Chr	Start	End	Ref	Alt	Func.refGene	Gene.refGene	GeneDetail.refGene	ExonicFunc.refGene	AAChange.refGene	phastConsElements46way	genomicSuperDups	esp6500si_all	1000g2012apr_all	cosmic65	nci60	snp137	avsift	LJB_PhyloP	LJB_PhyloP_Pred	LJB_SIFT	LJB_SIFT_Pred	LJB_PolyPhen2	LJB_PolyPhen2_Pred	LJB_LRT	LJB_LRT_Pred	LJB_MutationTaster	LJB_MutationTaster_Pred	LJB_GERP++	tumor_ref	tumor_var	misRate_tumor	normal_ref	normal_var	misRate_normal	p-value(Fisher)	strandRatio_tumor	strandRatio_normal	tumor_realign(total,ref,alt,freq)	normal_realign(total,ref,alt,freq)	p-value(Realaign)	p-value(EBcall)
chr1	149906943	149906943	C	T	exonic	MTMR11		nonsynonymous SNV	MTMR11:NM_181873:exon4:c.G188A:p.G63D,MTMR11:NM_001145862:exon5:c.G404A:p.G135D	Score=573;Name=lod=283							0.12	0.999127	C	0.82	T	0.654	P	0.996915	N	0.686408	D	4.96	194	48	0.198	232	0	0.000	8.45888226549717836e-16	0.479	---	192,154,38,0.198	185,185,0,0.000	11.921	10.597
chr1	171509735	171509735	G	A	exonic	PRRC2C		nonsynonymous SNV	PRRC2C:NM_015172:exon16:c.G3124A:p.V1042I								0.01												237	41	0.147	243	0	0.000	1.68747909019632352e-12	0.659	---	238,201,36,0.152	216,216,0,0.000	10.714	14.875
chr2	1491666	1491666	C	T	exonic	TPO		synonymous SNV	TPO:NM_175722:exon8:c.C1152T:p.N384N,TPO:NM_175721:exon9:c.C1671T:p.N557N,TPO:NM_000547:exon10:c.C1671T:p.N557N,TPO:NM_001206744:exon10:c.C1671T:p.N557N			0.002845	0.0005	ID=COSM1399818;OCCURENCE=1(large_intestine)		rs145033652													213	33	0.134	290	0	0.000	1.9907238019893018e-12	0.697	---	183,157,25,0.137	211,211,0,0.000	8.770	6.824
chr2	21235428	21235428	T	A	exonic	APOB		nonsynonymous SNV	APOB:NM_000384:exon26:c.A4312T:p.S1438C	Score=265;Name=lod=16							0.07	0.997944	C	0.96	D	0.065	B	0.994501	N	0.001044	N	4.94	132	18	0.120	149	0	0.000	4.43740895065883727e-06	0.444	---	120,107,13,0.108	121,121,0,0.000	4.086	9.093
chr2	131976382	131976382	G	A	exonic	POTEE		nonsynonymous SNV	POTEE:NM_001083538:exon1:c.G407A:p.R136H		Score=0.985749;Name=chr2:130818815						0.13												461	54	0.105	452	0	0.000	4.42414070032001745e-16	0.407	---	440,391,48,0.109	385,385,0,0.000	13.646	3.498
chr2	152495897	152495897	C	T	exonic	NEB		nonsynonymous SNV	NEB:NM_001164507:exon63:c.G8891A:p.R2964H,NEB:NM_001164508:exon63:c.G8891A:p.R2964H,NEB:NM_001271208:exon63:c.G8891A:p.R2964H	Score=333;Name=lod=30							0.07												83	21	0.202	112	0	0.000	6.75184772886933828e-08	0.381	---	87,71,16,0.184	99,98,0,0.000	5.591	5.648
chr2	182766928	182766928	C	T	exonic	SSFA2		nonsynonymous SNV	SSFA2:NM_001130445:exon8:c.C1148T:p.A383V,SSFA2:NM_006751:exon8:c.C1148T:p.A383V	Score=336;Name=lod=31							0.12	0.984152	C	0.94	T	0.0	B	0.433952	N	0.074894	N	3.43	140	22	0.136	185	0	0.000	2.33729921578973476e-08	0.455	---	149,128,20,0.135	162,162,0,0.000	6.734	11.783
chr2	201477385	201477385	G	A	exonic	AOX1		synonymous SNV	AOX1:NM_001159:exon14:c.G1317A:p.A439A																				130	33	0.202	158	0	0.000	4.32681839122992073e-11	0.545	---	132,107,25,0.189	132,132,0,0.000	7.770	5.449
