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	title	header	normal_ref_reads	normal_var_reads	normal_VAF	tumor_ref_reads	tumor_var_reads	tumor_VAF
CCNL2	0	genome.wustl.edu	37	1	1330804	1330804	+	Silent	SNP	A	A	C			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	1	1330804	1330804	A	C	SNP	CCNL2	ENST00000400809	human	ensembl	74_37	-1	known	silent	c.564	p.G188	0.999	pfam_Cyclin_N,superfamily_Cyclin-like,pirsf_Cyclin_L	pfam_Cyclin_N,pfam_Cyclin_C-dom,superfamily_Cyclin-like,smart_Cyclin-like,pirsf_Cyclin_L	-	no_errors	CCNL2	HGNC	ENSG00000221978				56	0	0	43	24	35.8209
SEC22B	0	genome.wustl.edu	37	1	145115783	145115783	+	RNA	SNP	G	G	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	1	145115783	145115783	G	A	SNP	SEC22B	ENST00000453618	human	ensembl	74_37	+1	known	rna	NULL	NULL	1.000	-	-	-	no_errors	SEC22B	HGNC	ENSG00000223380				166	0	0	169	43	20.283
HRNR	0	genome.wustl.edu	37	1	152192120	152192120	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	1	152192120	152192120	C	T	SNP	HRNR	ENST00000368801	human	ensembl	74_37	-1	known	missense	c.1985	p.R662H	0.000	NULL	pfam_S100_Ca-bd_sub,pfscan_EF_hand_dom	-	no_errors	HRNR	HGNC	ENSG00000197915				234	0	0	263	86	24.6418
IGSF9	0	genome.wustl.edu	37	1	159901336	159901336	+	Nonsense_Mutation	SNP	G	G	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	1	159901336	159901336	G	A	SNP	IGSF9	ENST00000368094	human	ensembl	74_37	-1	known	nonsense	c.1420	p.R474*	1.000	pfam_Ig_I-set,pfam_Immunoglobulin,smart_Ig_sub,smart_Ig_sub2,pfscan_Ig-like_dom	pfam_Ig_I-set,pfam_Immunoglobulin,pfam_Ig_V-set,pfam_Fibronectin_type3,superfamily_Fibronectin_type3,smart_Ig_sub,smart_Ig_sub2,smart_Fibronectin_type3,pfscan_Fibronectin_type3,pfscan_Ig-like_dom	-	no_errors	IGSF9	HGNC	ENSG00000085552				63	0	0	17	47	73.4375
OR2T3	0	genome.wustl.edu	37	1	248637262	248637262	+	Missense_Mutation	SNP	T	T	C			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	1	248637262	248637262	T	C	SNP	OR2T3	ENST00000359594	human	ensembl	74_37	+1	known	missense	c.611	p.M204T	0.006	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	OR2T3	HGNC	ENSG00000196539				118	0	0	52	6	10.3448
SRRM1	0	genome.wustl.edu	37	1	24993386	24993386	+	Missense_Mutation	SNP	G	G	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	1	24993386	24993386	G	T	SNP	SRRM1	ENST00000447431	human	ensembl	74_37	+1	known	missense	c.1745	p.R582L	1.000	NULL	pfam_PWI_dom,superfamily_PWI_dom,smart_PWI_dom	-	no_errors	SRRM1	HGNC	ENSG00000133226				55	0	0	48	4	7.69231
MAP7D1	0	genome.wustl.edu	37	1	36642154	36642154	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	1	36642154	36642154	C	T	SNP	MAP7D1	ENST00000373151	human	ensembl	74_37	+1	known	missense	c.1205	p.P402L	0.000	NULL	pfam_MAP7	-	no_errors	MAP7D1	HGNC	ENSG00000116871				13	0	0	11	4	26.6667
MRPS15	0	genome.wustl.edu	37	1	36929865	36929865	+	Silent	SNP	G	G	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	1	36929865	36929865	G	A	SNP	MRPS15	ENST00000373116	human	ensembl	74_37	-1	known	silent	c.12	p.V4	0.980	NULL	pfam_Ribosomal_S15,superfamily_S15_NS1_RNA-bd	-	no_errors	MRPS15	HGNC	ENSG00000116898				65	0	0	76	11	12.6437
OMA1	0	genome.wustl.edu	37	1	59004914	59004914	+	Missense_Mutation	SNP	C	C	G			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	1	59004914	59004914	C	G	SNP	OMA1	ENST00000371226	human	ensembl	74_37	-1	known	missense	c.53	p.R18P	0.001	NULL	pfam_Peptidase_M48	-	no_errors	OMA1	HGNC	ENSG00000162600				84	0	0	135	45	25
ATRNL1	0	genome.wustl.edu	37	10	117040941	117040941	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	10	117040941	117040941	C	T	SNP	ATRNL1	ENST00000355044	human	ensembl	74_37	+1	known	missense	c.2177	p.S726L	1.000	smart_Plexin-like_fold	pfam_Kelch_1,pfam_Kelch_2,pfam_Plexin_repeat,pfam_CUB_dom,pfam_EGF_extracell,superfamily_C-type_lectin_fold,superfamily_CUB_dom,superfamily_Plexin-like_fold,smart_EG-like_dom,smart_CUB_dom,smart_Plexin-like_fold,smart_C-type_lectin,smart_EGF_laminin,pfscan_CUB_dom,pfscan_EG-like_dom,pfscan_EGF_laminin,pfscan_C-type_lectin	-	no_errors	ATRNL1	HGNC	ENSG00000107518				80	0	0	56	30	34.8837
KIAA1462	0	genome.wustl.edu	37	10	30336633	30336633	+	Missense_Mutation	SNP	T	T	C			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	10	30336633	30336633	T	C	SNP	KIAA1462	ENST00000375377	human	ensembl	74_37	-1	known	missense	c.109	p.T37A	0.000	NULL	NULL	-	no_errors	KIAA1462	HGNC	ENSG00000165757				105	0	0	55	26	32.0988
SLIT1	0	genome.wustl.edu	37	10	98778863	98778863	+	Silent	SNP	A	A	G			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	10	98778863	98778863	A	G	SNP	SLIT1	ENST00000266058	human	ensembl	74_37	-1	known	silent	c.2748	p.G916	0.998	NULL	pfam_Leu-rich_rpt,pfam_Laminin_G,pfam_EG-like_dom,pfam_LRR-contain_N,pfam_Cys-rich_flank_reg_C,superfamily_ConA-like_lec_gl_sf,smart_LRR-contain_N,smart_Leu-rich_rpt_typical-subtyp,smart_Cys-rich_flank_reg_C,smart_EGF-like_Ca-bd_dom,smart_EG-like_dom,smart_Fol_N,smart_Laminin_G,smart_Cys_knot_C,pfscan_Cys_knot_C,pfscan_EG-like_dom,pfscan_Laminin_G	-	no_errors	SLIT1	HGNC	ENSG00000187122				77	0	0	40	29	42.029
