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
SORT1	0	genome.wustl.edu	37	1	109870142	109870142	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	1	109870142	109870142	C	T	SNP	SORT1	ENST00000256637	human	ensembl	74_37	-1	known	missense	c.1453	p.V485I	0.980	smart_VPS10	pfam_BNR_rpt,smart_VPS10	-	no_errors	SORT1	HGNC	ENSG00000134243				66	0	0	50	9	15.2542
HNRNPCL1	0	genome.wustl.edu	37	1	12907938	12907938	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	1	12907938	12907938	C	T	SNP	HNRNPCL1	ENST00000317869	human	ensembl	74_37	-1	known	missense	c.205	p.G69R	1.000	pfam_RRM_dom,smart_RRM_dom,pirsf_hnRNP_C_Raly,pfscan_RRM_dom	pfam_RRM_dom,smart_RRM_dom,pirsf_hnRNP_C_Raly,pfscan_RRM_dom	-	no_errors	HNRNPCL1	HGNC	ENSG00000179172				256	0	0	175	29	14.2157
ABL2	0	genome.wustl.edu	37	1	179077710	179077710	+	Nonsense_Mutation	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	1	179077710	179077710	G	A	SNP	ABL2	ENST00000502732	human	ensembl	74_37	-1	known	nonsense	c.2692	p.R898*	0.941	NULL	pfam_Ser-Thr/Tyr_kinase_cat_dom,pfam_F-actin_binding,pfam_Prot_kinase_dom,pfam_SH2,pfam_SH3_domain,pfam_SH3_2,pfam_SH3-like_bac-type,superfamily_Kinase-like_dom,superfamily_SH3_domain,smart_SH3_domain,smart_SH2,smart_Ser/Thr_dual-sp_kinase_dom,smart_Tyr_kinase_cat_dom,smart_F-actin_binding,pfscan_SH2,pfscan_SH3_domain,pfscan_Prot_kinase_dom,prints_Ser-Thr/Tyr_kinase_cat_dom,prints_SH2	-	no_errors	ABL2	HGNC	ENSG00000143322				84	0	0	56	10	15.1515
LHX4	0	genome.wustl.edu	37	1	180241097	180241097	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	1	180241097	180241097	C	T	SNP	LHX4	ENST00000263726	human	ensembl	74_37	+1	known	missense	c.734	p.S245F	1.000	NULL	pfam_Znf_LIM,pfam_Homeobox_dom,superfamily_Homeodomain-like,smart_Znf_LIM,smart_Homeobox_dom,pfscan_Znf_LIM,pfscan_Homeobox_dom	-	no_errors	LHX4	HGNC	ENSG00000121454				71	0	0	51	22	30.137
RGL1	0	genome.wustl.edu	37	1	183891428	183891428	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	1	183891428	183891428	G	A	SNP	RGL1	ENST00000304685	human	ensembl	74_37	+1	known	missense	c.2182	p.A728T	0.968	pfam_Ras-assoc,smart_Ras-assoc,pfscan_Ras-assoc	pfam_RasGRF_CDC25,pfam_Ras-like_Gua-exchang_fac_N,pfam_Ras-assoc,superfamily_Ras_GEF_dom,smart_Ras-like_Gua-exchang_fac_N,smart_RasGRF_CDC25,smart_Ras-assoc,pfscan_Ras-assoc,pfscan_RasGRF_CDC25,pfscan_Ras-like_Gua-exchang_fac_N	-	no_errors	RGL1	HGNC	ENSG00000143344				24	0	0	42	10	19.2308
PROX1	0	genome.wustl.edu	37	1	214171517	214171517	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	1	214171517	214171517	G	A	SNP	PROX1	ENST00000261454	human	ensembl	74_37	+1	known	missense	c.1639	p.A547T	1.000	pfam_Homeo_prospero_dom	pfam_Homeo_prospero_dom,superfamily_Homeodomain-like	-	no_errors	PROX1	HGNC	ENSG00000117707				163	0	0	105	36	25.5319
USH2A	0	genome.wustl.edu	37	1	215802319	215802319	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	1	215802319	215802319	C	T	SNP	USH2A	ENST00000366943	human	ensembl	74_37	-1	known	missense	c.15428	p.R5143Q	0.011	NULL	pfam_Fibronectin_type3,pfam_EGF_laminin,pfam_Laminin_G,superfamily_ConA-like_lec_gl_sf,superfamily_Fibronectin_type3,smart_LamG-like,smart_Laminin_N,smart_EGF_laminin,smart_Fibronectin_type3,smart_Laminin_G,pfscan_EGF_laminin,pfscan_Fibronectin_type3,pfscan_Laminin_G,pfscan_Laminin_N	-	no_errors	USH2A	HGNC	ENSG00000042781				203	0	0	121	48	28.4024
