Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_Position	End_Position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_File	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	chromosome_name	start	stop	reference	variant	type	gene_name	transcript_name	transcript_species	transcript_source	transcript_version	strand	transcript_status	trv_type	c_position	amino_acid_change	ucsc_cons	domain	all_domains	deletion_substructures	transcript_error	default_gene_name	gene_name_source	 ensembl_gene_id	tier	dbSNP	GMAF	n_ref_count	n_alt_count	normal_vaf	t_ref_count	t_alt_count	tumor_vaf	n_ref_count_val	n_alt_count_val	normal_vaf_val	t_ref_count_val	t_alt_count_val	tumor_vaf_val
ARFGAP2	0	genome.wustl.edu	37	11	47186904	47186904	+	R	SNP	C	C	T			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	11	47186904	47186904	C	T	SNP	ARFGAP2	ENST00000395449	human	ensembl	74_37	-1	known	rna	NULL	NULL	0.662	-	-	-	no_errors	ARFGAP2	HGNC	ENSG00000149182	tier1	-	-	23	0	0.00	14	7	33.33	69	0	0.00	28	13	31.71
L1TD1	0	genome.wustl.edu	37	1	62672642	62672642	+	Silent	SNP	G	G	A			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	1	62672642	62672642	G	A	SNP	L1TD1	ENST00000498273	human	ensembl	74_37	+1	known	silent	c.342	p.G114	0.000	NULL	pfam_Transposase_22,superfamily_STAT_TF_coiled-coil	-	no_errors	L1TD1	HGNC	ENSG00000240563	tier1	-	-	18	0	0.00	19	25	56.82	95	0	0.00	120	122	50.41
GCNT3	0	genome.wustl.edu	37	15	59911094	59911094	+	Silent	SNP	G	G	A			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	15	59911094	59911094	G	A	SNP	GCNT3	ENST00000396065	human	ensembl	74_37	+1	known	silent	c.657	p.P219	0.000	pfam_Glyco_trans_14	pfam_Glyco_trans_14	-	no_errors	GCNT3	HGNC	ENSG00000140297	tier1	rs200140304	GMAF=0.0005	52	0	0.00	28	13	31.71	76	0	0.00	66	16	19.51
OR1J2	0	genome.wustl.edu	37	9	125273445	125273445	+	Missense_Mutation	SNP	G	G	A			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	9	125273445	125273445	G	A	SNP	OR1J2	ENST00000335302	human	ensembl	74_37	+1	known	missense	c.365	p.R122Q	0.037	pfam_GPCR_Rhodpsn,pfam_7TM_GPCR_olfarory/Srsx,pfscan_GPCR_Rhodpsn_7TM,prints_GPCR_Rhodpsn	pfam_GPCR_Rhodpsn,pfam_7TM_GPCR_olfarory/Srsx,pfscan_GPCR_Rhodpsn_7TM,prints_Olfact_rcpt,prints_GPCR_Rhodpsn	-	no_errors	OR1J2	HGNC	ENSG00000197233	tier1	-	-	63	0	0.00	80	63	44.06	59	0	0.00	89	84	48.55
PRUNE2	0	genome.wustl.edu	37	9	79326018	79326018	+	Missense_Mutation	SNP	G	G	A			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	9	79326018	79326018	G	A	SNP	PRUNE2	ENST00000428286	human	ensembl	74_37	-1	known	missense	c.95	p.S32F	1.000	NULL	pfam_Bcl2-/adenovirus-E1B,pfam_CRAL-TRIO_dom,superfamily_CRAL-TRIO_dom,smart_CRAL-TRIO_dom,pfscan_CRAL-TRIO_dom	-	no_errors	PRUNE2	HGNC	ENSG00000106772	tier1	-	-	44	0	0.00	42	24	36.36	79	0	0.00	50	18	26.09
