThioMac-LPS-Expression(GSE23622)/Homer	AGTTTCASTTTC	1e0	-1.013e+00	0.8364	11.0	0.68%	265.2	0.59%
SeqBias: GCW-triplet	GCWGCWGCWGCW	1e0	-1.011e+00	0.8364	1612.0	100.00%	44613.2	99.94%
Sox9(HMG)/Limb-SOX9-ChIP-Seq(GSE73225)/Homer	AGGVNCCTTTGT	1e0	-9.963e-01	0.8405	114.0	7.07%	3053.3	6.84%
Mef2c(MADS)/GM12878-Mef2c-ChIP-Seq(GSE32465)/Homer	DCYAAAAATAGM	1e0	-9.908e-01	0.8405	102.0	6.33%	2727.8	6.11%
Stat3+il21(Stat)/CD4-Stat3-ChIP-Seq(GSE19198)/Homer	SVYTTCCNGGAARB	1e0	-9.789e-01	0.8454	87.0	5.40%	2322.0	5.20%
ZNF143|STAF(Zf)/CUTLL-ZNF143-ChIP-Seq(GSE29600)/Homer	ATTTCCCAGVAKSCY	1e0	-9.593e-01	0.8572	14.0	0.87%	349.8	0.78%
NFAT:AP1(RHD,bZIP)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	SARTGGAAAAWRTGAGTCAB	1e0	-9.569e-01	0.8572	22.0	1.36%	564.0	1.26%
TR4(NR),DR1/Hela-TR4-ChIP-Seq(GSE24685)/Homer	GAGGTCAAAGGTCA	1e0	-9.496e-01	0.8572	5.0	0.31%	113.2	0.25%
Srebp1a(bHLH)/HepG2-Srebp1a-ChIP-Seq(GSE31477)/Homer	RTCACSCCAY	1e0	-9.469e-01	0.8572	18.0	1.12%	457.2	1.02%
ZBTB33(Zf)/GM12878-ZBTB33-ChIP-Seq(GSE32465)/Homer	GGVTCTCGCGAGAAC	1e0	-9.315e-01	0.8614	5.0	0.31%	114.8	0.26%
Smad3(MAD)/NPC-Smad3-ChIP-Seq(GSE36673)/Homer	TWGTCTGV	1e0	-9.178e-01	0.8684	251.0	15.57%	6838.8	15.32%
ZNF317(Zf)/HEK293-ZNF317.GFP-ChIP-Seq(GSE58341)/Homer	GTCWGCTGTYYCTCT	1e0	-8.911e-01	0.8869	7.0	0.43%	169.1	0.38%
Unknown(Homeobox)/Limb-p300-ChIP-Seq/Homer	SSCMATWAAA	1e0	-8.848e-01	0.8875	156.0	9.68%	4238.8	9.50%
Dorsal(RHD)/Embryo-dl-ChIP-Seq(GSE65441)/Homer	GGGAAAAMCCCG	1e0	-8.797e-01	0.8875	24.0	1.49%	627.9	1.41%
ELT-3(Gata)/cElegans-L1-ELT3-ChIP-Seq(modEncode)/Homer	AWTGATAAGA	1e0	-8.796e-01	0.8875	131.0	8.13%	3553.7	7.96%
Pdx1(Homeobox)/Islet-Pdx1-ChIP-Seq(SRA008281)/Homer	YCATYAATCA	1e0	-8.570e-01	0.8976	208.0	12.90%	5679.8	12.72%
Bapx1(Homeobox)/VertebralCol-Bapx1-ChIP-Seq(GSE36672)/Homer	TTRAGTGSYK	1e0	-8.415e-01	0.9067	264.0	16.38%	7229.8	16.20%
ZNF165(Zf)/WHIM12-ZNF165-ChIP-Seq(GSE65937)/Homer	AAGGKGRCGCAGGCA	1e0	-8.380e-01	0.9067	4.0	0.25%	93.6	0.21%
SeqBias: polyA-repeat	AAAAAAAAAA	1e0	-8.308e-01	0.9067	1612.0	100.00%	44618.1	99.95%
Klf9(Zf)/GBM-Klf9-ChIP-Seq(GSE62211)/Homer	GCCACRCCCACY	1e0	-8.217e-01	0.9099	12.0	0.74%	309.5	0.69%
Oct6(POU,Homeobox)/NPC-Oct6-ChIP-Seq(GSE35496)/Homer	WATGCAAATGAG	1e0	-8.199e-01	0.9099	76.0	4.71%	2061.0	4.62%
Esrrb(NR)/mES-Esrrb-ChIP-Seq(GSE11431)/Homer	KTGACCTTGA	1e0	-8.033e-01	0.9170	65.0	4.03%	1762.0	3.95%
Mouse_Recombination_Hotspot(Zf)/Testis-DMC1-ChIP-Seq(GSE24438)/Homer	ACTYKNATTCGTGNTACTTC	1e0	-7.994e-01	0.9170	10.0	0.62%	257.4	0.58%
Srebp2(bHLH)/HepG2-Srebp2-ChIP-Seq(GSE31477)/Homer	CGGTCACSCCAC	1e0	-7.974e-01	0.9170	8.0	0.50%	203.5	0.46%
THRa(NR)/C17.2-THRa-ChIP-Seq(GSE38347)/Homer	GGTCANYTGAGGWCA	1e0	-7.947e-01	0.9170	17.0	1.05%	448.7	1.01%
GATA(Zf),IR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NAGATWNBNATCTNN	1e0	-7.843e-01	0.9170	16.0	0.99%	422.9	0.95%
LHY(Myb)/Seedling-LHY-ChIP-Seq(GSE52175)/Homer	ADAAATATCT	1e0	-7.839e-01	0.9170	297.0	18.42%	8167.6	18.30%
Nkx3.1(Homeobox)/LNCaP-Nkx3.1-ChIP-Seq(GSE28264)/Homer	AAGCACTTAA	1e0	-7.731e-01	0.9170	298.0	18.49%	8200.2	18.37%