OBSCN	0	genome.wustl.edu	37	1	228404826	228404826	+	Missense_Mutation	SNP	G	G	C			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	1	228404826	228404826	G	C	SNP	OBSCN	ENST00000422127	human	ensembl	74_37	+1	known	missense	c.2490	p.W830C	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_Prot_kinase_dom,pfam_Ser-Thr/Tyr_kinase_cat_dom,pfam_Fibronectin_type3,pfam_DH-domain,pfam_IQ_motif_EF-hand-BS,superfamily_Kinase-like_dom,superfamily_DH-domain,superfamily_Fibronectin_type3,superfamily_SH3_domain,smart_Ig_sub,smart_Ig_sub2,smart_Ig_V-set_subgr,smart_Fibronectin_type3,smart_IQ_motif_EF-hand-BS,smart_DH-domain,smart_Pleckstrin_homology,smart_Ser/Thr_dual-sp_kinase_dom,smart_Tyr_kinase_cat_dom,pfscan_Fibronectin_type3,pfscan_IQ_motif_EF-hand-BS,pfscan_Pleckstrin_homology,pfscan_Prot_kinase_dom,pfscan_Ig-like_dom,pfscan_DH-domain	-	no_errors	OBSCN	HGNC	ENSG00000154358				112	0	0	74	22	22.9167
OR2T6	0	genome.wustl.edu	37	1	248551682	248551682	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	1	248551682	248551682	C	T	SNP	OR2T6	ENST00000355728	human	ensembl	74_37	+1	known	missense	c.773	p.T258M	0.000	pfam_GPCR_Rhodpsn,pfscan_GPCR_Rhodpsn_7TM	pfam_GPCR_Rhodpsn,prints_Olfact_rcpt,prints_GPCR_Rhodpsn,pfscan_GPCR_Rhodpsn_7TM	-	no_errors	OR2T6	HGNC	ENSG00000198104				130	1	0.763359	77	23	23
KIAA0754	0	genome.wustl.edu	37	1	39878876	39878876	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	1	39878876	39878876	C	T	SNP	KIAA0754	ENST00000530275	human	ensembl	74_37	+1	known	missense	c.2531	p.T844I	0.010	NULL	NULL	-	no_errors	KIAA0754	HGNC	ENSG00000255103				27	0	0	32	3	8.57143
MSH4	0	genome.wustl.edu	37	1	76282161	76282161	+	Nonsense_Mutation	SNP	G	G	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	1	76282161	76282161	G	T	SNP	MSH4	ENST00000263187	human	ensembl	74_37	+1	known	nonsense	c.919	p.E307*	1.000	pfam_DNA_mismatch_repair_MutS_core,superfamily_DNA_mmatch_repair_MutS_con_dom	pfam_DNA_mismatch_repair_MutS_C,pfam_DNA_mismatch_repair_MutS_core,pfam_DNA_mmatch_repair_MutS_con_dom,pfam_DNA_mismatch_repair_MutS_clamp,superfamily_DNA_mismatch_repair_MutS_core,superfamily_P-loop_NTPase,superfamily_DNA_mmatch_repair_MutS_con_dom,smart_DNA_mismatch_repair_MutS_core,smart_DNA_mismatch_repair_MutS_C	-	no_errors	MSH4	HGNC	ENSG00000057468				51	0	0	28	10	26.3158
PDCD11	0	genome.wustl.edu	37	10	105202030	105202030	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	10	105202030	105202030	C	T	SNP	PDCD11	ENST00000369797	human	ensembl	74_37	+1	known	missense	c.4768	p.R1590C	0.996	NULL	pfam_Rbsml_prot_S1_RNA-bd_dom,pfam_Suf,superfamily_NA-bd_OB-fold,smart_RNA-binding_domain_S1,smart_HAT,pfscan_TPR-contain_dom,pfscan_Rbsml_prot_S1_RNA-bd_dom,prints_Ribosomal_S1	-	no_errors	PDCD11	HGNC	ENSG00000148843				178	1	0.558659	84	68	44.7368
NET1	0	genome.wustl.edu	37	10	5498109	5498109	+	Silent	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	10	5498109	5498109	C	T	SNP	NET1	ENST00000355029	human	ensembl	74_37	+1	known	silent	c.1257	p.N419	1.000	pfam_Pleckstrin_homology,smart_Pleckstrin_homology,pfscan_Pleckstrin_homology	pfam_DH-domain,pfam_Pleckstrin_homology,superfamily_DH-domain,smart_DH-domain,smart_Pleckstrin_homology,pfscan_Pleckstrin_homology,pfscan_DH-domain	-	no_errors	NET1	HGNC	ENSG00000173848				131	0	0	79	19	19.3878
PTEN	0	genome.wustl.edu	37	10	89692905	89692905	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	10	89692905	89692905	G	A	SNP	PTEN	ENST00000371953	human	ensembl	74_37	+1	known	missense	c.389	p.R130Q	1.000	pfam_Dual-sp_phosphatase_cat-dom,pfam_Tyr_Pase_rcpt/non-rcpt,smart_Tyr_Pase_cat,pirsf_Bifunc_PIno_P3_Pase/Pase_PTEN,pfscan_Tyr/Dual-sp_Pase,pfscan_Phosphatase_tensin-typ	pfam_Tensin_phosphatase_C2-dom,pfam_Dual-sp_phosphatase_cat-dom,pfam_Tyr_Pase_rcpt/non-rcpt,superfamily_C2_dom,smart_Tyr_Pase_cat,pirsf_Bifunc_PIno_P3_Pase/Pase_PTEN,pfscan_Tyr/Dual-sp_Pase,pfscan_Phosphatase_tensin-typ,pfscan_Tensin_phosphatase_C2-dom	-	no_errors	PTEN	HGNC	ENSG00000171862				133	0	0	76	28	26.9231