L1TD1	0	genome.wustl.edu	37	1	62672499	62672499	+	Missense_Mutation	SNP	G	G	A			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	1	62672499	62672499	G	A	SNP	L1TD1	ENST00000498273	human	ensembl	74_37	+1	known	missense	c.199	p.E67K	0.004	NULL	pfam_Transposase_22,superfamily_STAT_TF_coiled-coil	-	no_errors	L1TD1	HGNC	ENSG00000240563	tier1	-	-	15	0	0.00	19	21	52.50	104	0	0.00	102	116	53.21
PREX2	0	genome.wustl.edu	37	8	69104676	69104676	+	Missense_Mutation	SNP	G	G	T			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	8	69104676	69104676	G	T	SNP	PREX2	ENST00000288368	human	ensembl	74_37	+1	known	missense	c.4520	p.G1507V	0.999	NULL	pfam_DH-domain,pfam_DEP_dom,pfam_PDZ,superfamily_DH-domain,superfamily_PDZ,smart_DH-domain,smart_Pleckstrin_homology,smart_DEP_dom,smart_PDZ,pfscan_DEP_dom,pfscan_PDZ,pfscan_Pleckstrin_homology,pfscan_DH-domain	-	no_errors	PREX2	HGNC	ENSG00000046889	tier1	-	-	43	0	0.00	27	8	22.86	38	0	0.00	24	11	31.43
WNK2	0	genome.wustl.edu	37	9	96009927	96009927	+	Missense_Mutation	SNP	G	G	A			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	9	96009927	96009927	G	A	SNP	WNK2	ENST00000297954	human	ensembl	74_37	+1	known	missense	c.1645	p.A549T	0.002	NULL	pfam_Prot_kinase_dom,pfam_Ser-Thr/Tyr_kinase_cat_dom,pfam_Kinase_OSR1/WNK_CCT,superfamily_Kinase-like_dom,smart_Ser/Thr_dual-sp_kinase_dom,smart_Tyr_kinase_cat_dom,pfscan_Prot_kinase_dom	-	no_errors	WNK2	HGNC	ENSG00000165238	tier1	-	-	54	0	0.00	66	12	15.19	12	0	0.00	13	2	13.33
THBS4	0	genome.wustl.edu	37	5	79355569	79355569	+	Silent	SNP	C	C	T			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	5	79355569	79355569	C	T	SNP	THBS4	ENST00000350881	human	ensembl	74_37	+1	known	silent	c.828	p.P276	0.009	NULL	pfam_Thrombospondin_C,pfam_Thbs/COMP_coiled-coil,pfam_Thrombospondin_3-like_rpt,pfam_EGF-like_Ca-bd_dom,superfamily_ConA-like_lec_gl_sf,smart_Laminin_G,smart_EG-like_dom,smart_EGF-like_Ca-bd_dom,pfscan_EG-like_dom	-	no_errors	THBS4	HGNC	ENSG00000113296	tier1	rs200566165	GMAF=0.0005	28	0	0.00	36	10	21.74	51	0	0.00	39	8	16.67
TOX3	0	genome.wustl.edu	37	16	52473155	52473155	+	Silent	SNP	C	C	T			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	16	52473155	52473155	C	T	SNP	TOX3	ENST00000219746	human	ensembl	74_37	-1	known	silent	c.1713	p.S571	0.011	NULL	pfam_HMG_box_dom,superfamily_HMG_box_dom,smart_HMG_box_dom,pfscan_HMG_box_dom	-	no_errors	TOX3	HGNC	ENSG00000103460	tier1	-	-	39	0	0.00	41	10	19.61	60	0	0.00	44	20	31.25