OR6M1	0	genome.wustl.edu	37	11	123676616	123676616	+	Missense_Mutation	SNP	C	C	G			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	11	123676616	123676616	C	G	SNP	OR6M1	ENST00000309154	human	ensembl	74_37	-1	known	missense	c.442	p.V148L	0.008	pfam_GPCR_Rhodpsn,pfscan_GPCR_Rhodpsn_7TM	pfam_GPCR_Rhodpsn,pfscan_GPCR_Rhodpsn_7TM,prints_Olfact_rcpt,prints_GPCR_Rhodpsn	-	no_errors	OR6M1	HGNC	ENSG00000196099				53	0	0	37	17	31.4815
KRTAP5-4	0	genome.wustl.edu	37	11	1642884	1642884	+	Missense_Mutation	SNP	A	A	C			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	11	1642884	1642884	A	C	SNP	KRTAP5-4	ENST00000399682	human	ensembl	74_37	-1	known	missense	c.440	p.F147C	0.003	NULL	NULL	-	no_errors	KRTAP5-4	HGNC	ENSG00000241598				207	0	0	151	8	5.03145
NAP1L4	0	genome.wustl.edu	37	11	2973158	2973158	+	RNA	SNP	C	C	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	11	2973158	2973158	C	T	SNP	NAP1L4	ENST00000526023	human	ensembl	74_37	-1	known	rna	NULL	NULL	0.000	-	-	-	no_errors	NAP1L4	HGNC	ENSG00000205531				10	0	0	2	2	50
C11orf49	0	genome.wustl.edu	37	11	46958381	46958381	+	Silent	SNP	C	C	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	11	46958381	46958381	C	T	SNP	C11orf49	ENST00000378615	human	ensembl	74_37	+1	known	silent	c.25	p.L9	0.997	NULL	NULL	-	no_errors	C11orf49	HGNC	ENSG00000149179				38	0	0	7	21	75
HBD	0	genome.wustl.edu	37	11	5254298	5254298	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	11	5254298	5254298	C	A	SNP	HBD	ENST00000380299	human	ensembl	74_37	-1	known	missense	c.340	p.V114L	0.003	superfamily_Globin-like,pfscan_Globin	pfam_Globin,superfamily_Globin-like,prints_Haemoglobin_b,pfscan_Globin	-	no_errors	HBD	HGNC	ENSG00000223609				76	0	0	19	34	64.1509
HBD	0	genome.wustl.edu	37	11	5254304	5254304	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	11	5254304	5254304	C	A	SNP	HBD	ENST00000380299	human	ensembl	74_37	-1	known	missense	c.334	p.V112L	0.001	pfam_Globin,superfamily_Globin-like,pfscan_Globin	pfam_Globin,superfamily_Globin-like,prints_Haemoglobin_b,pfscan_Globin	-	no_errors	HBD	HGNC	ENSG00000223609				79	0	0	18	32	64
CLEC9A	0	genome.wustl.edu	37	12	10217429	10217429	+	Missense_Mutation	SNP	T	T	G			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	12	10217429	10217429	T	G	SNP	CLEC9A	ENST00000355819	human	ensembl	74_37	+1	putative	missense	c.570	p.D190E	1.000	pfam_C-type_lectin,superfamily_C-type_lectin_fold,smart_C-type_lectin,pfscan_C-type_lectin	pfam_C-type_lectin,superfamily_C-type_lectin_fold,smart_C-type_lectin,pfscan_C-type_lectin	-	no_errors	CLEC9A	HGNC	ENSG00000197992				69	0	0	76	20	20.8333
CUX2	0	genome.wustl.edu	37	12	111758322	111758322	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	12	111758322	111758322	G	A	SNP	CUX2	ENST00000261726	human	ensembl	74_37	+1	known	missense	c.2509	p.E837K	1.000	NULL	pfam_Hmoeo_CUT,pfam_Homeobox_dom,superfamily_Lambda_DNA-bd_dom,superfamily_Homeodomain-like,superfamily_Prefoldin,smart_Homeobox_dom,pfscan_Homeobox_dom,pfscan_Hmoeo_CUT	-	no_errors	CUX2	HGNC	ENSG00000111249				14	0	0	11	8	42.1053
PDE3A	0	genome.wustl.edu	37	12	20522996	20522996	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	12	20522996	20522996	C	A	SNP	PDE3A	ENST00000359062	human	ensembl	74_37	+1	known	missense	c.778	p.P260T	1.000	NULL	pfam_PDEase_catalytic_dom,smart_HD/PDEase_dom	-	no_errors	PDE3A	HGNC	ENSG00000172572				74	0	0	65	47	41.9643
AKAP3	0	genome.wustl.edu	37	12	4747358	4747358	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	12	4747358	4747358	G	A	SNP	AKAP3	ENST00000228850	human	ensembl	74_37	-1	known	missense	c.5	p.S2L	0.847	NULL	pfam_AKAP_110_C,pfam_RII_binding_1,smart_AKAP_110	-	no_errors	AKAP3	HGNC	ENSG00000111254				163	0	0	134	89	39.9103
KRT8	0	genome.wustl.edu	37	12	53292550	53292550	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	12	53292550	53292550	C	A	SNP	KRT8	ENST00000293308	human	ensembl	74_37	-1	known	missense	c.1115	p.R372L	1.000	pfam_IF	pfam_IF,superfamily_Prefoldin,prints_Keratin_II,prints_Keratin_I	-	no_errors	KRT8	HGNC	ENSG00000170421				129	0	0	124	36	22.5
CEP290	0	genome.wustl.edu	37	12	88478386	88478386	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	12	88478386	88478386	G	A	SNP	CEP290	ENST00000309041	human	ensembl	74_37	-1	known	missense	c.4687	p.R1563C	0.769	NULL	NULL	-	no_errors	CEP290	HGNC	ENSG00000198707				54	0	0	54	18	25
FAM155A	0	genome.wustl.edu	37	13	108518657	108518657	+	Silent	SNP	C	C	G			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	13	108518657	108518657	C	G	SNP	FAM155A	ENST00000375915	human	ensembl	74_37	-1	known	silent	c.288	p.R96	1.000	NULL	NULL	-	no_errors	FAM155A	HGNC	ENSG00000204442				25	0	0	50	11	18.0328
PROSER1	0	genome.wustl.edu	37	13	39597397	39597397	+	RNA	SNP	G	G	C			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	13	39597397	39597397	G	C	SNP	PROSER1	ENST00000484434	human	ensembl	74_37	-1	known	rna	NULL	NULL	0.000	-	-	-	no_errors	PROSER1	HGNC	ENSG00000120685				12	0	0	6	6	50