chr3	9974529	9974529	C	A	exonic	IL17RC		nonsynonymous SNV	IL17RC:NM_001203265:exon16:c.C1413A:p.D471E,IL17RC:NM_032732:exon17:c.C1464A:p.D488E,IL17RC:NM_153460:exon18:c.C1509A:p.D503E,IL17RC:NM_153461:exon18:c.C1722A:p.D574E	Score=378;Name=lod=46							0.03	0.90711	N	1.0	D	0.466	P	0.751709	N	5.04E-4	N	1.95	158	28	0.151	189	0	0.000	9.83423491327940071e-10	0.464	---	158,131,27,0.171	162,162,0,0.000	8.809	15.0
chr3	42916263	42916263	C	T	exonic	CYP8B1		nonsynonymous SNV	CYP8B1:NM_004391:exon1:c.G1046A:p.R349Q	Score=300;Name=lod=22				ID=COSM167931;OCCURENCE=1(large_intestine)			0	0.998404	C	1.0	D	1.0	D	0.99995	D	0.260641	N	4.92	207	36	0.148	249	1	0.004	4.64992132059268313e-11	0.500	1.000	197,167,30,0.152	221,220,1,0.005	9.092	10.005
chr3	128991720	128991720	T	A	exonic	COPG1		nonsynonymous SNV	COPG1:NM_016128:exon21:c.T2229A:p.D743E	Score=333;Name=lod=30							0.35	0.025467	N	0.98	D	0.0030	B	1.0	D	0.306089	N	-4.21	76	12	0.136	84	0	0.000	0.000336830700877399946	0.500	---	65,56,9,0.138	64,64,0,0.000	2.537	7.54
chr3	178936091	178936091	G	A	exonic	PIK3CA		nonsynonymous SNV	PIK3CA:NM_006218:exon10:c.G1633A:p.E545K	Score=549;Name=lod=228	Score=0.979452;Name=chr22:17049389			ID=COSM763,COSM125370;OCCURENCE=25(ovary),301(breast),1(NS),4(penis),1(haematopoietic_and_lymphoid_tissue),18(stomach),2(kidney),2(soft_tissue),103(urinary_tract),2(pancreas),8(oesophagus),1(pituitary),14(skin),18(lung),24(cervix),5(thyroid),14(upper_aerodigestive_tract),288(large_intestine),11(central_nervous_system),1(biliary_tract),38(endometrium)	0.025	rs104886003	0	0.999704	C	0.958467	NA	0.997	D	1.0	D	0.999985	D	5.43	54	16	0.229	72	0	0.000	4.56684183980268334e-06	0.438	---	57,44,13,0.228	63,63,0,0.000	4.554	12.185
chr4	5624286	5624286	G	A	exonic	EVC2		nonsynonymous SNV	EVC2:NM_001166136:exon14:c.C2239T:p.R747C,EVC2:NM_147127:exon14:c.C2479T:p.R827C	Score=369;Name=lod=42		0.000231					0.07	0.990985	C	0.94	T	0.928	D	0.999768	D	0.007893	N	2.24	206	24	0.104	263	0	0.000	5.75924576305599555e-09	0.667	---	200,179,21,0.105	222,222,0,0.000	7.063	6.484
chr4	119626803	119626803	G	A	exonic	METTL14		nonsynonymous SNV	METTL14:NM_020961:exon10:c.G893A:p.R298H	Score=423;Name=lod=70				ID=COSM1162408;OCCURENCE=1(pancreas)			0	0.994179	C	1.0	D	1.0	D	1.0	D	0.999969	D	4.6	120	20	0.143	150	0	0.000	2.22277159945920022e-07	0.650	---	109,92,17,0.156	128,126,0,0.000	5.986	13.256
chr5	13902245	13902245	G	A	exonic	DNAH5		synonymous SNV	DNAH5:NM_001369:exon13:c.C1647T:p.N549N	Score=457;Name=lod=96																			73	13	0.151	74	0	0.000	0.000222429884129776204	0.385	---	64,54,10,0.156	61,61,0,0.000	2.866	7.539
chr5	112174682	112174682	C	T	exonic	APC		stopgain	APC:NM_001127511:exon14:c.C3337T:p.Q1113X,APC:NM_000038:exon16:c.C3391T:p.Q1131X,APC:NM_001127510:exon17:c.C3391T:p.Q1131X	Score=678;Name=lod=758				ID=COSM13868;OCCURENCE=2(large_intestine)			0.1	0.999058	C	0.903797	NA	0.735364	NA	0.999769	D	1.0	D	5.41	158	33	0.173	201	0	0.000	1.05289100462680959e-11	0.485	---	152,127,25,0.164	164,164,0,0.000	8.430	14.875