ANO3	0	genome.wustl.edu	37	11	26619976	26619976	+	Silent	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	11	26619976	26619976	C	T	SNP	ANO3	ENST00000256737	human	ensembl	74_37	+1	known	silent	c.1512	p.I504	1.000	pfam_Anoctamin	pfam_Anoctamin	-	no_errors	ANO3	HGNC	ENSG00000134343				105	0	0	64	29	31.1828
CRY2	0	genome.wustl.edu	37	11	45892066	45892066	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	11	45892066	45892066	C	T	SNP	CRY2	ENST00000443527	human	ensembl	74_37	+1	known	missense	c.1595	p.S532L	1.000	NULL	pfam_Photolyase_FAD-bd/Cryptochr_C,pfam_DNA_photolyase_N,superfamily_Photolyase_FAD-bd/Cryptochr_C,superfamily_DNA_photolyase_N	-	no_errors	CRY2	HGNC	ENSG00000121671				66	0	0	40	6	13.0435
DENND5A	0	genome.wustl.edu	37	11	9167339	9167339	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	11	9167339	9167339	C	T	SNP	DENND5A	ENST00000328194	human	ensembl	74_37	-1	known	missense	c.2881	p.V961I	0.997	superfamily_Lipase_LipOase,pfscan_PLAT/LH2_dom	pfam_DENN_dom,pfam_Run,pfam_uDENN_dom,pfam_dDENN_dom,pfam_PLAT/LH2_dom,superfamily_Lipase_LipOase,smart_uDENN_dom,smart_DENN_dom,smart_dDENN_dom,smart_Run,pfscan_DENN_dom,pfscan_uDENN_dom,pfscan_dDENN_dom,pfscan_PLAT/LH2_dom,pfscan_Run	-	no_errors	DENND5A	HGNC	ENSG00000184014				401	0	0	302	67	18.1572
TAS2R7	0	genome.wustl.edu	37	12	10954759	10954759	+	Silent	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	12	10954759	10954759	G	A	SNP	TAS2R7	ENST00000240687	human	ensembl	74_37	-1	known	silent	c.411	p.C137	0.000	pfam_TAS2_rcpt,pfam_GPCR_Rhodpsn,pfscan_GPCR_Rhodpsn_7TM	pfam_TAS2_rcpt,pfam_GPCR_Rhodpsn,pfscan_GPCR_Rhodpsn_7TM	-	no_errors	TAS2R7	HGNC	ENSG00000121377				46	0	0	19	7	26.9231
SLCO1B3	0	genome.wustl.edu	37	12	21068976	21068976	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	12	21068976	21068976	C	A	SNP	SLCO1B3	ENST00000261196	human	ensembl	74_37	+1	known	missense	c.1904	p.P635Q	0.000	superfamily_MFS_dom_general_subst_transpt,pfscan_MFS_dom,tigrfam_OA_transporter	pfam_OA_transporter,pfam_MFS,pfam_Kazal_dom,superfamily_MFS_dom_general_subst_transpt,pfscan_MFS_dom,tigrfam_OA_transporter	-	no_errors	SLCO1B3	HGNC	ENSG00000111700				47	0	0	33	10	23.2558
TIMELESS	0	genome.wustl.edu	37	12	56824049	56824049	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	12	56824049	56824049	G	A	SNP	TIMELESS	ENST00000553532	human	ensembl	74_37	-1	known	missense	c.926	p.S309L	0.996	NULL	pfam_TIMELESS_C,pfam_Timeless	-	no_errors	TIMELESS	HGNC	ENSG00000111602				73	0	0	60	21	25.9259
RASSF9	0	genome.wustl.edu	37	12	86199380	86199380	+	Silent	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	12	86199380	86199380	G	A	SNP	RASSF9	ENST00000361228	human	ensembl	74_37	-1	known	silent	c.408	p.N136	0.721	NULL	smart_Ras-assoc,pfscan_Ras-assoc	-	no_errors	RASSF9	HGNC	ENSG00000198774				314	0	0	231	81	25.9615
UPF3A	0	genome.wustl.edu	37	13	115047559	115047559	+	Silent	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	13	115047559	115047559	C	T	SNP	UPF3A	ENST00000375299	human	ensembl	74_37	+1	known	silent	c.271	p.L91	1.000	pfam_Nonsense_mediated_decay_UPF3	pfam_Nonsense_mediated_decay_UPF3	-	no_errors	UPF3A	HGNC	ENSG00000169062				9	0	0	11	3	21.4286