Hoxc9(Homeobox)/Ainv15-Hoxc9-ChIP-Seq(GSE21812)/Homer	GGCCATAAATCA	1e0	-7.700e-01	0.9170	123.0	7.63%	3369.0	7.55%
Meis1(Homeobox)/MastCells-Meis1-ChIP-Seq(GSE48085)/Homer	VGCTGWCAVB	1e0	-7.683e-01	0.9170	159.0	9.86%	4363.2	9.77%
Oct4:Sox17(POU,Homeobox,HMG)/F9-Sox17-ChIP-Seq(GSE44553)/Homer	CCATTGTATGCAAAT	1e0	-7.683e-01	0.9170	28.0	1.74%	753.5	1.69%
AR-halfsite(NR)/LNCaP-AR-ChIP-Seq(GSE27824)/Homer	CCAGGAACAG	1e0	-7.520e-01	0.9170	363.0	22.52%	10008.1	22.42%
EBF1(EBF)/Near-E2A-ChIP-Seq(GSE21512)/Homer	GTCCCCWGGGGA	1e0	-7.374e-01	0.9256	33.0	2.05%	896.5	2.01%
EWS:FLI1-fusion(ETS)/SK_N_MC-EWS:FLI1-ChIP-Seq(SRA014231)/Homer	VACAGGAAAT	1e0	-7.336e-01	0.9256	59.0	3.66%	1614.4	3.62%
NF-E2(bZIP)/K562-NFE2-ChIP-Seq(GSE31477)/Homer	GATGACTCAGCA	1e0	-7.305e-01	0.9256	3.0	0.19%	72.6	0.16%
EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer	NWGGGTGTGGCY	1e0	-7.284e-01	0.9256	10.0	0.62%	264.4	0.59%
SeqBias: C/A-bias	MMMMMMMMMM	1e0	-7.224e-01	0.9256	1612.0	100.00%	44622.0	99.96%
IRF:BATF(IRF:bZIP)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	CTTTCANTATGACTV	1e0	-7.100e-01	0.9282	20.0	1.24%	542.5	1.22%
HOXB13(Homeobox)/ProstateTumor-HOXB13-ChIP-Seq(GSE56288)/Homer	TTTTATKRGG	1e0	-7.094e-01	0.9282	279.0	17.31%	7707.9	17.27%
Foxa2(Forkhead)/Liver-Foxa2-ChIP-Seq(GSE25694)/Homer	CYTGTTTACWYW	1e0	-7.068e-01	0.9282	142.0	8.81%	3917.8	8.78%
PU.1:IRF8(ETS:IRF)/pDC-Irf8-ChIP-Seq(GSE66899)/Homer	GGAAGTGAAAST	1e0	-7.030e-01	0.9282	23.0	1.43%	626.9	1.40%
Unknown-ESC-element(?)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	CACAGCAGGGGG	1e0	-6.902e-01	0.9286	20.0	1.24%	545.2	1.22%
ZNF415(Zf)/HEK293-ZNF415.GFP-ChIP-Seq(GSE58341)/Homer	GRTGMTRGAGCC	1e0	-6.889e-01	0.9286	34.0	2.11%	933.1	2.09%
ZNF675(Zf)/HEK293-ZNF675.GFP-ChIP-Seq(GSE58341)/Homer	ARGAGGMCAAAATGW	1e0	-6.700e-01	0.9385	16.0	0.99%	437.9	0.98%
GSC(Homeobox)/FrogEmbryos-GSC-ChIP-Seq(DRA000576)/Homer	RGGATTAR	1e0	-6.679e-01	0.9385	231.0	14.33%	6399.8	14.34%
LIN-39(Homeobox)/cElegans.L3-LIN39-ChIP-Seq(modEncode)/Homer	ATGATTRATG	1e0	-6.563e-01	0.9426	315.0	19.54%	8733.4	19.56%
Initiator/Drosophila-Promoters/Homer	NTCAGTYG	1e0	-6.485e-01	0.9455	299.0	18.55%	8294.2	18.58%
Nur77(NR)/K562-NR4A1-ChIP-Seq(GSE31363)/Homer	TGACCTTTNCNT	1e0	-6.466e-01	0.9455	26.0	1.61%	719.7	1.61%
ERE(NR),IR3/MCF7-ERa-ChIP-Seq(Unpublished)/Homer	VAGGTCACNSTGACC	1e0	-6.443e-01	0.9455	12.0	0.74%	329.4	0.74%
GATA3(Zf),DR4/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATGKDGAGATAAG	1e0	-6.426e-01	0.9455	15.0	0.93%	413.5	0.93%
Bach1(bZIP)/K562-Bach1-ChIP-Seq(GSE31477)/Homer	AWWNTGCTGAGTCAT	1e0	-6.424e-01	0.9455	3.0	0.19%	77.3	0.17%
GABPA(ETS)/Jurkat-GABPa-ChIP-Seq(GSE17954)/Homer	RACCGGAAGT	1e0	-6.251e-01	0.9457	96.0	5.96%	2672.1	5.99%
ZSCAN22(Zf)/HEK293-ZSCAN22.GFP-ChIP-Seq(GSE58341)/Homer	SMCAGTCWGAKGGAGGAGGC	1e0	-6.010e-01	0.9644	1.0	0.06%	22.9	0.05%
PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer	ADGGYAGYAGCATCT	1e0	-5.832e-01	0.9774	58.0	3.60%	1627.5	3.65%