KRAS	0	genome.wustl.edu	37	12	25398282	25398282	+	Missense_Mutation	SNP	C	C	A			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	12	25398282	25398282	C	A	SNP	KRAS	ENST00000256078	human	ensembl	74_37	-1	known	missense	c.37	p.G13C	1.000	pfam_Small_GTPase,pfam_MIRO-like,pfam_Small_GTPase_ARF/SAR,superfamily_P-loop_NTPase,smart_Small_GTPase_Ras,smart_Small_GTPase_Rab_type,smart_Small_GTPase_Rho,smart_Ran_GTPase,prints_Small_GTPase,tigrfam_Small_GTP-bd_dom	pfam_Small_GTPase,pfam_MIRO-like,pfam_Small_GTPase_ARF/SAR,pfam_EF_GTP-bd_dom,superfamily_P-loop_NTPase,smart_Small_GTPase_Ras,smart_Small_GTPase_Rab_type,smart_Small_GTPase_Rho,smart_Ran_GTPase,prints_Small_GTPase,tigrfam_Small_GTP-bd_dom	-	no_errors	KRAS	HGNC	ENSG00000133703	tier1	rs121913535	-	22	0	0.00	33	5	13.16	66	0	0.00	47	10	17.54
L1TD1	0	genome.wustl.edu	37	1	62672847	62672847	+	Missense_Mutation	SNP	G	G	A			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	1	62672847	62672847	G	A	SNP	L1TD1	ENST00000498273	human	ensembl	74_37	+1	known	missense	c.547	p.D183N	0.002	NULL	pfam_Transposase_22,superfamily_STAT_TF_coiled-coil	-	no_errors	L1TD1	HGNC	ENSG00000240563	tier1	-	-	24	0	0.00	26	31	54.39	101	0	0.00	108	118	52.21
C12orf56	0	genome.wustl.edu	37	12	64706514	64706514	+	Missense_Mutation	SNP	C	C	G			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	12	64706514	64706514	C	G	SNP	C12orf56	ENST00000543942	human	ensembl	74_37	-1	putative	missense	c.913	p.D305H	1.000	NULL	NULL	-	no_errors	C12orf56	HGNC	ENSG00000185306	tier1	-	-	15	0	0.00	23	6	20.69	84	0	0.00	91	43	32.09
RSPRY1	0	genome.wustl.edu	37	16	57261275	57261275	+	Missense_Mutation	SNP	G	G	A			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	16	57261275	57261275	G	A	SNP	RSPRY1	ENST00000394420	human	ensembl	74_37	+1	known	missense	c.1183	p.D395N	1.000	pfam_SPRY_rcpt,superfamily_ConA-like_lec_gl_sf,smart_SPla/RYanodine_receptor_subgr,pfscan_B30.2/SPRY	pfam_SPRY_rcpt,superfamily_ConA-like_lec_gl_sf,superfamily_ARM-type_fold,smart_SPla/RYanodine_receptor_subgr,smart_Znf_RING,pfscan_B30.2/SPRY,pfscan_Znf_RING	-	no_errors	RSPRY1	HGNC	ENSG00000159579	tier1	-	-	32	0	0.00	33	5	13.16	76	0	0.00	49	19	27.54
BPIFB6	0	genome.wustl.edu	37	20	31619530	31619530	+	Missense_Mutation	SNP	T	T	G			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	20	31619530	31619530	T	G	SNP	BPIFB6	ENST00000349552	human	ensembl	74_37	+1	known	missense	c.77	p.L26W	0.996	pfam_Lipid-bd_serum_glycop_N,superfamily_Bactericidal_perm-incr_a/b_dom	pfam_Lipid-bd_serum_glycop_N,pfam_Lipid-bd_serum_glycop_C,superfamily_Bactericidal_perm-incr_a/b_dom,smart_Lipid-bd_serum_glycop_C	-	no_errors	BPIFB6	HGNC	ENSG00000167104	tier1	-	-	126	0	0.00	78	27	25.71	20	0	0.00	12	6	33.33