N4BP2L2	0	genome.wustl.edu	37	13	33109952	33109952	+	Missense_Mutation	SNP	T	T	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	13	33109952	33109952	T	A	SNP	N4BP2L2	ENST00000267068	human	ensembl	74_37	-1	known	missense	c.1213	p.I405F	0.997	pfam_Zeta_toxin_domain,superfamily_P-loop_NTPase	pfam_Zeta_toxin_domain,superfamily_P-loop_NTPase	-	no_errors	N4BP2L2	HGNC	ENSG00000244754				101	0	0	68	6	8.10811
THBS1	0	genome.wustl.edu	37	15	39877765	39877765	+	Splice_Site	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	15	39877765	39877765	G	A	SNP	THBS1	ENST00000260356	human	ensembl	74_37	+1	known	splice_site	c.1120+1	e6+1	1.000	-	-	-	no_errors	THBS1	HGNC	ENSG00000137801				54	0	0	29	15	34.0909
AP3B2	0	genome.wustl.edu	37	15	83346895	83346895	+	Missense_Mutation	SNP	T	T	C			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	15	83346895	83346895	T	C	SNP	AP3B2	ENST00000261722	human	ensembl	74_37	-1	known	missense	c.1207	p.N403D	1.000	pfam_Clathrin/coatomer_adapt-like_N,superfamily_ARM-type_fold,pirsf_AP3_beta	pfam_Clathrin/coatomer_adapt-like_N,superfamily_ARM-type_fold,superfamily_Coatomer/clathrin_app_Ig-like,pirsf_AP3_beta	-	no_errors	AP3B2	HGNC	ENSG00000103723				51	0	0	35	8	18.6047
PLCG2	0	genome.wustl.edu	37	16	81916924	81916924	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	16	81916924	81916924	G	A	SNP	PLCG2	ENST00000359376	human	ensembl	74_37	+1	known	missense	c.743	p.R248K	1.000	pfam_PLipase_C_EF-hand-like,pirsf_PLC-gamma	pfam_PLipase_C_PInositol-sp_X_dom,pfam_SH2,pfam_PLipase_C_Pinositol-sp_Y,pfam_SH3_domain,pfam_C2_dom,pfam_PLipase_C_EF-hand-like,pfam_SH3_2,superfamily_PLC-like_Pdiesterase_TIM-brl,superfamily_C2_dom,superfamily_SH3_domain,smart_Pleckstrin_homology,smart_PLipase_C_PInositol-sp_X_dom,smart_SH2,smart_SH3_domain,smart_PLipase_C_Pinositol-sp_Y,smart_C2_dom,pirsf_PLC-gamma,pfscan_C2_dom,pfscan_Pleckstrin_homology,pfscan_SH2,pfscan_SH3_domain,pfscan_PLipase_C_PInositol-sp_X_dom,pfscan_PLipase_C_Pinositol-sp_Y,prints_Pinositol_PLipase_C,prints_SH2,prints_SH3_domain	-	no_errors	PLCG2	HGNC	ENSG00000197943				69	0	0	37	24	39.3443
MYH2	0	genome.wustl.edu	37	17	10424715	10424715	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	17	10424715	10424715	C	T	SNP	MYH2	ENST00000245503	human	ensembl	74_37	-1	known	missense	c.5708	p.R1903H	1.000	pfam_Myosin_tail	pfam_Myosin_tail,pfam_Myosin_head_motor_dom,pfam_Myosin_N,superfamily_P-loop_NTPase,superfamily_Prefoldin,superfamily_Ribosomal_L29,superfamily_t-SNARE,smart_Myosin_head_motor_dom,smart_IQ_motif_EF-hand-BS,pfscan_IQ_motif_EF-hand-BS,prints_Myosin_head_motor_dom	-	no_errors	MYH2	HGNC	ENSG00000125414				193	0	0	128	46	26.4368
SLC46A1	0	genome.wustl.edu	37	17	26731940	26731940	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	17	26731940	26731940	C	T	SNP	SLC46A1	ENST00000440501	human	ensembl	74_37	-1	known	missense	c.775	p.A259T	0.003	pfam_MFS,superfamily_MFS_dom_general_subst_transpt,pfscan_MFS_dom	pfam_MFS,superfamily_MFS_dom_general_subst_transpt,pfscan_MFS_dom	-	no_errors	SLC46A1	HGNC	ENSG00000076351				147	0	0	141	35	19.8864
GRB2	0	genome.wustl.edu	37	17	73317845	73317845	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	17	73317845	73317845	C	A	SNP	GRB2	ENST00000316804	human	ensembl	74_37	-1	known	missense	c.363	p.W121C	1.000	pfam_SH2,smart_SH2,pfscan_SH2	pfam_SH3_domain,pfam_SH3_2,pfam_SH2,pfam_SH3-like_bac-type,superfamily_SH3_domain,smart_SH3_domain,smart_SH2,pfscan_SH2,pfscan_SH3_domain,prints_SH2,prints_SH3_domain,prints_p67phox	-	no_errors	GRB2	HGNC	ENSG00000177885				65	0	0	69	4	5.47945