chr5	140627367	140627367	G	A	exonic	PCDHB15		nonsynonymous SNV	PCDHB15:NM_018935:exon1:c.G2221A:p.G741S		Score=0.952865;Name=chr5:140475604						0.1	0.914696	N	0.97	D	0.0040	B	0.858603	NA	0.353995	N	0.944	579	110	0.160	682	2	0.003	2.71158134501272015e-32	0.318	0.500	577,484,93,0.161	581,579,1,0.002	28.138	13.75
chr5	140774548	140774548	G	A	exonic	PCDHGA8		nonsynonymous SNV	PCDHGA8:NM_014004:exon1:c.G2168A:p.R723H,PCDHGA8:NM_032088:exon1:c.G2168A:p.R723H								0.09												319	41	0.114	359	0	0.000	2.71891946974563508e-13	0.390	---	303,268,35,0.116	316,316,0,0.000	11.320	13.872
chr6	123319069	123319069	G	A	exonic	CLVS2		synonymous SNV	CLVS2:NM_001010852:exon2:c.G147A:p.T49T						0.0082														166	22	0.117	227	0	0.000	1.33420230135431802e-08	0.545	---	161,141,20,0.124	193,193,0,0.000	7.141	7.054
chr7	37905160	37905160	C	A	exonic	NME8		nonsynonymous SNV	NME8:NM_016616:exon10:c.C562A:p.H188N								0.03	0.86635	N	0.95	T	0.157	P	0.503856	N	3.0E-4	N	0.833	62	7	0.101	102	0	0.000	0.00144032699441855765	0.714	---	52,46,6,0.115	78,78,0,0.000	2.467	4.772
chr8	77767843	77767843	G	A	exonic	ZFHX4		nonsynonymous SNV	ZFHX4:NM_024721:exon10:c.G8686A:p.A2896T	Score=511;Name=lod=159							0.59												302	40	0.117	373	0	0.000	4.37074733789800665e-14	0.500	---	293,257,36,0.123	319,319,0,0.000	12.034	60
chr9	136277453	136277453	C	T	exonic	REXO4		synonymous SNV	REXO4:NM_020385:exon4:c.G876A:p.A292A																				126	14	0.100	154	0	0.000	2.15591419728426607e-05	0.643	---	122,109,13,0.107	133,132,0,0.000	4.292	5.471
chr9	139990809	139990809	C	T	exonic	MAN1B1		nonsynonymous SNV	MAN1B1:NM_016219:exon4:c.C586T:p.R196C			0.000077					0	0.088709	N	1.0	D	0.699	P	0.010478	U	3.91E-4	N	-7.31	159	27	0.145	192	0	0.000	1.72227417941314273e-09	0.407	---	156,136,20,0.128	153,153,0,0.000	5.996	10.724
chr10	87615842	87615842	G	A	exonic	GRID1		nonsynonymous SNV	GRID1:NM_017551:exon7:c.C1057T:p.R353W	Score=529;Name=lod=188							0	0.999472	C	1.0	D	0.999	D	1.0	D	0.996371	D	3.66	113	19	0.144	144	0	0.000	3.9630012596758137e-07	0.474	---	100,81,19,0.190	115,115,0,0.000	6.754	8.565
chr10	114920401	114920401	C	T	exonic	TCF7L2		nonsynonymous SNV	TCF7L2:NM_001198526:exon12:c.C1273T:p.R425W,TCF7L2:NM_001146274:exon13:c.C1342T:p.R448W,TCF7L2:NM_001198525:exon14:c.C1412T:p.S471L	Score=709;Name=lod=1013				ID=COSM1345848;OCCURENCE=1(large_intestine)			0												146	17	0.104	156	0	0.000	1.04457224473381363e-05	0.588	---	125,111,14,0.112	132,132,0,0.000	4.554	9.051