KIF5A	0	genome.wustl.edu	37	12	57960960	57960960	+	Missense_Mutation	SNP	G	G	C			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	12	57960960	57960960	G	C	SNP	KIF5A	ENST00000455537	human	ensembl	74_37	+1	known	missense	c.553	p.D185H	1.000	pfam_Kinesin_motor_dom,superfamily_P-loop_NTPase,smart_Kinesin_motor_dom,pfscan_Kinesin_motor_dom	pfam_Kinesin_motor_dom,superfamily_P-loop_NTPase,superfamily_Prefoldin,smart_Kinesin_motor_dom,pfscan_Kinesin_motor_dom,prints_Kinesin_motor_dom	-	no_errors	KIF5A	HGNC	ENSG00000155980	tier1	-	-	43	0	0.00	38	7	15.56	116	0	0.00	115	23	16.67
MEMO1	0	genome.wustl.edu	37	2	32093492	32093492	+	Missense_Mutation	SNP	G	G	C			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	2	32093492	32093492	G	C	SNP	MEMO1	ENST00000379383	human	ensembl	74_37	-1	known	missense	c.841	p.Q281E	1.000	pfam_MEMO1_fam	pfam_MEMO1_fam	-	no_errors	MEMO1	HGNC	ENSG00000162959	tier1	-	-	19	0	0.00	11	6	35.29	33	0	0.00	18	3	14.29
TUBAL3	0	genome.wustl.edu	37	10	5446755	5446755	+	Missense_Mutation	SNP	T	T	A			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	10	5446755	5446755	T	A	SNP	TUBAL3	ENST00000380419	human	ensembl	74_37	-1	known	missense	c.1	p.M1L	0.998	superfamily_Tubulin_FtsZ_GTPase	pfam_Tubulin_FtsZ_GTPase,pfam_Tubulin/FtsZ_2-layer-sand-dom,superfamily_Tubulin_FtsZ_GTPase,superfamily_Tub_FtsZ_C,smart_Tubulin_FtsZ_GTPase,smart_Tubulin/FtsZ_2-layer-sand-dom,prints_Alpha_tubulin,prints_Tubulin,prints_Epsilon_tubulin,prints_Delta_tubulin,prints_Beta_tubulin	-	no_errors	TUBAL3	HGNC	ENSG00000178462	tier1	-	-	19	0	0.00	13	7	35.00	83	0	0.00	56	23	29.11
C12orf56	0	genome.wustl.edu	37	12	64706467	64706467	+	Missense_Mutation	SNP	C	C	G			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	12	64706467	64706467	C	G	SNP	C12orf56	ENST00000543942	human	ensembl	74_37	-1	putative	missense	c.960	p.K320N	1.000	NULL	NULL	-	no_errors	C12orf56	HGNC	ENSG00000185306	tier1	-	-	23	0	0.00	28	11	28.21	97	0	0.00	89	49	35.51
MYO5B	0	genome.wustl.edu	37	18	47404149	47404149	+	Missense_Mutation	SNP	G	G	A			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	18	47404149	47404149	G	A	SNP	MYO5B	ENST00000285039	human	ensembl	74_37	-1	known	missense	c.3380	p.A1127V	0.997	NULL	pfam_Myosin_head_motor_dom,pfam_Dil_domain,pfam_IQ_motif_EF-hand-BS,superfamily_P-loop_NTPase,superfamily_Prefoldin,smart_Myosin_head_motor_dom,smart_IQ_motif_EF-hand-BS,pfscan_Dilute,pfscan_IQ_motif_EF-hand-BS,prints_Myosin_head_motor_dom	-	no_errors	MYO5B	HGNC	ENSG00000167306	tier1	-	-	57	0	0.00	50	20	28.57	96	0	0.00	73	34	31.78