TDRD3	0	genome.wustl.edu	37	13	61103082	61103082	+	Nonsense_Mutation	SNP	C	C	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	13	61103082	61103082	C	T	SNP	TDRD3	ENST00000535286	human	ensembl	74_37	+1	known	nonsense	c.1723	p.Q575*	1.000	NULL	pfam_DUF1767,pfam_Tudor,pfam_Survival_motor_neuron,pfam_UBA/Ts_N,superfamily_UBA-like,smart_UBA/transl_elong_EF1B_N_euk,smart_Tudor,pfscan_Tudor,pfscan_UBA/transl_elong_EF1B_N_euk	-	no_errors	TDRD3	HGNC	ENSG00000083544				36	0	0	41	24	36.9231
SLITRK6	0	genome.wustl.edu	37	13	86369349	86369349	+	Missense_Mutation	SNP	A	A	C			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	13	86369349	86369349	A	C	SNP	SLITRK6	ENST00000400286	human	ensembl	74_37	-1	known	missense	c.1295	p.L432R	1.000	pfam_Leu-rich_rpt,smart_Leu-rich_rpt_typical-subtyp	pfam_Leu-rich_rpt,smart_Leu-rich_rpt_typical-subtyp,smart_Cys-rich_flank_reg_C	-	no_errors	SLITRK6	HGNC	ENSG00000184564				70	0	0	60	35	36.8421
NOP9	0	genome.wustl.edu	37	14	24771558	24771558	+	Silent	SNP	G	G	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	14	24771558	24771558	G	A	SNP	NOP9	ENST00000267425	human	ensembl	74_37	+1	known	silent	c.1071	p.Q357	0.939	superfamily_ARM-type_fold,smart_Pumilio_RNA-bd_rpt	superfamily_ARM-type_fold,smart_Pumilio_RNA-bd_rpt	-	no_errors	NOP9	HGNC	ENSG00000196943				145	0	0	71	39	35.4545
MIS18BP1	0	genome.wustl.edu	37	14	45705143	45705143	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	14	45705143	45705143	C	T	SNP	MIS18BP1	ENST00000310806	human	ensembl	74_37	-1	known	missense	c.1222	p.V408I	0.010	pfam_SANTA	pfam_SANTA,superfamily_Homeodomain-like,smart_SANT/Myb,pfscan_Myb-like_dom	-	no_errors	MIS18BP1	HGNC	ENSG00000129534				35	0	0	6	10	62.5
NEO1	0	genome.wustl.edu	37	15	73528822	73528822	+	Missense_Mutation	SNP	T	T	C			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	15	73528822	73528822	T	C	SNP	NEO1	ENST00000261908	human	ensembl	74_37	+1	known	missense	c.1426	p.F476L	1.000	pfam_Fibronectin_type3,superfamily_Fibronectin_type3,smart_Fibronectin_type3,pfscan_Fibronectin_type3	pfam_Neogenin_C,pfam_Fibronectin_type3,pfam_Ig_I-set,pfam_Immunoglobulin,pfam_Ig_V-set,superfamily_Fibronectin_type3,smart_Ig_sub,smart_Ig_sub2,smart_Fibronectin_type3,pfscan_Fibronectin_type3,pfscan_Ig-like_dom	-	no_errors	NEO1	HGNC	ENSG00000067141				126	0	0	64	35	35.3535
CLEC18C	0	genome.wustl.edu	37	16	70211290	70211290	+	Silent	SNP	T	T	C			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	16	70211290	70211290	T	C	SNP	CLEC18C	ENST00000314151	human	ensembl	74_37	+1	known	silent	c.363	p.V121	0.000	pfam_CAP_domain,superfamily_CAP_domain,smart_Allrgn_V5/Tpx1	pfam_C-type_lectin,pfam_CAP_domain,superfamily_CAP_domain,superfamily_C-type_lectin_fold,smart_Allrgn_V5/Tpx1,smart_EG-like_dom,smart_C-type_lectin,prints_Allrgn_V5/Tpx1,pfscan_EG-like_dom,pfscan_C-type_lectin	-	no_errors	CLEC18C	HGNC	ENSG00000157335				109	0	0	55	8	12.6984
DHX8	0	genome.wustl.edu	37	17	41584527	41584527	+	Missense_Mutation	SNP	A	A	G			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	17	41584527	41584527	A	G	SNP	DHX8	ENST00000262415	human	ensembl	74_37	+1	known	missense	c.1885	p.R629G	1.000	pfam_DNA/RNA_helicase_DEAD/DEAH_N,superfamily_P-loop_NTPase,smart_Helicase_ATP-bd,pfscan_Helicase_ATP-bd	pfam_Helicase-assoc_dom,pfam_DUF1605,pfam_Rbsml_prot_S1_RNA-bd_dom,pfam_Helicase_C,pfam_DNA/RNA_helicase_DEAD/DEAH_N,superfamily_P-loop_NTPase,superfamily_NA-bd_OB-fold,smart_RNA-binding_domain_S1,smart_Helicase_ATP-bd,smart_Helicase_C,smart_Helicase-assoc_dom,pfscan_Rbsml_prot_S1_RNA-bd_dom,pfscan_Helicase_ATP-bd,pfscan_Helicase_C	-	no_errors	DHX8	HGNC	ENSG00000067596				159	0	0	66	66	50
SCN4A	0	genome.wustl.edu	37	17	62025364	62025364	+	Silent	SNP	G	G	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	17	62025364	62025364	G	T	SNP	SCN4A	ENST00000435607	human	ensembl	74_37	-1	known	silent	c.3204	p.A1068	0.000	pfam_Ion_trans_dom	pfam_Ion_trans_dom,pfam_Na_trans_assoc,pfam_PKD1_2_channel,pfscan_IQ_motif_EF-hand-BS,prints_Na_channel_a4su,prints_Na_channel_asu,prints_PKD_2	-	no_errors	SCN4A	HGNC	ENSG00000007314				47	0	0	14	11	44
DLGAP1	0	genome.wustl.edu	37	18	3581872	3581872	+	Splice_Site	SNP	C	C	G			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	18	3581872	3581872	C	G	SNP	DLGAP1	ENST00000315677	human	ensembl	74_37	-1	known	splice_site	c.1965+1	e5+1	1.000	-	-	-	no_errors	DLGAP1	HGNC	ENSG00000170579				130	0	0	132	9	6.38298
CCDC102B	0	genome.wustl.edu	37	18	66513583	66513583	+	Missense_Mutation	SNP	A	A	G			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	18	66513583	66513583	A	G	SNP	CCDC102B	ENST00000358653	human	ensembl	74_37	+1	known	missense	c.904	p.T302A	0.000	NULL	NULL	-	no_errors	CCDC102B	HGNC	ENSG00000150636				38	0	0	39	12	23.5294
ZNF574	0	genome.wustl.edu	37	19	42584467	42584467	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	19	42584467	42584467	G	A	SNP	ZNF574	ENST00000222339	human	ensembl	74_37	+1	known	missense	c.1979	p.R660H	1.000	pfam_Znf_C2H2,smart_Znf_C2H2-like,pfscan_Znf_C2H2	pfam_Znf_C2H2,smart_Znf_C2H2-like,pfscan_Znf_C2H2	-	no_errors	ZNF574	HGNC	ENSG00000105732				101	0	0	16	94	85.4545