NETO1	0	genome.wustl.edu	37	18	70532826	70532826	+	Missense_Mutation	SNP	C	C	G			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	18	70532826	70532826	C	G	SNP	NETO1	ENST00000299430	human	ensembl	74_37	-1	known	missense	c.7	p.A3P	0.000	NULL	pfam_CUB_dom,pfam_LDrepeatLR_classA_rpt,superfamily_CUB_dom,superfamily_LDrepeatLR_classA_rpt,smart_CUB_dom,smart_LDrepeatLR_classA_rpt,pfscan_CUB_dom,pfscan_LDrepeatLR_classA_rpt	-	no_errors	NETO1	HGNC	ENSG00000166342				33	0	0	19	5	20.8333
ZNF569	0	genome.wustl.edu	37	19	37904164	37904164	+	Missense_Mutation	SNP	A	A	G			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	19	37904164	37904164	A	G	SNP	ZNF569	ENST00000316950	human	ensembl	74_37	-1	known	missense	c.1396	p.Y466H	0.992	pfam_Znf_C2H2,smart_Znf_C2H2-like,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	ZNF569	HGNC	ENSG00000196437				61	0	0	49	15	23.4375
PSG11	0	genome.wustl.edu	37	19	43519445	43519445	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	19	43519445	43519445	C	T	SNP	PSG11	ENST00000320078	human	ensembl	74_37	-1	known	missense	c.787	p.A263T	0.001	pfam_Immunoglobulin,smart_Ig_sub,smart_Ig_sub2,pfscan_Ig-like_dom	pfam_Ig_V-set,pfam_Immunoglobulin,smart_Ig_sub,smart_Ig_sub2,pfscan_Ig-like_dom	-	no_errors	PSG11	HGNC	ENSG00000243130				256	0	0	218	21	8.78661
ZNF235	0	genome.wustl.edu	37	19	44791904	44791904	+	Nonsense_Mutation	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	19	44791904	44791904	G	A	SNP	ZNF235	ENST00000291182	human	ensembl	74_37	-1	known	nonsense	c.1684	p.Q562*	1.000	pfam_Znf_C2H2,smart_Znf_C2H2-like,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	ZNF235	HGNC	ENSG00000159917				108	0	0	77	16	17.2043
LRP1B	0	genome.wustl.edu	37	2	141283858	141283858	+	Silent	SNP	T	T	C			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	2	141283858	141283858	T	C	SNP	LRP1B	ENST00000389484	human	ensembl	74_37	-1	known	silent	c.7824	p.A2608	0.998	pfam_LDrepeatLR_classA_rpt,superfamily_LDrepeatLR_classA_rpt,smart_LDrepeatLR_classA_rpt,pfscan_LDrepeatLR_classA_rpt	pfam_LDrepeatLR_classA_rpt,pfam_LDLR_classB_rpt,pfam_EG-like_dom,superfamily_Growth_fac_rcpt_N_dom,superfamily_LDrepeatLR_classA_rpt,smart_LDrepeatLR_classA_rpt,smart_EG-like_dom,smart_EGF-like_Ca-bd_dom,smart_LDLR_classB_rpt,pfscan_EG-like_dom,pfscan_LDrepeatLR_classA_rpt,pfscan_LDLR_classB_rpt,prints_LDrepeatLR_classA_rpt	-	no_errors	LRP1B	HGNC	ENSG00000168702				90	0	0	49	18	26.8657
CPS1	0	genome.wustl.edu	37	2	211512631	211512631	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	2	211512631	211512631	C	A	SNP	CPS1	ENST00000430249	human	ensembl	74_37	+1	known	missense	c.3204	p.N1068K	1.000	pfam_CarbamoylP_synth_lsu_N,superfamily_PreATP-grasp_dom,tigrfam_CarbamoylP_synth_lsu	pfam_CbamoylP_synth_lsu-like_ATP-bd,pfam_CarbamoylP_synth_ssu_N,pfam_CarbamoylP_synth_lsu_oligo,pfam_GATASE,pfam_CarbamoylP_synth_lsu_N,pfam_MGS-like_dom,pfam_ATP-grasp_carboxylate-amine,pfam_Dala_Dala_lig_C,superfamily_CarbamoylP_synth_lsu_oligo,superfamily_CarbamoylP_synth_ssu_N,superfamily_PreATP-grasp_dom,superfamily_MGS-like_dom,smart_MGS-like_dom,pfscan_ATP-grasp,prints_CbamoylP_synth_lsu_CPSase_dom,tigrfam_CarbamoylP_synth_lsu,tigrfam_CarbamoylP_synth_ssu	-	no_errors	CPS1	HGNC	ENSG00000021826				105	0	0	77	19	19.7917
SLC23A3	0	genome.wustl.edu	37	2	220032699	220032699	+	Missense_Mutation	SNP	T	T	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	2	220032699	220032699	T	A	SNP	SLC23A3	ENST00000455516	human	ensembl	74_37	-1	known	missense	c.890	p.E297V	0.311	pfam_Xant/urac/vitC	pfam_Xant/urac/vitC	-	no_errors	SLC23A3	HGNC	ENSG00000213901				97	0	0	71	23	24.4681