PDE1B	0	genome.wustl.edu	37	12	54960762	54960762	+	Missense_Mutation	SNP	C	C	T			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	12	54960762	54960762	C	T	SNP	PDE1B	ENST00000243052	human	ensembl	74_37	+1	known	missense	c.118	p.R40C	1.000	NULL	pfam_PDEase_catalytic_dom,pfam_PDEase_N,smart_HD/PDEase_dom,prints_PDEase	-	no_errors	PDE1B	HGNC	ENSG00000123360	tier1	rs147900601	-	24	0	0.00	234	62	20.88	46	0	0.00	589	126	17.52
RYR2	0	genome.wustl.edu	37	1	237551406	237551406	+	Silent	SNP	T	T	C			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	1	237551406	237551406	T	C	SNP	RYR2	ENST00000360064	human	ensembl	74_37	+1	known	silent	c.690	p.D230	0.990	pfam_MIR_motif,superfamily_MIR_motif,smart_MIR_motif,pfscan_MIR_motif	pfam_Ca-rel_channel,pfam_Ryanodine_rcpt,pfam_Ryanrecept_TM4-6,pfam_SPRY_rcpt,pfam_Ins145_P3_rcpt,pfam_MIR_motif,pfam_RIH_assoc-dom,pfam_Ion_trans_dom,superfamily_MIR_motif,superfamily_ConA-like_lec_gl_sf,smart_MIR_motif,smart_SPla/RYanodine_receptor_subgr,prints_Ryan_recept,pfscan_B30.2/SPRY,pfscan_EF_hand_dom,pfscan_MIR_motif	-	no_errors	RYR2	HGNC	ENSG00000198626	tier1	-	-	48	0	0.00	40	17	29.82	72	0	0.00	36	15	29.41
L1TD1	0	genome.wustl.edu	37	1	62675988	62675988	+	Silent	SNP	G	G	A			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	1	62675988	62675988	G	A	SNP	L1TD1	ENST00000498273	human	ensembl	74_37	+1	known	silent	c.1542	p.L514	0.000	NULL	pfam_Transposase_22,superfamily_STAT_TF_coiled-coil	-	no_errors	L1TD1	HGNC	ENSG00000240563	tier1	-	-	19	0	0.00	19	20	51.28	44	0	0.00	45	77	63.11
ZNF335	0	genome.wustl.edu	37	20	44581055	44581055	+	Missense_Mutation	SNP	G	G	A			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	20	44581055	44581055	G	A	SNP	ZNF335	ENST00000322927	human	ensembl	74_37	-1	known	missense	c.2920	p.P974S	0.129	NULL	smart_Znf_C2H2-like,pfscan_Znf_C2H2	-	no_errors	ZNF335	HGNC	ENSG00000198026	tier1	-	-	46	0	0.00	26	9	25.71	23	0	0.00	12	5	29.41
KIF5A	0	genome.wustl.edu	37	12	57960944	57960944	+	Missense_Mutation	SNP	G	G	C			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	12	57960944	57960944	G	C	SNP	KIF5A	ENST00000455537	human	ensembl	74_37	+1	known	missense	c.537	p.E179D	1.000	pfam_Kinesin_motor_dom,superfamily_P-loop_NTPase,smart_Kinesin_motor_dom,pfscan_Kinesin_motor_dom	pfam_Kinesin_motor_dom,superfamily_P-loop_NTPase,superfamily_Prefoldin,smart_Kinesin_motor_dom,pfscan_Kinesin_motor_dom,prints_Kinesin_motor_dom	-	no_errors	KIF5A	HGNC	ENSG00000155980	tier1	-	-	47	0	0.00	39	8	17.02	123	0	0.00	122	25	17.01
FAM135A	0	genome.wustl.edu	37	6	71234525	71234525	+	Missense_Mutation	SNP	A	A	G			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	6	71234525	71234525	A	G	SNP	FAM135A	ENST00000418814	human	ensembl	74_37	+1	known	missense	c.1738	p.T580A	1.000	NULL	pfam_DUF676_lipase-like,pfam_DUF3657,pfam_PGAP1-like,pfam_LACT/PDAT_acylTrfase	-	no_errors	FAM135A	HGNC	ENSG00000082269	tier1	-	-	16	0	0.00	12	11	47.83	86	0	0.00	67	27	28.72