UHRF1	0	genome.wustl.edu	37	19	4930857	4930857	+	RNA	SNP	G	G	C			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	19	4930857	4930857	G	C	SNP	UHRF1	ENST00000262952	human	ensembl	74_37	+1	known	rna	NULL	NULL	1.000	-	-	-	no_errors	UHRF1	HGNC	ENSG00000034063				106	0	0	15	53	77.9412
ZNF701	0	genome.wustl.edu	37	19	53086109	53086109	+	Missense_Mutation	SNP	G	G	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	19	53086109	53086109	G	T	SNP	ZNF701	ENST00000301093	human	ensembl	74_37	+1	known	missense	c.995	p.G332V	0.975	pfscan_Znf_C2H2	pfam_Znf_C2H2,pfam_Krueppel-associated_box,superfamily_Krueppel-associated_box,smart_Krueppel-associated_box,smart_Znf_C2H2-like,pfscan_Znf_C2H2,pfscan_Krueppel-associated_box	-	no_errors	ZNF701	HGNC	ENSG00000167562				60	0	0	46	15	24.5902
CNOT3	0	genome.wustl.edu	37	19	54647253	54647253	+	Splice_Site	SNP	G	G	C			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	19	54647253	54647253	G	C	SNP	CNOT3	ENST00000221232	human	ensembl	74_37	+1	known	splice_site	c.168+1	e3+1	1.000	-	-	-	no_errors	CNOT3	HGNC	ENSG00000088038				70	0	0	63	16	20.2532
ZNF814	0	genome.wustl.edu	37	19	58385546	58385546	+	Missense_Mutation	SNP	G	G	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	19	58385546	58385546	G	T	SNP	ZNF814	ENST00000435989	human	ensembl	74_37	-1	known	missense	c.1212	p.D404E	0.000	pfscan_Znf_C2H2	pfam_Znf_C2H2,pfam_Krueppel-associated_box,superfamily_Krueppel-associated_box,smart_Krueppel-associated_box,smart_Znf_C2H2-like,pfscan_Znf_C2H2,pfscan_Krueppel-associated_box	-	no_errors	ZNF814	HGNC	ENSG00000204514				8	0	0	14	3	17.6471
TRIM28	0	genome.wustl.edu	37	19	59060921	59060921	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	19	59060921	59060921	G	A	SNP	TRIM28	ENST00000253024	human	ensembl	74_37	+1	known	missense	c.1886	p.R629H	0.985	pfam_Znf_PHD-finger,superfamily_Znf_FYVE_PHD,smart_Znf_PHD,smart_Znf_RING,pfscan_Znf_PHD-finger	pfam_Znf_B-box,pfam_Znf_PHD-finger,superfamily_Znf_FYVE_PHD,superfamily_Bromodomain,smart_Znf_RING,smart_Znf_B-box,smart_Bbox_C,smart_Znf_PHD,smart_Bromodomain,pfscan_Znf_B-box,pfscan_Znf_PHD-finger,pfscan_Znf_RING	-	no_errors	TRIM28	HGNC	ENSG00000130726				108	0	0	19	131	87.3333
MBD5	0	genome.wustl.edu	37	2	149247083	149247083	+	Silent	SNP	G	G	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	2	149247083	149247083	G	A	SNP	MBD5	ENST00000407073	human	ensembl	74_37	+1	known	silent	c.3183	p.P1061	0.171	NULL	superfamily_DNA-bd_dom,smart_Methyl_CpG_DNA-bd,pfscan_Methyl_CpG_DNA-bd,pfscan_PWWP_dom	-	no_errors	MBD5	HGNC	ENSG00000204406				53	0	0	33	26	44.0678
PARD3B	0	genome.wustl.edu	37	2	206480274	206480274	+	Missense_Mutation	SNP	A	A	G			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	2	206480274	206480274	A	G	SNP	PARD3B	ENST00000406610	human	ensembl	74_37	+1	known	missense	c.3355	p.M1119V	0.000	NULL	pfam_DUF3534,pfam_PDZ,superfamily_PDZ,smart_PDZ,pfscan_PDZ	-	no_errors	PARD3B	HGNC	ENSG00000116117				116	0	0	102	28	21.5385
PRKAG3	0	genome.wustl.edu	37	2	219694947	219694947	+	Silent	SNP	G	G	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	2	219694947	219694947	G	A	SNP	PRKAG3	ENST00000233944	human	ensembl	74_37	-1	known	silent	c.387	p.S129	0.050	NULL	pfam_CBS_dom,smart_CBS_dom	-	no_errors	PRKAG3	HGNC	ENSG00000115592				33	0	0	42	10	19.2308
ZNF638	0	genome.wustl.edu	37	2	71650235	71650235	+	Missense_Mutation	SNP	G	G	C			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	2	71650235	71650235	G	C	SNP	ZNF638	ENST00000264447	human	ensembl	74_37	+1	known	missense	c.3591	p.E1197D	0.997	NULL	pfam_RRM_dom,smart_Znf_U1,smart_Znf_C2H2-like,smart_RRM_dom,pfscan_Znf_C2H2_matrin,pfscan_RRM_dom	-	no_errors	ZNF638	HGNC	ENSG00000075292				102	0	0	71	34	32.381
ZNF514	0	genome.wustl.edu	37	2	95815684	95815684	+	Silent	SNP	A	A	G			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	2	95815684	95815684	A	G	SNP	ZNF514	ENST00000295208	human	ensembl	74_37	-1	known	silent	c.546	p.D182	0.000	NULL	pfam_Znf_C2H2,pfam_Krueppel-associated_box,superfamily_Krueppel-associated_box,smart_Krueppel-associated_box,smart_Znf_C2H2-like,pfscan_Znf_C2H2,pfscan_Krueppel-associated_box	-	no_errors	ZNF514	HGNC	ENSG00000144026				143	0	0	121	49	28.8235
SIRPB1	0	genome.wustl.edu	37	20	1551635	1551635	+	Silent	SNP	G	G	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	20	1551635	1551635	G	T	SNP	SIRPB1	ENST00000381605	human	ensembl	74_37	-1	known	silent	c.900	p.T300	0.000	pfam_Ig_C1-set,pfam_CD80_C2-set,smart_Ig_sub,smart_Ig_C1-set,pfscan_Ig-like_dom	pfam_Ig_C1-set,pfam_CD80_C2-set,pfam_Ig_V-set,pfam_Immunoglobulin,smart_Ig_sub,smart_Ig_C1-set,pfscan_Ig-like_dom	-	no_errors	SIRPB1	HGNC	ENSG00000101307				87	0	0	109	28	20.438
BCAS1	0	genome.wustl.edu	37	20	52583568	52583568	+	Silent	SNP	T	T	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	20	52583568	52583568	T	A	SNP	BCAS1	ENST00000371440	human	ensembl	74_37	-1	known	silent	c.1320	p.V440	0.737	NULL	NULL	-	no_errors	BCAS1	HGNC	ENSG00000064787				152	0	0	222	19	7.88382