chr11	47282025	47282025	G	A	exonic	NR1H3		nonsynonymous SNV	NR1H3:NM_001130102:exon3:c.G163A:p.V55M,NR1H3:NM_001130101:exon4:c.G298A:p.V100M,NR1H3:NM_001251934:exon4:c.G316A:p.V106M,NR1H3:NM_001251935:exon4:c.G316A:p.V106M,NR1H3:NM_005693:exon4:c.G298A:p.V100M	Score=596;Name=lod=351				ID=COSM1259422;OCCURENCE=1(oesophagus)			0	0.999549	C	1.0	D	0.988	D	1.0	D	0.994449	D	5.11	186	36	0.162	175	0	0.000	2.35524717639381701e-10	0.500	---	184,147,31,0.174	141,140,0,0.000	8.240	60
chr11	63064836	63064836	G	A	exonic	SLC22A10		nonsynonymous SNV	SLC22A10:NM_001039752:exon3:c.G568A:p.A190T					ID=COSM1355532;OCCURENCE=1(large_intestine)			0.49	0.106407	N	0.36	T	0.033	B	0.692531	N	0.026153	N	-3.64	229	37	0.139	253	0	0.000	5.55617138668964001e-12	0.595	---	209,179,30,0.144	191,191,0,0.000	8.900	15.955
chr11	65651043	65651043	G	A	exonic	CTSW		nonsynonymous SNV	CTSW:NM_001335:exon10:c.G1085A:p.R362H					ID=COSM1356095;OCCURENCE=1(large_intestine)			0.08	0.846195	N	0.75	T	0.92	D	0.831315	N	0.036505	N	-1.34	179	28	0.135	182	0	0.000	1.52571493859439054e-08	0.536	---	178,153,25,0.140	159,159,0,0.000	7.282	7.615
chr11	68183975	68183975	G	T	exonic	LRP5		nonsynonymous SNV	LRP5:NM_002335:exon13:c.G3007T:p.A1003S	Score=366;Name=lod=41							0.57	0.999047	C	0.61	T	0.0	B	0.999904	U	0.968285	D	4.01	127	29	0.186	129	0	0.000	7.67539091682049056e-09	0.414	---	135,110,25,0.185	104,104,0,0.000	6.463	9.192
chr11	72302354	72302354	G	A	exonic	PDE2A		nonsynonymous SNV	PDE2A:NM_001143839:exon6:c.C515T:p.A172V,PDE2A:NM_001243784:exon7:c.C473T:p.A158V,PDE2A:NM_002599:exon7:c.C536T:p.A179V,PDE2A:NM_001146209:exon8:c.C509T:p.A170V	Score=472;Name=lod=111							0.55	0.987383	C	0.0	T	0.0	B	0.186888	N	0.00325	N	3.71	70	9	0.114	64	0	0.000	0.00437840652536263116	0.556	---	56,50,6,0.107	51,51,0,0.000	1.554	6.437
chr12	25398284	25398284	C	T	exonic	KRAS		nonsynonymous SNV	KRAS:NM_004985:exon2:c.G35A:p.G12D,KRAS:NM_033360:exon2:c.G35A:p.G12D	Score=706;Name=lod=982				ID=COSM1135366,COSM521;OCCURENCE=1(salivary_gland),248(ovary),8(breast),77(stomach),107(haematopoietic_and_lymphoid_tissue),1(kidney),15(urinary_tract),20(soft_tissue),1970(pancreas),1(peritoneum),10(liver),10(oesophagus),10(gastrointestinal_tract_(site_indeterminate)),12(skin),19(prostate),615(lung),36(thyroid),15(cervix),24(upper_aerodigestive_tract),2(testis),3(eye),5503(large_intestine),1(central_nervous_system),41(small_intestine),266(biliary_tract),148(endometrium)	0.0082	rs121913529	0	0.998873	C	1.0	D	0.657	P	1.0	D	0.999991	D	5.24	125	17	0.120	157	0	0.000	1.86512212571875074e-06	0.471	---	107,95,12,0.112	132,132,0,0.000	4.344	9.688
chr12	56668797	56668797	G	T	exonic	CS		nonsynonymous SNV	CS:NM_004077:exon8:c.C907A:p.L303M	Score=497;Name=lod=140	Score=0.974638;Name=chr19:18142024						0.01	0.793476	N	0.98	D	0.893	D	0.999999	D	0.999798	D	-0.257	169	27	0.138	137	0	0.000	3.96410237802751002e-07	0.630	---	160,138,22,0.138	118,118,0,0.000	5.402	12.362
chr12	69233097	69233097	T	A	exonic	MDM2		nonsynonymous SNV	MDM2:NM_002392:exon11:c.T962A:p.L321H	Score=553;Name=lod=235							0	0.997901	C	1.0	D	0.986	D	1.0	D	0.788199	NA	5.26	119	26	0.179	161	0	0.000	1.01239376801419244e-09	0.846	---	124,101,23,0.185	138,138,0,0.000	7.985	60