CDKN1A	0	genome.wustl.edu	37	6	36651975	36651975	+	Missense_Mutation	SNP	G	G	A			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	6	36651975	36651975	G	A	SNP	CDKN1A	ENST00000448526	human	ensembl	74_37	+1	known	missense	c.199	p.D67N	0.959	pfam_CDI	pfam_CDI	-	no_errors	CDKN1A	HGNC	ENSG00000124762	tier1	-	-	70	0	0.00	54	18	25.00	15	0	0.00	9	2	18.18
PAK3	0	genome.wustl.edu	37	X	110406911	110406912	+	Frame_Shift_Ins	INS	-	-	A			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	-	-	-	A	-	-	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	X	110406911	110406912	-	A	INS	PAK3	ENST00000360648	human	ensembl	74_37	+1	known	frame_shift_ins	c.830_831	p.S280fs	1.000:1.000	NULL	pfam_Prot_kinase_dom,pfam_Ser-Thr/Tyr_kinase_cat_dom,pfam_CRIB_dom,superfamily_Kinase-like_dom,smart_CRIB_dom,smart_Ser/Thr_dual-sp_kinase_dom,smart_Tyr_kinase_cat_dom,pfscan_CRIB_dom,pfscan_Prot_kinase_dom	-	no_errors	PAK3	HGNC	ENSG00000077264	tier1			10	0	0.00	9	6	40.00	27	0	0.00	8	12	60.00
CLCNKA	0	genome.wustl.edu	37	1	16360144	16360144	+	Silent	SNP	T	T	C			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	1	16360144	16360144	T	C	SNP	CLCNKA	ENST00000331433	human	ensembl	74_37	+1	known	silent	c.2055	p.A685	0.903	NULL	pfam_Cl-channel_volt-gated,pfam_CBS_dom,superfamily_Cl-channel_core,smart_CBS_dom,prints_Cl-channel_volt-gated,prints_Cl_channel-K	-	no_errors	CLCNKA	HGNC	ENSG00000186510	tier1	-	-	42	0	0.00	44	6	12.00	61	1	1.61	81	4	4.71
SNORD3A	0	genome.wustl.edu	37	17	19091448	19091448	+	R	SNP	C	C	T			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	17	19091448	19091448	C	T	SNP	SNORD3A	ENST00000365494	human	ensembl	74_37	+1	known	rna	NULL	NULL	0.007	-	-	-	no_errors	SNORD3A	HGNC	ENSG00000263934	tier1	-	-	242	0	0.00	253	30	10.60	325	0	0.00	252	26	9.32
RELA	0	genome.wustl.edu	37	11	65429468	65429468	+	Silent	SNP	G	G	A			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	11	65429468	65429468	G	A	SNP	RELA	ENST00000406246	human	ensembl	74_37	-1	known	silent	c.126	p.S42	0.016	pfam_RHD,superfamily_p53-like_TF_D-bd,pfscan_RHD,prints_NF_Rel_Dor	pfam_RHD,superfamily_p53-like_TF_D-bd,superfamily_Ig_E-set,smart_IPT,pfscan_RHD,prints_NF_Rel_Dor	-	no_errors	RELA	HGNC	ENSG00000173039	tier1	-	-	50	0	0.00	35	9	20.45	7	0	0.00	9	1	10.00
MT-RNR2	0	genome.wustl.edu	37	MT	2300	2300	+	R	SNP	G	G	A			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	MT	2300	2300	G	A	SNP	MT-RNR2	ENST00000387347	human	ensembl	74_37	+1	known	rna	NULL	NULL	NULL	-	-	-	no_errors	MT-RNR2	HGNC	ENSG00000210082	tier1	-	-	41	0	0.00	28	19	40.43	1	0	0.00	0	0	0.00