TFAP2C	0	genome.wustl.edu	37	20	55208570	55208570	+	Nonsense_Mutation	SNP	C	C	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	20	55208570	55208570	C	T	SNP	TFAP2C	ENST00000201031	human	ensembl	74_37	+1	known	nonsense	c.748	p.R250*	1.000	pfam_TF_AP2_C	pfam_TF_AP2_C,prints_TF_AP2_C,prints_TF_AP2_gamma	-	no_errors	TFAP2C	HGNC	ENSG00000087510				65	0	0	67	14	17.284
MTG2	0	genome.wustl.edu	37	20	60770943	60770943	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	20	60770943	60770943	G	A	SNP	MTG2	ENST00000370823	human	ensembl	74_37	+1	known	missense	c.290	p.R97H	1.000	pfam_GTP1_OBG_dom,superfamily_GTP1_OBG_dom,pirsf_GTP-bd_Obg/CgtA,tigrfam_GTP-bd_Obg/CgtA	pfam_GTP1_OBG_dom,pfam_GTP_binding_domain,pfam_Fe2_transport_prot_B_N,pfam_Small_GTPase_ARF/SAR,superfamily_P-loop_NTPase,superfamily_GTP1_OBG_dom,pirsf_GTP-bd_Obg/CgtA,prints_GTP_binding_domain,tigrfam_GTP-bd_Obg/CgtA,tigrfam_Small_GTP-bd_dom	-	no_errors	MTG2	HGNC	ENSG00000101181				72	0	0	57	12	17.3913
DSCAM	0	genome.wustl.edu	37	21	41414474	41414474	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	21	41414474	41414474	C	T	SNP	DSCAM	ENST00000400454	human	ensembl	74_37	-1	known	missense	c.5510	p.C1837Y	1.000	NULL	pfam_Ig_I-set,pfam_Fibronectin_type3,pfam_Immunoglobulin,pfam_Ig_V-set,superfamily_Fibronectin_type3,smart_Ig_sub2,smart_Ig_sub,smart_Ig_V-set_subgr,smart_Fibronectin_type3,pfscan_Fibronectin_type3,pfscan_Ig-like_dom	-	no_errors	DSCAM	HGNC	ENSG00000171587				144	0	0	63	41	39.4231
BCL2L13	0	genome.wustl.edu	37	22	18210043	18210043	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	22	18210043	18210043	G	A	SNP	BCL2L13	ENST00000317582	human	ensembl	74_37	+1	known	missense	c.1201	p.A401T	0.000	NULL	pfam_Blc2_fam,pfscan_Bcl2-like	-	no_errors	BCL2L13	HGNC	ENSG00000099968				71	0	0	12	63	84
CEP97	0	genome.wustl.edu	37	3	101451439	101451439	+	Silent	SNP	C	C	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	3	101451439	101451439	C	T	SNP	CEP97	ENST00000327230	human	ensembl	74_37	+1	known	silent	c.669	p.I223	0.276	NULL	pfam_IQ_motif_EF-hand-BS,superfamily_P-loop_NTPase,pfscan_IQ_motif_EF-hand-BS	-	no_errors	CEP97	HGNC	ENSG00000182504				53	0	0	26	7	21.2121
CD200R1	0	genome.wustl.edu	37	3	112648124	112648124	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	3	112648124	112648124	C	T	SNP	CD200R1	ENST00000308611	human	ensembl	74_37	-1	known	missense	c.433	p.V145M	0.528	NULL	pfam_CD80_C2-set,pfscan_Ig-like_dom	-	no_errors	CD200R1	HGNC	ENSG00000163606				109	0	0	89	5	5.31915
UMPS	0	genome.wustl.edu	37	3	124462864	124462864	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	3	124462864	124462864	G	A	SNP	UMPS	ENST00000232607	human	ensembl	74_37	+1	known	missense	c.1376	p.R459H	0.013	pfam_OMPdeCOase_dom,superfamily_RibuloseP-bd_barrel,smart_OMPdeCOase_dom,tigrfam_OMPdecase	pfam_OMPdeCOase_dom,pfam_PRibTrfase_dom,superfamily_RibuloseP-bd_barrel,smart_OMPdeCOase_dom,tigrfam_OMPdecase,tigrfam_Or_phspho_trans_dom	-	no_errors	UMPS	HGNC	ENSG00000114491				85	0	0	44	23	34.3284
EFCAB12	0	genome.wustl.edu	37	3	129140421	129140421	+	Missense_Mutation	SNP	G	G	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	3	129140421	129140421	G	T	SNP	EFCAB12	ENST00000326085	human	ensembl	74_37	-1	known	missense	c.275	p.A92D	0.000	NULL	pfscan_EF_hand_dom	-	no_errors	EFCAB12	HGNC	ENSG00000172771				66	0	0	33	25	43.1034
IGSF10	0	genome.wustl.edu	37	3	151163813	151163813	+	Missense_Mutation	SNP	G	G	C			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	3	151163813	151163813	G	C	SNP	IGSF10	ENST00000282466	human	ensembl	74_37	-1	known	missense	c.3956	p.P1319R	0.000	NULL	pfam_Ig_I-set,pfam_Immunoglobulin,pfam_Ig_V-set,smart_LRR-contain_N,smart_Leu-rich_rpt_typical-subtyp,smart_Cys-rich_flank_reg_C,smart_Ig_sub,smart_Ig_sub2,smart_Ig_V-set_subgr,pfscan_Ig-like_dom	-	no_errors	IGSF10	HGNC	ENSG00000152580				337	0	0	55	191	77.6423
HRASLS	0	genome.wustl.edu	37	3	192988433	192988433	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	3	192988433	192988433	C	A	SNP	HRASLS	ENST00000264735	human	ensembl	74_37	+1	known	missense	c.761	p.A254D	1.000	NULL	pfam_LRAT-like_dom	-	no_errors	HRASLS	HGNC	ENSG00000127252				81	0	0	44	19	30.1587
CCDC71	0	genome.wustl.edu	37	3	49200840	49200840	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	3	49200840	49200840	G	A	SNP	CCDC71	ENST00000321895	human	ensembl	74_37	-1	known	missense	c.802	p.R268W	0.000	NULL	NULL	-	no_errors	CCDC71	HGNC	ENSG00000177352				150	0	0	57	41	41.8367
FILIP1L	0	genome.wustl.edu	37	3	99568539	99568539	+	Nonsense_Mutation	SNP	G	G	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	3	99568539	99568539	G	A	SNP	FILIP1L	ENST00000354552	human	ensembl	74_37	-1	known	nonsense	c.1981	p.R661*	1.000	NULL	pfam_Cortactin-binding_p2_N,superfamily_Prefoldin,prints_Tropomyosin	-	no_errors	FILIP1L	HGNC	ENSG00000168386				150	0	0	67	38	36.1905
TTC29	0	genome.wustl.edu	37	4	147788681	147788681	+	Nonsense_Mutation	SNP	A	A	C			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	4	147788681	147788681	A	C	SNP	TTC29	ENST00000398886	human	ensembl	74_37	-1	known	nonsense	c.932	p.L311*	0.259	smart_TPR_repeat,pfscan_TPR-contain_dom	smart_TPR_repeat,pfscan_TPR-contain_dom	-	no_errors	TTC29	HGNC	ENSG00000137473				13	0	0	3	2	40