EFL-1(E2F)/cElegans-L1-EFL1-ChIP-Seq(modEncode)/Homer	TGCAARYGCGCTCYA	1e0	-5.798e-01	0.9774	2.0	0.12%	52.6	0.12%
ZNF189(Zf)/HEK293-ZNF189.GFP-ChIP-Seq(GSE58341)/Homer	TGGAACAGMA	1e0	-5.580e-01	0.9933	79.0	4.90%	2222.3	4.98%
PR(NR)/T47D-PR-ChIP-Seq(GSE31130)/Homer	VAGRACAKNCTGTBC	1e0	-5.565e-01	0.9933	234.0	14.52%	6542.5	14.66%
Brn2(POU,Homeobox)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATATTC	1e0	-5.555e-01	0.9933	22.0	1.36%	624.4	1.40%
TEAD4(TEA)/Tropoblast-Tead4-ChIP-Seq(GSE37350)/Homer	CCWGGAATGY	1e0	-5.554e-01	0.9933	95.0	5.89%	2670.5	5.98%
PAX5(Paired,Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GCAGCCAAGCRTGACH	1e0	-5.437e-01	0.9933	21.0	1.30%	598.4	1.34%
HIF-1a(bHLH)/MCF7-HIF1a-ChIP-Seq(GSE28352)/Homer	TACGTGCV	1e0	-5.401e-01	0.9933	56.0	3.47%	1584.8	3.55%
AARE(HLH)/mES-cMyc-ChIP-Seq/Homer	GATTGCATCA	1e0	-5.385e-01	0.9933	21.0	1.30%	600.0	1.34%
NFAT(RHD)/Jurkat-NFATC1-ChIP-Seq(Jolma_et_al.)/Homer	ATTTTCCATT	1e0	-5.308e-01	0.9933	186.0	11.54%	5220.2	11.69%
EWS:ERG-fusion(ETS)/CADO_ES1-EWS:ERG-ChIP-Seq(SRA014231)/Homer	ATTTCCTGTN	1e0	-5.303e-01	0.9933	87.0	5.40%	2456.9	5.50%
ELF5(ETS)/T47D-ELF5-ChIP-Seq(GSE30407)/Homer	ACVAGGAAGT	1e0	-5.298e-01	0.9933	98.0	6.08%	2764.7	6.19%
E2A(bHLH)/proBcell-E2A-ChIP-Seq(GSE21978)/Homer	DNRCAGCTGY	1e0	-5.225e-01	0.9933	86.0	5.33%	2432.0	5.45%
STAT6(Stat)/CD4-Stat6-ChIP-Seq(GSE22104)/Homer	ABTTCYYRRGAA	1e0	-5.152e-01	0.9933	97.0	6.02%	2742.2	6.14%
Six1(Homeobox)/Myoblast-Six1-ChIP-Chip(GSE20150)/Homer	GKVTCADRTTWC	1e0	-5.146e-01	0.9933	34.0	2.11%	972.8	2.18%
ETS:RUNX(ETS,Runt)/Jurkat-RUNX1-ChIP-Seq(GSE17954)/Homer	RCAGGATGTGGT	1e0	-5.062e-01	0.9933	4.0	0.25%	116.7	0.26%
Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq(GSE22178)/Homer	MAATCACTGC	1e0	-5.051e-01	0.9933	63.0	3.91%	1792.7	4.02%
YY1(Zf)/Promoter/Homer	CAAGATGGCGGC	1e0	-5.045e-01	0.9933	7.0	0.43%	204.2	0.46%
Erra(NR)/HepG2-Erra-ChIP-Seq(GSE31477)/Homer	CAAAGGTCAG	1e0	-5.042e-01	0.9933	157.0	9.74%	4425.6	9.91%
NRF(NRF)/Promoter/Homer	STGCGCATGCGC	1e0	-4.970e-01	0.9933	9.0	0.56%	264.0	0.59%
Chop(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	ATTGCATCAT	1e0	-4.900e-01	0.9933	51.0	3.16%	1459.9	3.27%
MyoG(bHLH)/C2C12-MyoG-ChIP-Seq(GSE36024)/Homer	AACAGCTG	1e0	-4.871e-01	0.9933	56.0	3.47%	1601.0	3.59%
SOC1(MADS)/Seedling-SOC1-ChIP-Seq(GSE45846)/Homer	TWCCAWWTWTGG	1e0	-4.822e-01	0.9933	97.0	6.02%	2756.3	6.17%
ZBTB18(Zf)/HEK293-ZBTB18.GFP-ChIP-Seq(GSE58341)/Homer	AACATCTGGA	1e0	-4.814e-01	0.9933	30.0	1.86%	867.7	1.94%
Bcl6(Zf)/Liver-Bcl6-ChIP-Seq(GSE31578)/Homer	NNNCTTTCCAGGAAA	1e0	-4.634e-01	0.9938	152.0	9.43%	4307.1	9.65%
STAT6(Stat)/Macrophage-Stat6-ChIP-Seq(GSE38377)/Homer	TTCCKNAGAA	1e0	-4.630e-01	0.9938	93.0	5.77%	2652.1	5.94%
HOXA2(Homeobox)/mES-Hoxa2-ChIP-Seq(Donaldson_et_al.)/Homer	GYCATCMATCAT	1e0	-4.499e-01	0.9991	18.0	1.12%	531.0	1.19%
FOXA1(Forkhead)/MCF7-FOXA1-ChIP-Seq(GSE26831)/Homer	WAAGTAAACA	1e0	-4.267e-01	1.0000	189.0	11.72%	5365.8	12.02%
FOXA1(Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WAAGTAAACA	1e0	-4.230e-01	1.0000	228.0	14.14%	6459.7	14.47%