KIF1A	0	genome.wustl.edu	37	2	241710462	241710462	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	2	241710462	241710462	C	T	SNP	KIF1A	ENST00000498729	human	ensembl	74_37	-1	known	missense	c.1267	p.A423T	0.991	NULL	pfam_Kinesin_motor_dom,pfam_Kinesin-like,pfam_Pleckstrin_homology,pfam_KIF1B,pfam_FHA_dom,superfamily_P-loop_NTPase,superfamily_SMAD_FHA_domain,smart_Kinesin_motor_dom,smart_FHA_dom,smart_Pleckstrin_homology,pfscan_FHA_dom,pfscan_Pleckstrin_homology,pfscan_Kinesin_motor_dom,prints_Kinesin_motor_dom	-	no_errors	KIF1A	HGNC	ENSG00000130294				117	0	0	67	22	24.7191
CCDC88A	0	genome.wustl.edu	37	2	55523480	55523480	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	2	55523480	55523480	G	A	SNP	CCDC88A	ENST00000436346	human	ensembl	74_37	-1	known	missense	c.5005	p.H1669Y	0.964	NULL	pfam_Hook-related_fam,superfamily_Prefoldin,superfamily_t-SNARE	-	no_errors	CCDC88A	HGNC	ENSG00000115355				99	0	0	58	16	21.6216
TIA1	0	genome.wustl.edu	37	2	70443986	70443986	+	Nonsense_Mutation	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	2	70443986	70443986	C	T	SNP	TIA1	ENST00000416149	human	ensembl	74_37	-1	putative	nonsense	c.615	p.W205*	0.998	NULL	pfam_RRM_dom,smart_RRM_dom_euk,smart_RRM_dom,pfscan_RRM_dom	-	no_errors	TIA1	HGNC	ENSG00000116001				319	0	0	234	67	22.2591
TSHZ2	0	genome.wustl.edu	37	20	51872642	51872642	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	20	51872642	51872642	G	A	SNP	TSHZ2	ENST00000371497	human	ensembl	74_37	+1	known	missense	c.2645	p.R882H	1.000	superfamily_Homeodomain-like,smart_Homeobox_dom	superfamily_Homeodomain-like,smart_Znf_C2H2-like,smart_Homeobox_dom,pfscan_Znf_C2H2	-	no_errors	TSHZ2	HGNC	ENSG00000182463				90	0	0	88	21	19.2661
SCRT2	0	genome.wustl.edu	37	20	644940	644940	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	20	644940	644940	G	A	SNP	SCRT2	ENST00000246104	human	ensembl	74_37	-1	known	missense	c.299	p.A100V	1.000	NULL	pfam_Znf_C2H2,smart_Znf_C2H2-like,pfscan_Znf_C2H2	-	no_errors	SCRT2	HGNC	ENSG00000215397				15	0	0	17	7	29.1667
ENSG00000161103	0	genome.wustl.edu	37	22	18844888	18844888	+	RNA	SNP	A	A	G			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	22	18844888	18844888	A	G	SNP	ENSG00000161103	ENST00000412938	human	ensembl	74_37	+1	known	rna	NULL	NULL	1.000	-	-	-	no_errors	AC008132.13	Clone_based_vega_gene	ENSG00000161103				111	0	0	88	7	7.36842
PRAME	0	genome.wustl.edu	37	22	22892267	22892267	+	Silent	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	22	22892267	22892267	C	T	SNP	PRAME	ENST00000398741	human	ensembl	74_37	-1	known	silent	c.834	p.P278	0.000	NULL	NULL	-	no_errors	PRAME	HGNC	ENSG00000185686				142	0	0	98	28	22.2222
ATP2B2	0	genome.wustl.edu	37	3	10401792	10401792	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	3	10401792	10401792	C	A	SNP	ATP2B2	ENST00000352432	human	ensembl	74_37	-1	known	missense	c.1675	p.G559C	1.000	superfamily_ATPase_P-typ_cyto_domN,superfamily_HAD-like_dom,tigrfam_ATPase_P-typ_Ca-transp_plasma	pfam_ATPase_P-typ_transduc_dom_A,pfam_ATPase_P-typ_cation-transptr_C,pfam_ATP_Ca_trans_C,pfam_HAD-like_dom,pfam_ATPase_P-typ_cation-transptr_N,superfamily_ATPase_P-typ_cyto_domN,superfamily_HAD-like_dom,smart_ATPase_P-typ_cation-transptr_N,prints_Cation_transp_P_typ_ATPase,tigrfam_ATPase_P-typ_Ca-transp_plasma,tigrfam_Cation_transp_P_typ_ATPase	-	no_errors	ATP2B2	HGNC	ENSG00000157087				75	0	0	48	15	23.8095