STIM2	0	genome.wustl.edu	37	4	27009159	27009159	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	4	27009159	27009159	G	A	SNP	STIM2	ENST00000382009	human	ensembl	74_37	+1	known	missense	c.1247	p.R416H	1.000	NULL	pfam_SAM_2,pfam_SAM_type1,superfamily_SAM/pointed,pfscan_SAM	-	no_errors	STIM2	HGNC	ENSG00000109689				42	0	0	30	2	6.25
ARHGAP24	0	genome.wustl.edu	37	4	86916641	86916641	+	Missense_Mutation	SNP	G	G	C			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	4	86916641	86916641	G	C	SNP	ARHGAP24	ENST00000395184	human	ensembl	74_37	+1	known	missense	c.1834	p.D612H	0.999	NULL	pfam_RhoGAP_dom,pfam_Pleckstrin_homology,superfamily_Rho_GTPase_activation_prot,smart_Pleckstrin_homology,smart_RhoGAP_dom,pfscan_Pleckstrin_homology,pfscan_RhoGAP_dom	-	no_errors	ARHGAP24	HGNC	ENSG00000138639				87	0	0	47	35	42.6829
EPB41L4A	0	genome.wustl.edu	37	5	111754701	111754701	+	Nonsense_Mutation	SNP	G	G	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	5	111754701	111754701	G	T	SNP	EPB41L4A	ENST00000261486	human	ensembl	74_37	-1	known	nonsense	c.36	p.Y12*	1.000	smart_Band_41_domain,pfscan_FERM_domain	pfam_FERM_central,pfam_FERM_N,pfam_FERM_PH-like_C,pfam_FERM-adjacent,superfamily_FERM_central,smart_Band_41_domain,pfscan_FERM_domain,prints_Band_41_fam,prints_Ez/rad/moesin_like	-	no_errors	EPB41L4A	HGNC	ENSG00000129595				76	0	0	24	15	38.4615
KIF20A	0	genome.wustl.edu	37	5	137521329	137521329	+	Silent	SNP	C	C	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	5	137521329	137521329	C	T	SNP	KIF20A	ENST00000394894	human	ensembl	74_37	+1	known	silent	c.2055	p.S685	0.049	NULL	pfam_Kinesin_motor_dom,superfamily_P-loop_NTPase,smart_Kinesin_motor_dom,pfscan_Kinesin_motor_dom,prints_Kinesin_motor_dom	-	no_errors	KIF20A	HGNC	ENSG00000112984				147	0	0	57	37	39.3617
PCDHGA10	0	genome.wustl.edu	37	5	140793840	140793840	+	Silent	SNP	G	G	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	5	140793840	140793840	G	A	SNP	PCDHGA10	ENST00000398610	human	ensembl	74_37	+1	known	silent	c.1098	p.L366	0.002	pfam_Cadherin,superfamily_Cadherin-like,pfscan_Cadherin	pfam_Cadherin,pfam_Cadherin_N,superfamily_Cadherin-like,smart_Cadherin,pfscan_Cadherin,prints_Cadherin	-	no_errors	PCDHGA10	HGNC	ENSG00000253846				40	0	0	28	3	9.67742
FBXW11	0	genome.wustl.edu	37	5	171295748	171295748	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	5	171295748	171295748	C	A	SNP	FBXW11	ENST00000265094	human	ensembl	74_37	-1	known	missense	c.1520	p.S507I	1.000	pfam_WD40_repeat,superfamily_WD40_repeat_dom,smart_WD40_repeat,pfscan_WD40_repeat,pfscan_WD40_repeat_dom	pfam_WD40_repeat,pfam_Beta-TrCP_D,pfam_F-box_dom,superfamily_WD40_repeat_dom,superfamily_F-box_dom,smart_F-box_dom,smart_WD40_repeat,pfscan_F-box_dom,pfscan_WD40_repeat,pfscan_WD40_repeat_dom,prints_G-protein_beta_WD-40_rep	-	no_errors	FBXW11	HGNC	ENSG00000072803				62	0	0	31	26	45.614
PDCD6	0	genome.wustl.edu	37	5	311478	311478	+	Silent	SNP	T	T	C			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	5	311478	311478	T	C	SNP	PDCD6	ENST00000264933	human	ensembl	74_37	+1	known	silent	c.438	p.I146	0.031	smart_EF_hand_dom	pfam_EF_hand_dom,smart_EF_hand_dom,pfscan_EF_hand_dom	-	no_errors	PDCD6	HGNC	ENSG00000249915				68	0	0	30	2	6.25
ZCCHC9	0	genome.wustl.edu	37	5	80608545	80608545	+	RNA	SNP	G	G	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	5	80608545	80608545	G	A	SNP	ZCCHC9	ENST00000506458	human	ensembl	74_37	+1	known	rna	NULL	NULL	0.000	-	-	-	no_errors	ZCCHC9	HGNC	ENSG00000131732				39	0	0	36	3	7.69231
GPR98	0	genome.wustl.edu	37	5	90004691	90004691	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	5	90004691	90004691	C	T	SNP	GPR98	ENST00000405460	human	ensembl	74_37	+1	known	missense	c.8789	p.T2930I	1.000	NULL	pfam_Calx_beta,pfam_EPTP,pfam_GPCR_2_secretin-like,pfam_GPS_dom,superfamily_ConA-like_lec_gl_sf,superfamily_Gal_Oxase/kelch_b-propeller,smart_Calx_beta,pfscan_EAR,pfscan_GPS_dom,pfscan_GPCR_2-like	-	no_errors	GPR98	HGNC	ENSG00000164199				97	0	0	49	26	34.6667
BAI3	0	genome.wustl.edu	37	6	70042817	70042817	+	Silent	SNP	C	C	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	6	70042817	70042817	C	T	SNP	BAI3	ENST00000370598	human	ensembl	74_37	+1	known	silent	c.3105	p.V1035	1.000	pfam_GPCR_2_secretin-like,pfscan_GPCR_2-like,prints_GPCR_2_secretin-like	pfam_GPCR_2_secretin-like,pfam_DUF3497,pfam_Thrombospondin_1_rpt,pfam_GPS_dom,superfamily_Thrombospondin_1_rpt,smart_Thrombospondin_1_rpt,smart_GPCR_2_extracellular_dom,smart_GPS_dom,pfscan_CUB_dom,pfscan_GPS_dom,pfscan_Thrombospondin_1_rpt,pfscan_GPCR_2_extracellular_dom,pfscan_GPCR_2-like,prints_GPCR_2_brain-spec_angio_inhib,prints_GPCR_2_secretin-like	-	no_errors	BAI3	HGNC	ENSG00000135298				36	0	0	45	6	11.7647
KCNQ5	0	genome.wustl.edu	37	6	73904416	73904416	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	6	73904416	73904416	C	T	SNP	KCNQ5	ENST00000402622	human	ensembl	74_37	+1	known	missense	c.2108	p.T703M	1.000	NULL	pfam_K_chnl_volt-dep_KCNQ_C,pfam_Ion_trans_dom,pfam_2pore_dom_K_chnl_dom,prints_K_chnl_volt-dep_KCNQ,prints_K_chnl	-	no_errors	KCNQ5	HGNC	ENSG00000185760				167	0	0	121	42	25.7669