ETS1(ETS)/Jurkat-ETS1-ChIP-Seq(GSE17954)/Homer	ACAGGAAGTG	1e0	-4.213e-01	1.0000	103.0	6.39%	2953.4	6.62%
LXRE(NR),DR4/RAW-LXRb.biotin-ChIP-Seq(GSE21512)/Homer	RGGTTACTANAGGTCA	1e0	-4.163e-01	1.0000	3.0	0.19%	94.1	0.21%
Tbx5(T-box)/HL1-Tbx5.biotin-ChIP-Seq(GSE21529)/Homer	AGGTGTCA	1e0	-4.162e-01	1.0000	378.0	23.45%	10651.9	23.86%
TCFL2(HMG)/K562-TCF7L2-ChIP-Seq(GSE29196)/Homer	ACWTCAAAGG	1e0	-4.139e-01	1.0000	13.0	0.81%	393.3	0.88%
OCT:OCT(POU,Homeobox)/NPC-Brn1-ChIP-Seq(GSE35496)/Homer	ATGAATATTCATGAG	1e0	-4.130e-01	1.0000	1.0	0.06%	30.1	0.07%
Gata1(Zf)/K562-GATA1-ChIP-Seq(GSE18829)/Homer	SAGATAAGRV	1e0	-4.117e-01	1.0000	115.0	7.13%	3296.1	7.38%
Mef2a(MADS)/HL1-Mef2a.biotin-ChIP-Seq(GSE21529)/Homer	CYAAAAATAG	1e0	-3.995e-01	1.0000	84.0	5.21%	2427.9	5.44%
Etv2(ETS)/ES-ER71-ChIP-Seq(GSE59402)/Homer(0.967)	NNAYTTCCTGHN	1e0	-3.897e-01	1.0000	82.0	5.09%	2375.2	5.32%
GLI3(Zf)/Limb-GLI3-ChIP-Chip(GSE11077)/Homer	CGTGGGTGGTCC	1e0	-3.867e-01	1.0000	5.0	0.31%	159.2	0.36%
Cdx2(Homeobox)/mES-Cdx2-ChIP-Seq(GSE14586)/Homer	GYMATAAAAH	1e0	-3.675e-01	1.0000	188.0	11.66%	5377.6	12.05%
T1ISRE(IRF)/ThioMac-Ifnb-Expression/Homer	ACTTTCGTTTCT	1e0	-3.624e-01	1.0000	2.0	0.12%	67.0	0.15%
CArG(MADS)/PUER-Srf-ChIP-Seq(Sullivan_et_al.)/Homer	CCATATATGGNM	1e0	-3.614e-01	1.0000	56.0	3.47%	1648.2	3.69%
TEAD2(TEA)/Py2T-Tead2-ChIP-Seq(GSE55709)/Homer	CCWGGAATGY	1e0	-3.614e-01	1.0000	48.0	2.98%	1419.3	3.18%
Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer	BAACAGCTGT	1e0	-3.468e-01	1.0000	37.0	2.30%	1108.9	2.48%
CTCF-SatelliteElement(Zf?)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	TGCAGTTCCMVNWRTGGCCA	1e0	-3.465e-01	1.0000	1.0	0.06%	34.8	0.08%
Lhx1(Homeobox)/EmbryoCarcinoma-Lhx1-ChIP-Seq(GSE70957)/Homer	NNYTAATTAR	1e0	-3.444e-01	1.0000	265.0	16.44%	7556.1	16.93%
PCF/Arabidopsis-Promoters/Homer	NNWWWTGGGCYTDDN	1e0	-3.412e-01	1.0000	44.0	2.73%	1312.3	2.94%
ZBTB12(Zf)/HEK293-ZBTB12.GFP-ChIP-Seq(GSE58341)/Homer	NGNTCTAGAACCNGV	1e0	-3.389e-01	1.0000	31.0	1.92%	937.0	2.10%
Unknown4/Drosophila-Promoters/Homer	AAAAATACCRMA	1e0	-3.366e-01	1.0000	43.0	2.67%	1285.4	2.88%
SpiB(ETS)/OCILY3-SPIB-ChIP-Seq(GSE56857)/Homer	AAAGRGGAAGTG	1e0	-3.365e-01	1.0000	25.0	1.55%	763.8	1.71%
FoxL2(Forkhead)/Ovary-FoxL2-ChIP-Seq(GSE60858)/Homer	WWTRTAAACAVG	1e0	-3.340e-01	1.0000	189.0	11.72%	5430.9	12.17%
OCT4-SOX2-TCF-NANOG(POU,Homeobox,HMG)/mES-Oct4-ChIP-Seq(GSE11431)/Homer	ATTTGCATAACAATG	1e0	-3.333e-01	1.0000	35.0	2.17%	1055.3	2.36%
Lhx3(Homeobox)/Neuron-Lhx3-ChIP-Seq(GSE31456)/Homer	ADBTAATTAR	1e0	-3.260e-01	1.0000	418.0	25.93%	11852.5	26.55%
NF1-halfsite(CTF)/LNCaP-NF1-ChIP-Seq(Unpublished)/Homer	YTGCCAAG	1e0	-3.192e-01	1.0000	191.0	11.85%	5498.1	12.32%
GATA3(Zf),DR8/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATSTNDNNDSAGATAASN	1e0	-3.153e-01	1.0000	12.0	0.74%	384.3	0.86%
Reverb(NR),DR2/RAW-Reverba.biotin-ChIP-Seq(GSE45914)/Homer	GTRGGTCASTGGGTCA	1e0	-3.146e-01	1.0000	3.0	0.19%	105.6	0.24%
E2A(bHLH),near_PU.1/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer	NVCACCTGBN	1e0	-3.134e-01	1.0000	97.0	6.02%	2842.7	6.37%