PARP8	0	genome.wustl.edu	37	5	49962737	49962738	+	R	INS	-	-	CCT			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	-	-					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	5	49962737	49962738	-	CCT	INS	PARP8	ENST00000513414	human	ensembl	74_37	+1	putative	rna	NULL	NULL	0.994:0.991	-	-	-	no_errors	PARP8	HGNC	ENSG00000151883	tier1			34	0	0.00	19	9	32.14	0	0	0.00	0	0	0.00
RCVRN	0	genome.wustl.edu	37	17	9801316	9801317	+	R	INS	-	-	GTGTGTGC			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	-	-					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	17	9801316	9801317	-	GTGTGTGC	INS	RCVRN	ENST00000570909	human	ensembl	74_37	-1	putative	rna	NULL	NULL	0.000:0.000	-	-	-	no_errors	RCVRN	HGNC	ENSG00000109047	tier1			0	0	0.00	0	0	0.00	0	0	0.00	0	0	0.00
ARHGAP9	0	genome.wustl.edu	37	12	57869320	57869320	+	Missense_Mutation	SNP	C	C	T			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	12	57869320	57869320	C	T	SNP	ARHGAP9	ENST00000356411	human	ensembl	74_37	-1	known	missense	c.1447	p.E483K	0.923	NULL	pfam_RhoGAP_dom,pfam_Pleckstrin_homology,pfam_SH3_domain,superfamily_Rho_GTPase_activation_prot,superfamily_SH3_domain,superfamily_WW_dom,smart_Pleckstrin_homology,smart_RhoGAP_dom,pfscan_Pleckstrin_homology,pfscan_SH3_domain,pfscan_WW_dom,pfscan_RhoGAP_dom	-	no_errors	ARHGAP9	HGNC	ENSG00000123329	tier1	-	-	27	0	0.00	19	73	79.35	3	0	0.00	7	9	56.25
A2ML1	0	genome.wustl.edu	37	12	8990042	8990080	+	In_Frame_Del	DEL	CTATGGAAAGCCCATGCTAGGGGCAGTGCAGGTATCTGT	CTATGGAAAGCCCATGCTAGGGGCAGTGCAGGTATCTGT	-			TCGA-DX-A3LU-01A-11D-A21Q-09	TCGA-DX-A3LU-10A-01D-A21Q-09	CTATGGAAAGCCCATGCTAGGGGCAGTGCAGGTATCTGT	CTATGGAAAGCCCATGCTAGGGGCAGTGCAGGTATCTGT					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7d734d06-f2b1-4924-a201-620ac8084c49	97a68a03-dc99-4ba9-8b81-1b40f2ce32ea	12	8990042	8990080	CTATGGAAAGCCCATGCTAGGGGCAGTGCAGGTATCTGT	-	DEL	A2ML1	ENST00000299698	human	ensembl	74_37	+1	known	in_frame_del	c.735_773	p.YGKPMLGAVQVSV246in_frame_del	1.000:1.000:1.000:0.997:1.000:1.000:0.996:1.000:0.999:0.989:0.984:0.951:0.052:0.001:0.007:0.005:0.002:0.000:0.000:0.079:0.077:0.033:0.004:0.002:0.001:0.031:0.026:0.019:0.017:0.008:0.006:0.038:0.032:0.003:0.009:0.009:0.000:0.154:0.178	NULL	pfam_A2M_comp,pfam_Macroglobln_a2,pfam_A2M_N_2,pfam_A-macroglobulin_rcpt-bd,pfam_A2M_N,pfam_MacrogloblnA2_thiol-ester-bond,pfam_SV_autoAg,superfamily_Terpenoid_cyclase/PrenylTrfase,superfamily_A-macroglobulin_rcpt-bd	-	no_errors	A2ML1	HGNC	ENSG00000166535	tier1			59	0	0.00	69	2	2.82	59	0	0.00	69	2	2.82