PHF14	0	genome.wustl.edu	37	7	11091378	11091378	+	Missense_Mutation	SNP	G	G	C			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	7	11091378	11091378	G	C	SNP	PHF14	ENST00000403050	human	ensembl	74_37	+1	known	missense	c.2452	p.E818Q	1.000	NULL	pfam_Znf_PHD-finger,superfamily_Znf_FYVE_PHD,smart_Znf_PHD,pfscan_Znf_PHD-finger	-	no_errors	PHF14	HGNC	ENSG00000106443				37	0	0	52	28	35
CDK13	0	genome.wustl.edu	37	7	40132775	40132775	+	Silent	SNP	A	A	C			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	7	40132775	40132775	A	C	SNP	CDK13	ENST00000181839	human	ensembl	74_37	+1	known	silent	c.3627	p.G1209	0.016	NULL	pfam_Prot_kinase_dom,pfam_Ser-Thr/Tyr_kinase_cat_dom,superfamily_Kinase-like_dom,smart_Ser/Thr_dual-sp_kinase_dom,smart_Tyr_kinase_cat_dom,pfscan_Prot_kinase_dom	-	no_errors	CDK13	HGNC	ENSG00000065883				75	0	0	80	21	20.7921
PAPOLB	0	genome.wustl.edu	37	7	4901375	4901375	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	7	4901375	4901375	C	T	SNP	PAPOLB	ENST00000404991	human	ensembl	74_37	-1	known	missense	c.64	p.V22I	0.885	pfam_PolA_pol_cen_dom,pirsf_PolyA_polymerase	pfam_PolA_pol_cen_dom,pfam_PolA_pol_RNA-bd_dom,pfam_Nucleotidyltransferase,superfamily_NuclTrfase_I_C,pirsf_PolyA_polymerase	-	no_errors	PAPOLB	HGNC	ENSG00000218823				18	0	0	20	6	23.0769
TAF6	0	genome.wustl.edu	37	7	99709580	99709580	+	Missense_Mutation	SNP	T	T	C			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	7	99709580	99709580	T	C	SNP	TAF6	ENST00000344095	human	ensembl	74_37	-1	known	missense	c.763	p.M255V	1.000	superfamily_ARM-type_fold	pfam_DUF1546,pfam_TAF_TATA-bd,superfamily_Histone-fold,superfamily_ARM-type_fold,smart_TAF_TATA-bd	-	no_errors	TAF6	HGNC	ENSG00000106290				51	0	0	24	31	56.3636
OXR1	0	genome.wustl.edu	37	8	107691447	107691447	+	Missense_Mutation	SNP	A	A	C			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	8	107691447	107691447	A	C	SNP	OXR1	ENST00000442977	human	ensembl	74_37	+1	known	missense	c.233	p.Q78P	1.000	NULL	pfam_TLDc,pfam_LysM_dom,pfam_GRAM,smart_LysM_dom,smart_TLDc	-	no_errors	OXR1	HGNC	ENSG00000164830				59	0	0	64	14	17.9487
PLEC	0	genome.wustl.edu	37	8	145009469	145009469	+	Silent	SNP	G	G	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	8	145009469	145009469	G	A	SNP	PLEC	ENST00000322810	human	ensembl	74_37	-1	known	silent	c.1026	p.I342	0.997	pfam_CH-domain,superfamily_CH-domain,smart_CH-domain,pfscan_CH-domain	pfam_Plectin_repeat,pfam_CH-domain,pfam_S10_plectin_N,superfamily_CH-domain,superfamily_Chorismate_mutase_type_II,smart_CH-domain,smart_Spectrin/alpha-actinin,smart_Plectin_repeat,pfscan_CH-domain	-	no_errors	PLEC	HGNC	ENSG00000178209				43	0	0	36	12	25
OPLAH	0	genome.wustl.edu	37	8	145109753	145109753	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	8	145109753	145109753	C	T	SNP	OPLAH	ENST00000426825	human	ensembl	74_37	-1	known	missense	c.2473	p.G825R	1.000	pfam_Hydantoinase_B	pfam_Hydantoinase_B,pfam_Hydantoinase_A,pfam_Hydant_A_N	-	no_errors	OPLAH	HGNC	ENSG00000178814				45	0	0	57	26	31.3253
MIR320A	0	genome.wustl.edu	37	8	22102506	22102506	+	RNA	SNP	T	T	C			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	8	22102506	22102506	T	C	SNP	MIR320A	ENST00000385302	human	ensembl	74_37	-1	known	rna	NULL	NULL	1.000	-	-	-	no_errors	MIR320A	HGNC	ENSG00000208037				155	0	0	14	44	75.8621
KCNU1	0	genome.wustl.edu	37	8	36644891	36644891	+	Missense_Mutation	SNP	G	G	C			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	8	36644891	36644891	G	C	SNP	KCNU1	ENST00000399881	human	ensembl	74_37	+1	known	missense	c.263	p.R88P	0.070	NULL	pfam_K_chnl_Ca-activ_BK_asu,pfam_2pore_dom_K_chnl_dom,prints_K_chnl_Ca-activ_BK_asu	-	no_errors	KCNU1	HGNC	ENSG00000215262				20	0	0	2	10	83.3333
XKR4	0	genome.wustl.edu	37	8	56015173	56015173	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	8	56015173	56015173	C	T	SNP	XKR4	ENST00000327381	human	ensembl	74_37	+1	known	missense	c.125	p.S42L	0.998	NULL	pfam_Transport_prot_XK	-	no_errors	XKR4	HGNC	ENSG00000206579				21	0	0	26	7	21.2121
HINT2	0	genome.wustl.edu	37	9	35813021	35813021	+	RNA	SNP	A	A	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	9	35813021	35813021	A	T	SNP	HINT2	ENST00000461169	human	ensembl	74_37	-1	known	rna	NULL	NULL	0.001	-	-	-	no_errors	HINT2	HGNC	ENSG00000137133				82	0	0	67	18	21.1765
KLHL13	0	genome.wustl.edu	37	X	117032969	117032969	+	Nonsense_Mutation	SNP	C	C	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	X	117032969	117032969	C	A	SNP	KLHL13	ENST00000539496	human	ensembl	74_37	-1	known	nonsense	c.1879	p.E627*	1.000	smart_Kelch_1,pirsf_Kelch-like_gigaxonin	pfam_Kelch_1,pfam_BTB_POZ,pfam_BACK,pfam_Kelch_2,superfamily_BTB/POZ_fold,smart_BTB/POZ-like,smart_BACK,smart_Kelch_1,pirsf_Kelch-like_gigaxonin,pfscan_BTB/POZ-like	-	no_errors	KLHL13	HGNC	ENSG00000003096				59	0	0	14	47	77.0492
DOCK11	0	genome.wustl.edu	37	X	117796673	117796673	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	X	117796673	117796673	C	T	SNP	DOCK11	ENST00000276202	human	ensembl	74_37	+1	known	missense	c.4994	p.A1665V	1.000	NULL	pfam_DOCK_C,pfam_DOCK_C/D_N,pfam_Pleckstrin_homology,smart_Pleckstrin_homology,pfscan_Pleckstrin_homology	-	no_errors	DOCK11	HGNC	ENSG00000147251				37	0	0	5	17	77.2727