Nkx2.1(Homeobox)/LungAC-Nkx2.1-ChIP-Seq(GSE43252)/Homer	RSCACTYRAG	1e0	-3.119e-01	1.0000	344.0	21.34%	9799.6	21.95%
Eomes(T-box)/H9-Eomes-ChIP-Seq(GSE26097)/Homer	ATTAACACCT	1e0	-3.091e-01	1.0000	332.0	20.60%	9466.6	21.21%
Fox:Ebox(Forkhead,bHLH)/Panc1-Foxa2-ChIP-Seq(GSE47459)/Homer	NNNVCTGWGYAAACASN	1e0	-3.033e-01	1.0000	105.0	6.51%	3077.0	6.89%
Oct2(POU,Homeobox)/Bcell-Oct2-ChIP-Seq(GSE21512)/Homer	ATATGCAAAT	1e0	-2.946e-01	1.0000	59.0	3.66%	1765.6	3.96%
GEI-11(Myb?)/cElegans-L4-GEI11-ChIP-Seq(modEncode)/Homer	CCGACAYYTYACGGG	1e0	-2.914e-01	1.0000	3.0	0.19%	108.7	0.24%
Zelda(Zf)/Embryo-zld-ChIP-Seq(GSE65441)/Homer	KBCTACCTGW	1e0	-2.846e-01	1.0000	43.0	2.67%	1307.4	2.93%
ZNF264(Zf)/HEK293-ZNF264.GFP-ChIP-Seq(GSE58341)/Homer	RGGGCACTAACY	1e0	-2.803e-01	1.0000	67.0	4.16%	2003.0	4.49%
PRDM14(Zf)/H1-PRDM14-ChIP-Seq(GSE22767)/Homer	RGGTCTCTAACY	1e0	-2.741e-01	1.0000	27.0	1.67%	843.4	1.89%
caudal(Homeobox)/Drosophila-Embryos-ChIP-Chip(modEncode)/Homer	GGYCATAAAW	1e0	-2.620e-01	1.0000	226.0	14.02%	6536.8	14.64%
GATA(Zf),IR3/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	NNNNNBAGATAWYATCTVHN	1e0	-2.595e-01	1.0000	22.0	1.36%	700.9	1.57%
Sp1(Zf)/Promoter/Homer	GGCCCCGCCCCC	1e0	-2.535e-01	1.0000	4.0	0.25%	147.6	0.33%
SPDEF(ETS)/VCaP-SPDEF-ChIP-Seq(SRA014231)/Homer	ASWTCCTGBT	1e0	-2.508e-01	1.0000	111.0	6.89%	3285.0	7.36%
Tbx20(T-box)/Heart-Tbx20-ChIP-Seq(GSE29636)/Homer	GGTGYTGACAGS	1e0	-2.428e-01	1.0000	19.0	1.18%	616.1	1.38%
KANADI1(Myb)/Seedling-KAN1-ChIP-Seq(GSE48081)/Homer	ARGAATAWWN	1e0	-2.336e-01	1.0000	372.0	23.08%	10675.0	23.91%
RAR:RXR(NR),DR5/ES-RAR-ChIP-Seq(GSE56893)/Homer	AGGTCAAGGTCA	1e0	-2.324e-01	1.0000	5.0	0.31%	184.4	0.41%
Unknown6/Drosophila-Promoters/Homer	AATTTTAAAA	1e0	-2.315e-01	1.0000	205.0	12.72%	5974.7	13.38%
CEBP(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer	ATTGCGCAAC	1e0	-2.294e-01	1.0000	184.0	11.41%	5381.5	12.05%
NeuroD1(bHLH)/Islet-NeuroD1-ChIP-Seq(GSE30298)/Homer	GCCATCTGTT	1e0	-2.242e-01	1.0000	49.0	3.04%	1513.3	3.39%
HIF2a(bHLH)/785_O-HIF2a-ChIP-Seq(GSE34871)/Homer	GCACGTACCC	1e0	-2.194e-01	1.0000	81.0	5.02%	2446.9	5.48%
AP-2alpha(AP2)/Hela-AP2alpha-ChIP-Seq(GSE31477)/Homer	ATGCCCTGAGGC	1e0	-2.174e-01	1.0000	16.0	0.99%	534.5	1.20%
Otx2(Homeobox)/EpiLC-Otx2-ChIP-Seq(GSE56098)/Homer	NYTAATCCYB	1e0	-2.105e-01	1.0000	129.0	8.00%	3833.6	8.59%
EBF(EBF)/proBcell-EBF-ChIP-Seq(GSE21978)/Homer	DGTCCCYRGGGA	1e0	-2.065e-01	1.0000	4.0	0.25%	156.4	0.35%
Nkx2.5(Homeobox)/HL1-Nkx2.5.biotin-ChIP-Seq(GSE21529)/Homer	RRSCACTYAA	1e0	-2.036e-01	1.0000	256.0	15.88%	7449.9	16.69%
Nanog(Homeobox)/mES-Nanog-ChIP-Seq(GSE11724)/Homer	RGCCATTAAC	1e0	-2.026e-01	1.0000	807.0	50.06%	22836.9	51.16%
NFkB-p65(RHD)/GM12787-p65-ChIP-Seq(GSE19485)/Homer	WGGGGATTTCCC	1e0	-1.976e-01	1.0000	36.0	2.23%	1145.1	2.57%
IRF2(IRF)/Erythroblas-IRF2-ChIP-Seq(GSE36985)/Homer	GAAASYGAAASY	1e0	-1.965e-01	1.0000	15.0	0.93%	512.0	1.15%
CES-1(Homeobox)/cElegans-L1-CES1-ChIP-Seq(modEncode)/Homer	AAATTSAATTTN	1e0	-1.902e-01	1.0000	143.0	8.87%	4254.6	9.53%