EPHB1	0	genome.wustl.edu	37	3	134851683	134851683	+	Silent	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	3	134851683	134851683	C	T	SNP	EPHB1	ENST00000398015	human	ensembl	74_37	+1	known	silent	c.1089	p.C363	1.000	pirsf_Tyr_kinase_ephrin_rcpt,pfam_Fibronectin_type3,superfamily_Fibronectin_type3,superfamily_Growth_fac_rcpt_N_dom,smart_Fibronectin_type3,pfscan_Fibronectin_type3	pirsf_Tyr_kinase_ephrin_rcpt,pfam_Ser-Thr/Tyr_kinase_cat_dom,pfam_Ephrin_rcpt_lig-bd_dom,pfam_Prot_kinase_dom,pfam_Fibronectin_type3,pfam_SAM_type1,pfam_SAM_2,superfamily_Galactose-bd-like,superfamily_Kinase-like_dom,superfamily_Fibronectin_type3,superfamily_SAM/pointed,superfamily_Growth_fac_rcpt_N_dom,smart_Ephrin_rcpt_lig-bd_dom,smart_Fibronectin_type3,smart_Ser/Thr_dual-sp_kinase_dom,smart_Tyr_kinase_cat_dom,smart_SAM,prints_Ser-Thr/Tyr_kinase_cat_dom,pfscan_Fibronectin_type3,pfscan_SAM,pfscan_Prot_kinase_dom	-	no_errors	EPHB1	HGNC	ENSG00000154928				54	0	0	38	13	25.4902
CNTN6	0	genome.wustl.edu	37	3	1424860	1424860	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	3	1424860	1424860	G	A	SNP	CNTN6	ENST00000350110	human	ensembl	74_37	+1	known	missense	c.2401	p.E801K	1.000	superfamily_Fibronectin_type3	pfam_Ig_I-set,pfam_Fibronectin_type3,pfam_Ig_V-set,pfam_Immunoglobulin,superfamily_Fibronectin_type3,smart_Ig_sub,smart_Ig_sub2,smart_Fibronectin_type3,pfscan_Fibronectin_type3,pfscan_Ig-like_dom	-	no_errors	CNTN6	HGNC	ENSG00000134115				119	0	0	87	20	18.6916
SLITRK3	0	genome.wustl.edu	37	3	164905876	164905876	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	3	164905876	164905876	C	T	SNP	SLITRK3	ENST00000241274	human	ensembl	74_37	-1	known	missense	c.2743	p.V915M	1.000	NULL	pfam_Leu-rich_rpt,smart_Leu-rich_rpt_typical-subtyp,smart_Cys-rich_flank_reg_C	-	no_errors	SLITRK3	HGNC	ENSG00000121871				155	0	0	116	9	7.2
PIK3CA	0	genome.wustl.edu	37	3	178936091	178936091	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	3	178936091	178936091	G	A	SNP	PIK3CA	ENST00000263967	human	ensembl	74_37	+1	known	missense	c.1633	p.E545K	1.000	pfam_PInositide-3_kin_accessory_dom,superfamily_ARM-type_fold,smart_PInositide-3_kin_accessory_dom	pfam_PInositide-3_kin_accessory_dom,pfam_PI3/4_kinase_cat_dom,pfam_PI3K_Ras-bd_dom,pfam_PI3K_C2_dom,pfam_PI3K_adapt-bd_dom,superfamily_Kinase-like_dom,superfamily_ARM-type_fold,superfamily_C2_dom,smart_PI3K_adapt-bd_dom,smart_PI3K_Ras-bd_dom,smart_PI3K_C2_dom,smart_PInositide-3_kin_accessory_dom,smart_PI3/4_kinase_cat_dom,pfscan_PI3/4_kinase_cat_dom	-	no_errors	PIK3CA	HGNC	ENSG00000121879				74	0	0	50	41	45.0549
KIF9-AS1	0	genome.wustl.edu	37	3	47287569	47287569	+	RNA	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	3	47287569	47287569	C	T	SNP	KIF9-AS1	ENST00000429315	human	ensembl	74_37	+1	known	rna	NULL	NULL	0.004	-	-	-	no_errors	KIF9-AS1	HGNC	ENSG00000227398				11	0	0	8	6	42.8571
DKK2	0	genome.wustl.edu	37	4	107847019	107847019	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	4	107847019	107847019	G	A	SNP	DKK2	ENST00000285311	human	ensembl	74_37	-1	novel	missense	c.310	p.R104W	1.000	pfam_Dickkopf_N,superfamily_Zn2-C6_fun-type_DNA-bd	pfam_Dickkopf_N,superfamily_Zn2-C6_fun-type_DNA-bd	-	no_errors	DKK2	HGNC	ENSG00000155011				168	0	0	114	44	27.8481
INTU	0	genome.wustl.edu	37	4	128628065	128628065	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	4	128628065	128628065	C	T	SNP	INTU	ENST00000335251	human	ensembl	74_37	+1	known	missense	c.2212	p.R738W	0.019	NULL	superfamily_PDZ,smart_PDZ,pfscan_PDZ	-	no_errors	INTU	HGNC	ENSG00000164066				288	0	0	186	60	24.3902