chr14	39722322	39722322	G	A	exonic	MIA2		nonsynonymous SNV	MIA2:NM_054024:exon6:c.G1834A:p.V612I								0.92	0.755111	N	1.0	D	0.0	B	0.270273	N	1.7E-5	N	-0.602	60	7	0.104	89	0	0.000	0.00223456967311148928	0.714	---	61,54,7,0.115	79,79,0,0.000	2.615	5.093
chr16	30978288	30978288	C	T	exonic	SETD1A		synonymous SNV	SETD1A:NM_014712:exon9:c.C2589T:p.L863L																				162	22	0.120	158	0	0.000	1.19499851736168205e-06	0.591	---	144,126,18,0.125	134,133,0,0.000	5.265	10.322
chr19	3548001	3548001	C	A	exonic	MFSD12		nonsynonymous SNV	MFSD12:NM_001042680:exon4:c.G682T:p.G228C,MFSD12:NM_021731:exon4:c.G682T:p.G228C,MFSD12:NM_174983:exon4:c.G682T:p.G228C	Score=272;Name=lod=17							0	0.996468	C	1.0	D	1.0	D	1.0	D	0.999982	D	4.19	244	53	0.178	275	1	0.004	2.83998701484978213e-15	0.604	0.000	257,210,47,0.183	239,238,1,0.004	12.726	12.645
chr19	3977967	3977967	G	A	exonic	EEF2		synonymous SNV	EEF2:NM_001961:exon12:c.C1917T:p.Y639Y	Score=514;Name=lod=163			0.0005			rs200515602													304	44	0.126	294	0	0.000	8.63420942218670746e-13	0.545	---	296,255,41,0.139	248,248,0,0.000	11.206	13.028
chr19	37904119	37904119	G	A	exonic	ZNF569		nonsynonymous SNV	ZNF569:NM_152484:exon6:c.C1441T:p.L481F	Score=265;Name=lod=16							0	0.999197	C	0.89	T	0.95	D	0.996794	N	0.174995	N	3.18	187	23	0.110	198	0	0.000	1.54979238072586015e-07	0.565	---	179,157,21,0.118	173,173,0,0.000	6.276	6.438
chr19	50965290	50965290	G	A	exonic	MYBPC2		synonymous SNV	MYBPC2:NM_004533:exon26:c.G3225A:p.P1075P																				200	30	0.130	209	0	0.000	1.5092486808631871e-09	0.333	---	186,163,23,0.124	174,174,0,0.000	6.823	7.757
chr19	55284915	55284915	C	T	exonic	KIR2DL1		synonymous SNV	KIR2DL1:NM_014218:exon3:c.C201T:p.N67N		Score=0.93824;Name=chr19_gl000209_random:94401	0.000157				rs144426670													121	38	0.239	225	0	0.000	1.50962877779514305e-16	0.579	---	137,105,32,0.234	189,188,0,0.000	13.029	60
chr20	372180	372180	C	T	exonic	TRIB3		nonsynonymous SNV	TRIB3:NM_021158:exon3:c.C541T:p.R181C	Score=352;Name=lod=36		0.000923	0.0005		0.0082	rs149447454	0	0.983746	C	0.99	D	1.0	D	0.99985	D	0.998842	D	3.65	214	38	0.151	212	0	0.000	2.20735074585727243e-11	0.395	---	219,185,34,0.155	180,179,0,0.000	9.130	15.0
chr20	61512455	61512455	G	T	exonic	DIDO1		nonsynonymous SNV	DIDO1:NM_001193369:exon16:c.C4853A:p.P1618H,DIDO1:NM_033081:exon16:c.C4853A:p.P1618H								0.07	0.807704	N	1.0	D	0.011	B	0.615779	N	0.76665	D	-0.16	249	52	0.173	310	0	0.000	8.8868565658889591e-18	0.423	---	262,214,47,0.180	267,267,0,0.000	15.381	14.557
chrX	34148859	34148859	G	A	exonic	FAM47A		nonsynonymous SNV	FAM47A:NM_203408:exon1:c.C1537T:p.R513W			0.000101				rs201381225	0.05	0.003388	N	0.98	D	1.0	D	0.608697	NA	1.65E-4	N	-0.352	208	44	0.175	285	0	0.000	3.94623498228364265e-16	0.523	---	213,167,43,0.205	231,230,0,0.000	14.900	10.911