CEBP:CEBP(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer	NTNATGCAAYMNNHTGMAAY	1e0	-1.876e-01	1.0000	23.0	1.43%	760.4	1.70%
Unknown2/Drosophila-Promoters/Homer	CATCMCTA	1e0	-1.875e-01	1.0000	101.0	6.27%	3051.0	6.83%
PQM-1(?)/cElegans-L3-ChIP-Seq(modEncode)/Homer	ACTGATAAGA	1e0	-1.817e-01	1.0000	95.0	5.89%	2882.6	6.46%
Foxh1(Forkhead)/hESC-FOXH1-ChIP-Seq(GSE29422)/Homer	NNTGTGGATTSS	1e0	-1.769e-01	1.0000	102.0	6.33%	3089.7	6.92%
Pitx1(Homeobox)/Chicken-Pitx1-ChIP-Seq(GSE38910)/Homer	TAATCCCN	1e0	-1.676e-01	1.0000	779.0	48.33%	22126.0	49.56%
RUNX(Runt)/HPC7-Runx1-ChIP-Seq(GSE22178)/Homer	SAAACCACAG	1e0	-1.661e-01	1.0000	70.0	4.34%	2169.8	4.86%
MafF(bZIP)/HepG2-MafF-ChIP-Seq(GSE31477)/Homer	HWWGTCAGCAWWTTT	1e0	-1.560e-01	1.0000	45.0	2.79%	1440.6	3.23%
NFkB-p50,p52(RHD)/Monocyte-p50-ChIP-Chip(Schreiber_et_al.)/Homer	GGGGGAATCCCC	1e0	-1.545e-01	1.0000	2.0	0.12%	96.0	0.22%
MYB(HTH)/ERMYB-Myb-ChIPSeq(GSE22095)/Homer	GGCVGTTR	1e0	-1.498e-01	1.0000	415.0	25.74%	12014.0	26.91%
Pax8(Paired,Homeobox)/Thyroid-Pax8-ChIP-Seq(GSE26938)/Homer	GTCATGCHTGRCTGS	1e0	-1.495e-01	1.0000	9.0	0.56%	339.9	0.76%
GATA3(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer	AGATAASR	1e0	-1.479e-01	1.0000	363.0	22.52%	10554.8	23.64%
MafK(bZIP)/C2C12-MafK-ChIP-Seq(GSE36030)/Homer	GCTGASTCAGCA	1e0	-1.446e-01	1.0000	8.0	0.50%	308.1	0.69%
IRF1(IRF)/PBMC-IRF1-ChIP-Seq(GSE43036)/Homer	GAAAGTGAAAGT	1e0	-1.362e-01	1.0000	19.0	1.18%	664.6	1.49%
Ascl1(bHLH)/NeuralTubes-Ascl1-ChIP-Seq(GSE55840)/Homer	NNVVCAGCTGBN	1e0	-1.338e-01	1.0000	89.0	5.52%	2757.1	6.18%
TEAD(TEA)/Fibroblast-PU.1-ChIP-Seq(Unpublished)/Homer	YCWGGAATGY	1e0	-1.286e-01	1.0000	79.0	4.90%	2471.0	5.54%
Ptf1a(bHLH)/Panc1-Ptf1a-ChIP-Seq(GSE47459)/Homer	ACAGCTGTTN	1e0	-1.278e-01	1.0000	184.0	11.41%	5510.8	12.34%
PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer	GSCTGTCACTCA	1e0	-1.263e-01	1.0000	1.0	0.06%	59.3	0.13%
EGL-5(Homeobox)/cElegans-L3-EGL5-ChIP-Seq(modEncode)/Homer	ATTTAATGGG	1e0	-1.207e-01	1.0000	343.0	21.28%	10044.4	22.50%
Znf263(Zf)/K562-Znf263-ChIP-Seq(GSE31477)/Homer	CVGTSCTCCC	1e0	-1.205e-01	1.0000	89.0	5.52%	2773.6	6.21%
RUNX-AML(Runt)/CD4+-PolII-ChIP-Seq(Barski_et_al.)/Homer	GCTGTGGTTW	1e0	-1.193e-01	1.0000	57.0	3.54%	1830.7	4.10%
Pax7(Paired,Homeobox),longest/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	NTAATTDGCYAATTANNWWD	1e0	-1.181e-01	1.0000	4.0	0.25%	180.5	0.40%
OCT:OCT(POU,Homeobox,IR1)/NPC-Brn2-ChIP-Seq(GSE35496)/Homer	ATGAATWATTCATGA	1e0	-1.147e-01	1.0000	3.0	0.19%	144.2	0.32%
Nr5a2(NR)/mES-Nr5a2-ChIP-Seq(GSE19019)/Homer	BTCAAGGTCA	1e0	-1.133e-01	1.0000	38.0	2.36%	1265.2	2.83%
Unknown5/Drosophila-Promoters/Homer	GCTGATAASV	1e0	-1.128e-01	1.0000	121.0	7.51%	3717.8	8.33%
EHF(ETS)/LoVo-EHF-ChIP-Seq(GSE49402)/Homer	AVCAGGAAGT	1e0	-1.110e-01	1.0000	162.0	10.05%	4906.2	10.99%
GFY(?)/Promoter/Homer	ACTACAATTCCC	1e0	-1.107e-01	1.0000	2.0	0.12%	106.3	0.24%
RBPJ:Ebox(?,bHLH)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer	GGGRAARRGRMCAGMTG	1e0	-1.105e-01	1.0000	11.0	0.68%	423.2	0.95%
Atoh1(bHLH)/Cerebellum-Atoh1-ChIP-Seq(GSE22111)/Homer	VNRVCAGCTGGY	1e0	-1.054e-01	1.0000	68.0	4.22%	2173.3	4.87%