OTC	0	genome.wustl.edu	37	X	38226603	38226603	+	Missense_Mutation	SNP	A	A	G			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	X	38226603	38226603	A	G	SNP	OTC	ENST00000039007	human	ensembl	74_37	+1	known	missense	c.137	p.K46R	0.990	pfam_Asp/Orn_carbamoyltranf_P-bd,superfamily_Asp/Orn_carbamoylTrfase,tigrfam_Orn/put_carbamltrans	pfam_Asp_carbamoyltransf_Asp/Orn-bd,pfam_Asp/Orn_carbamoyltranf_P-bd,superfamily_Asp/Orn_carbamoylTrfase,prints_Orn/put_carbamltrans,prints_Asp/Orn_carbamoylTrfase,prints_Asp_carbamoyltransf,tigrfam_Orn/put_carbamltrans	-	no_errors	OTC	HGNC	ENSG00000036473				37	0	0	26	3	10.3448
NLGN4X	0	genome.wustl.edu	37	X	6069107	6069107	+	Missense_Mutation	SNP	G	G	C			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	X	6069107	6069107	G	C	SNP	NLGN4X	ENST00000381093	human	ensembl	74_37	-1	known	missense	c.401	p.T134S	0.995	pfam_CarbesteraseB	pfam_CarbesteraseB,pfam_AB_hydrolase_3,prints_Neuroligin	-	no_errors	NLGN4X	HGNC	ENSG00000146938				82	0	0	16	60	78.9474
ARID1A	0	genome.wustl.edu	37	1	27100120	27100123	+	Frame_Shift_Del	DEL	CAGC	CAGC	-			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	CAGC	CAGC					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	1	27100120	27100123	CAGC	-	DEL	ARID1A	ENST00000324856	human	ensembl	74_37	+1	known	frame_shift_del	c.3916_3919	p.Q1306fs	1.000:1.000:1.000:1.000	NULL	pfam_DUF3518,pfam_ARID/BRIGHT_DNA-bd,superfamily_ARID/BRIGHT_DNA-bd,superfamily_ARM-type_fold,smart_ARID/BRIGHT_DNA-bd,pfscan_ARID/BRIGHT_DNA-bd	-	no_errors	ARID1A	HGNC	ENSG00000117713				148	0	0	40	59	59.596
HBD	0	genome.wustl.edu	37	11	5254296	5254297	+	Frame_Shift_Ins	INS	-	-	A			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	-	-					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	11	5254296	5254297	-	A	INS	HBD	ENST00000380299	human	ensembl	74_37	-1	known	frame_shift_ins	c.342_341	p.L115fs	0.008:0.006	superfamily_Globin-like,pfscan_Globin	pfam_Globin,superfamily_Globin-like,prints_Haemoglobin_b,pfscan_Globin	-	no_errors	HBD	HGNC	ENSG00000223609				83	0	0	26	30	53.5714
TRIM51HP	0	genome.wustl.edu	37	11	55065032	55065032	+	RNA	DEL	T	T	-			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	11	55065032	55065032	T	-	DEL	TRIM51HP	ENST00000526016	human	ensembl	74_37	-1	putative	rna	NULL	NULL	0.010	-	-	-	no_errors	TRIM51HP	HGNC	ENSG00000166007				48	0	0	22	8	26.6667
RFC3	0	genome.wustl.edu	37	13	34398063	34398063	+	Frame_Shift_Del	DEL	A	A	-			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	13	34398063	34398063	A	-	DEL	RFC3	ENST00000380071	human	ensembl	74_37	+1	known	frame_shift_del	c.235	p.I82fs	1.000	pfam_ATPase_AAA_core,superfamily_P-loop_NTPase,smart_AAA+_ATPase	pfam_ATPase_AAA_core,superfamily_P-loop_NTPase,superfamily_DNA_pol3_clamp-load_cplx_C,smart_AAA+_ATPase	-	no_errors	RFC3	HGNC	ENSG00000133119				21	0	0	21	2	8.69565
ILF3	0	genome.wustl.edu	37	19	10800246	10800246	+	RNA	DEL	G	G	-			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	19	10800246	10800246	G	-	DEL	ILF3	ENST00000586544	human	ensembl	74_37	+1	known	rna	NULL	NULL	0.027	-	-	-	no_errors	ILF3	HGNC	ENSG00000129351				44	0	0	23	10	30.303
HIST1H1B	0	genome.wustl.edu	37	6	27834651	27834716	+	In_Frame_Del	DEL	CTTGGCCTTTGCAGCTTTAGGTTTTGCTGCTTTGGGCTTAGCGGCTTTGGGCTTTGCCGCCTTCGG	CTTGGCCTTTGCAGCTTTAGGTTTTGCTGCTTTGGGCTTAGCGGCTTTGGGCTTTGCCGCCTTCGG	-			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	CTTGGCCTTTGCAGCTTTAGGTTTTGCTGCTTTGGGCTTAGCGGCTTTGGGCTTTGCCGCCTTCGG	CTTGGCCTTTGCAGCTTTAGGTTTTGCTGCTTTGGGCTTAGCGGCTTTGGGCTTTGCCGCCTTCGG					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	6	27834651	27834716	CTTGGCCTTTGCAGCTTTAGGTTTTGCTGCTTTGGGCTTAGCGGCTTTGGGCTTTGCCGCCTTCGG	-	DEL	HIST1H1B	ENST00000331442	human	ensembl	74_37	-1	known	in_frame_del	c.657_592	p.PKAAKPKAAKPKAAKPKAAKAK198in_frame_del	1.000:1.000:0.990:0.032:0.924:0.963:0.995:0.997:0.987:0.095:0.994:0.999:0.999:1.000:1.000:0.995:1.000:1.000:0.930:1.000:1.000:1.000:1.000:0.998:0.272:0.997:0.996:0.008:1.000:1.000:1.000:1.000:0.998:0.075:0.998:1.000:1.000:1.000:0.989:0.000:0.001:0.000:0.000:0.636:0.625:0.597:0.991:0.995:0.950:1.000:0.993:0.127:0.891:0.899:0.729:0.782:0.482:0.003:0.982:0.999:0.988:1.000:0.997:0.208:0.997:1.000	prints_Histone_H5	pfam_Histone_H1/H5_H15,smart_Histone_H1/H5_H15,prints_Histone_H5	-	no_errors	HIST1H1B	HGNC	ENSG00000184357				119	0	0	58	8	12.1212
HIST1H1B	0	genome.wustl.edu	37	6	27834714	27834716	+	In_Frame_Del	DEL	CGG	CGG	-			TCGA-BR-A4J1-01A-11D-A25D-08	TCGA-BR-A4J1-10A-01D-A25E-08	CGG	CGG					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	9d994319-688e-483d-8df3-0dcbfbaf836a	5bfcbe72-fd16-4bd2-9ae0-90dd16426ffb	6	27834714	27834716	CGG	-	DEL	HIST1H1B	ENST00000331442	human	ensembl	74_37	-1	known	in_frame_del	c.594_592	p.P198in_frame_del	0.208:0.997:1.000	prints_Histone_H5	pfam_Histone_H1/H5_H15,smart_Histone_H1/H5_H15,prints_Histone_H5	-	no_errors	HIST1H1B	HGNC	ENSG00000184357				119	0	0	58	8	12.1212