SeqBias: A/T bias	WWWWWWWWWW	1e0	-1.025e-01	1.0000	1588.0	98.51%	44120.7	98.83%
HNF6(Homeobox)/Liver-Hnf6-ChIP-Seq(ERP000394)/Homer	NTATYGATCH	1e0	-1.004e-01	1.0000	180.0	11.17%	5444.8	12.20%
AP-2gamma(AP2)/MCF7-TFAP2C-ChIP-Seq(GSE21234)/Homer	SCCTSAGGSCAW	1e0	-9.977e-02	1.0000	24.0	1.49%	846.3	1.90%
STAT4(Stat)/CD4-Stat4-ChIP-Seq(GSE22104)/Homer	NYTTCCWGGAAR	1e0	-9.746e-02	1.0000	136.0	8.44%	4178.8	9.36%
Tcf4(HMG)/Hct116-Tcf4-ChIP-Seq(SRA012054)/Homer	ASATCAAAGGVA	1e0	-9.377e-02	1.0000	73.0	4.53%	2337.3	5.24%
Gata2(Zf)/K562-GATA2-ChIP-Seq(GSE18829)/Homer	BBCTTATCTS	1e0	-8.754e-02	1.0000	124.0	7.69%	3847.8	8.62%
ETS(ETS)/Promoter/Homer	AACCGGAAGT	1e0	-8.716e-02	1.0000	31.0	1.92%	1076.9	2.41%
PAX3:FKHR-fusion(Paired,Homeobox)/Rh4-PAX3:FKHR-ChIP-Seq(GSE19063)/Homer	ACCRTGACTAATTNN	1e0	-7.990e-02	1.0000	35.0	2.17%	1208.8	2.71%
PAX5(Paired,Homeobox),condensed/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer	GTCACGCTCSCTGM	1e0	-7.566e-02	1.0000	5.0	0.31%	236.5	0.53%
Pax7(Paired,Homeobox)/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCAATTA	1e0	-7.105e-02	1.0000	20.0	1.24%	746.3	1.67%
Pax7(Paired,Homeobox),long/Myoblast-Pax7-ChIP-Seq(GSE25064)/Homer	TAATCHGATTAC	1e0	-6.926e-02	1.0000	3.0	0.19%	163.1	0.37%
RUNX2(Runt)/PCa-RUNX2-ChIP-Seq(GSE33889)/Homer	NWAACCACADNN	1e0	-6.827e-02	1.0000	77.0	4.78%	2498.4	5.60%
ZNF382(Zf)/HEK293-ZNF382.GFP-ChIP-Seq(GSE58341)/Homer	GNCTGTASTRNTGBCTCHTT	1e0	-6.629e-02	1.0000	1.0	0.06%	76.3	0.17%
Nkx2.2(Homeobox)/NPC-Nkx2.2-ChIP-Seq(GSE61673)/Homer	BTBRAGTGSN	1e0	-6.341e-02	1.0000	204.0	12.66%	6225.1	13.94%
Unknown3/Drosophila-Promoters/Homer	ACVAKCTGGCAGCGC	1e0	-6.053e-02	1.0000	3.0	0.19%	168.5	0.38%
Gata4(Zf)/Heart-Gata4-ChIP-Seq(GSE35151)/Homer	NBWGATAAGR	1e0	-5.999e-02	1.0000	220.0	13.65%	6697.2	15.00%
Ap4(bHLH)/AML-Tfap4-ChIP-Seq(GSE45738)/Homer	NAHCAGCTGD	1e0	-5.612e-02	1.0000	57.0	3.54%	1919.0	4.30%
ZNF692(Zf)/HEK293-ZNF692.GFP-ChIP-Seq(GSE58341)/Homer	GTGGGCCCCA	1e0	-5.582e-02	1.0000	3.0	0.19%	171.8	0.38%
Unknown2/Arabidopsis-Promoters/Homer	AAACGACGTCGTTTT	1e0	-5.491e-02	1.0000	2.0	0.12%	129.3	0.29%
HNF4a(NR),DR1/HepG2-HNF4a-ChIP-Seq(GSE25021)/Homer	CARRGKBCAAAGTYCA	1e0	-5.158e-02	1.0000	23.0	1.43%	867.3	1.94%
Tcfcp2l1(CP2)/mES-Tcfcp2l1-ChIP-Seq(GSE11431)/Homer	NRAACCRGTTYRAACCRGYT	1e0	-3.798e-02	1.0000	5.0	0.31%	267.0	0.60%
Nr5a2(NR)/Pancreas-LRH1-ChIP-Seq(GSE34295)/Homer	BTCAAGGTCA	1e0	-3.691e-02	1.0000	54.0	3.35%	1872.5	4.19%
BMYB(HTH)/Hela-BMYB-ChIP-Seq(GSE27030)/Homer	NHAACBGYYV	1e0	-3.666e-02	1.0000	312.0	19.35%	9437.7	21.14%
 Ik-1	NHTTGGGAATRCC	1e0	-3.611e-02	1.0000	1612.0	100.00%	44641.8	100.00%
Tal1	CATCTG	1e0	-2.692e-02	1.0000	125.0	7.75%	4056.0	9.09%
Tcf21(bHLH)/ArterySmoothMuscle-Tcf21-ChIP-Seq(GSE61369)/Homer	NAACAGCTGG	1e0	-2.375e-02	1.0000	42.0	2.61%	1539.0	3.45%
NF1:FOXA1(CTF,Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer	WNTGTTTRYTTTGGCA	1e0	-2.312e-02	1.0000	3.0	0.19%	203.7	0.46%
CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer	AYAGTGCCMYCTRGTGGCCA	1e0	-2.035e-02	1.0000	1.0	0.06%	108.5	0.24%
GRHL2(CP2)/HBE-GRHL2-ChIP-Seq(GSE46194)/Homer	AAACYKGTTWDACMRGTTTB	1e0	-1.743e-02	1.0000	36.0	2.23%	1373.4	3.08%
AMYB(HTH)/Testes-AMYB-ChIP-Seq(GSE44588)/Homer	TGGCAGTTGG	1e0	-1.699e-02	1.0000	258.0	16.00%	8027.4	17.98%
Olig2(bHLH)/Neuron-Olig2-ChIP-Seq(GSE30882)/Homer	RCCATMTGTT	1e0	-1.645e-02	1.0000	200.0	12.41%	6342.9	14.21%
Zfp809(Zf)/ES-Zfp809-ChIP-Seq(GSE70799)/Homer	GGGGCTYGKCTGGGA	1e0	-1.635e-02	1.0000	1.0	0.06%	114.0	0.26%
DREF/Drosophila-Promoters/Homer	AVYTATCGATAD	1e0	-1.607e-02	1.0000	9.0	0.56%	458.9	1.03%
NFY(CCAAT)/Promoter/Homer	RGCCAATSRG	1e0	-1.252e-02	1.0000	145.0	9.00%	4756.6	10.65%
ZNF136(Zf)/HEK293-ZNF136.GFP-ChIP-Seq(GSE58341)/Homer	YTKGATAHAGTATTCTWGGTNGGCA	1e0	-1.190e-02	1.0000	7.0	0.43%	395.1	0.89%
MyoD(bHLH)/Myotube-MyoD-ChIP-Seq(GSE21614)/Homer	RRCAGCTGYTSY	1e0	-1.135e-02	1.0000	36.0	2.23%	1407.6	3.15%
Tcf3(HMG)/mES-Tcf3-ChIP-Seq(GSE11724)/Homer	ASWTCAAAGG	1e0	-5.798e-03	1.0000	34.0	2.11%	1391.9	3.12%
E-box/Drosophila-Promoters/Homer	AACAGCTGTTHN	1e0	-5.427e-03	1.0000	7.0	0.43%	429.1	0.96%
RUNX1(Runt)/Jurkat-RUNX1-ChIP-Seq(GSE29180)/Homer	AAACCACARM	1e0	-5.185e-03	1.0000	92.0	5.71%	3252.2	7.29%
IRF4(IRF)/GM12878-IRF4-ChIP-Seq(GSE32465)/Homer	ACTGAAACCA	1e0	-4.937e-03	1.0000	56.0	3.47%	2123.9	4.76%
Tcf12(bHLH)/GM12878-Tcf12-ChIP-Seq(GSE32465)/Homer	VCAGCTGYTG	1e0	-4.655e-03	1.0000	37.0	2.30%	1507.0	3.38%
Unknown4/Arabidopsis-Promoters/Homer	CKTCKTCTTY	1e0	-2.867e-03	1.0000	183.0	11.35%	6085.6	13.63%
Phox2a(Homeobox)/Neuron-Phox2a-ChIP-Seq(GSE31456)/Homer	YTAATYNRATTA	1e0	-1.160e-03	1.0000	73.0	4.53%	2793.4	6.26%
HLH-1(bHLH)/cElegans-Embryo-HLH1-ChIP-Seq(modEncode)/Homer	RACAGCTGTTBH	1e0	-9.330e-04	1.0000	57.0	3.54%	2290.3	5.13%
CHR(?)/Hela-CellCycle-Expression/Homer	SRGTTTCAAA	1e0	-9.500e-05	1.0000	122.0	7.57%	4573.7	10.25%
SCL(bHLH)/HPC7-Scl-ChIP-Seq(GSE13511)/Homer	AVCAGCTG	1e0	-6.000e-06	1.0000	371.0	23.01%	12410.3	27.80%
BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer	CNNBRGCGCCCCCTGSTGGC	1e0	0.000e+00	1.0000	0.0	0.00%	106.1	0.24%
EBNA1(EBV-virus)/Raji-EBNA1-ChIP-Seq(GSE30709)/Homer	GGYAGCAYDTGCTDCCCNNN	1e0	0.000e+00	1.0000	0.0	0.00%	24.8	0.06%
GFY-Staf(?,Zf)/Promoter/Homer	RACTACAATTCCCAGAAKGC	1e0	0.000e+00	1.0000	0.0	0.00%	39.3	0.09%
p53(p53)/mES-cMyc-ChIP-Seq(GSE11431)/Homer	ACATGCCCGGGCAT	1e0	0.000e+00	1.0000	0.0	0.00%	5.5	0.01%
RARg(NR)/ES-RARg-ChIP-Seq(GSE30538)/Homer	AGGTCAAGGTCA	1e0	0.000e+00	1.0000	0.0	0.00%	34.8	0.08%
REST-NRSF(Zf)/Jurkat-NRSF-ChIP-Seq/Homer	GGMGCTGTCCATGGTGCTGA	1e0	0.000e+00	1.0000	0.0	0.00%	1.6	0.00%
ZFP3(Zf)/HEK293-ZFP3.GFP-ChIP-Seq(GSE58341)/Homer	GGGTTTTGAAGGATGARTAGGAGTT	1e0	0.000e+00	1.0000	0.0	0.00%	1.0	0.00%
ZNF16(Zf)/HEK293-ZNF16.GFP-ChIP-Seq(GSE58341)/Homer	MACCTTCYATGGCTCCCTAKTGCCY	1e0	0.000e+00	1.0000	0.0	0.00%	1.2	0.00%
ZNF528(Zf)/HEK293-ZNF528.GFP-ChIP-Seq(GSE58341)/Homer	AGAAATGACTTCCCT	1e0	0.000e+00	1.0000	0.0	0.00%	15.9	0.04%
LIN-15B(Zf)/cElegans-L3-LIN15B-ChIP-Seq(modEncode)/Homer	CARTGGAGCGCRYTTGCATT	1e0	0.000e+00	1.0000	0.0	0.00%	18.1	0.04%