FRAS1	0	genome.wustl.edu	37	4	79229315	79229315	+	Nonsense_Mutation	SNP	G	G	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	4	79229315	79229315	G	T	SNP	FRAS1	ENST00000264895	human	ensembl	74_37	+1	known	nonsense	c.1630	p.E544*	0.000	superfamily_Growth_fac_rcpt_N_dom,smart_Furin_repeat	pfam_Calx_beta,pfam_VWF_C,superfamily_Growth_fac_rcpt_N_dom,superfamily_Cadherin-like,smart_VWC_out,smart_VWF_C,smart_Furin_repeat,smart_EG-like_dom,smart_Calx_beta,pfscan_VWF_C	-	no_errors	FRAS1	HGNC	ENSG00000138759				34	0	0	42	5	10.6383
PCDHA12	0	genome.wustl.edu	37	5	140256419	140256419	+	Silent	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	5	140256419	140256419	G	A	SNP	PCDHA12	ENST00000398631	human	ensembl	74_37	+1	known	silent	c.1362	p.A454	0.000	superfamily_Cadherin-like,prints_Cadherin,pfscan_Cadherin	pfam_Cadherin,pfam_Cadherin_N,superfamily_Cadherin-like,smart_Cadherin,prints_Cadherin,pfscan_Cadherin	-	no_errors	PCDHA12	HGNC	ENSG00000251664				165	0	0	144	34	19.1011
PCDHB7	0	genome.wustl.edu	37	5	140553577	140553577	+	Silent	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	5	140553577	140553577	C	T	SNP	PCDHB7	ENST00000231137	human	ensembl	74_37	+1	known	silent	c.1161	p.D387	0.000	pfam_Cadherin,superfamily_Cadherin-like,smart_Cadherin,pfscan_Cadherin	pfam_Cadherin,pfam_Cadherin_N,superfamily_Cadherin-like,smart_Cadherin,pfscan_Cadherin,prints_Cadherin	-	no_errors	PCDHB7	HGNC	ENSG00000113212				58	0	0	57	16	21.9178
LARP1	0	genome.wustl.edu	37	5	154172296	154172296	+	Nonsense_Mutation	SNP	G	G	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	5	154172296	154172296	G	T	SNP	LARP1	ENST00000336314	human	ensembl	74_37	+1	known	nonsense	c.448	p.E150*	1.000	NULL	pfam_Lupus_La_RNA-bd,smart_Lupus_La_RNA-bd,smart_DM15,pfscan_Lupus_La_RNA-bd	-	no_errors	LARP1	HGNC	ENSG00000155506				162	0	0	120	13	9.77444
FGFR4	0	genome.wustl.edu	37	5	176517537	176517537	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	5	176517537	176517537	C	T	SNP	FGFR4	ENST00000292408	human	ensembl	74_37	+1	known	missense	c.238	p.R80W	1.000	pirsf_FGF_rcpt_fam,smart_Ig_sub,smart_Ig_sub2	pirsf_FGF_rcpt_fam,pfam_Ser-Thr/Tyr_kinase_cat_dom,pfam_Prot_kinase_dom,pfam_Ig_I-set,pfam_Immunoglobulin,superfamily_Kinase-like_dom,smart_Ig_sub,smart_Ig_sub2,smart_Ser/Thr_dual-sp_kinase_dom,smart_Tyr_kinase_cat_dom,prints_Ser-Thr/Tyr_kinase_cat_dom,pfscan_Prot_kinase_dom,pfscan_Ig-like_dom	-	no_errors	FGFR4	HGNC	ENSG00000160867				86	0	0	85	16	15.8416
PRDM9	0	genome.wustl.edu	37	5	23521145	23521145	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	5	23521145	23521145	C	A	SNP	PRDM9	ENST00000296682	human	ensembl	74_37	+1	known	missense	c.365	p.A122E	0.000	NULL	pfam_Znf_C2H2,pfam_SSXRD_motif,pfam_Krueppel-associated_box,superfamily_Krueppel-associated_box,smart_Krueppel-associated_box,smart_Znf_C2H2-like,pfscan_SET_dom,pfscan_Znf_C2H2,pfscan_Krueppel-associated_box,pfscan_Krueppel-associated_box-rel	-	no_errors	PRDM9	HGNC	ENSG00000164256				66	0	0	37	13	26
MAP1B	0	genome.wustl.edu	37	5	71495207	71495207	+	Nonsense_Mutation	SNP	G	G	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	5	71495207	71495207	G	T	SNP	MAP1B	ENST00000296755	human	ensembl	74_37	+1	known	nonsense	c.6025	p.E2009*	1.000	pfam_MAP1B_neuraxin	pfam_MAP1B_neuraxin	-	no_errors	MAP1B	HGNC	ENSG00000131711				295	0	0	208	60	22.3881
RNF217	0	genome.wustl.edu	37	6	125366470	125366470	+	Nonsense_Mutation	SNP	C	C	G			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	6	125366470	125366470	C	G	SNP	RNF217	ENST00000560949	human	ensembl	74_37	+1	known	nonsense	c.291	p.Y97*	1.000	smart_Znf_C6HC	pfam_Znf_C6HC,smart_Znf_C6HC	-	no_errors	RNF217	HGNC	ENSG00000146373				74	0	0	50	3	5.66038
SLC22A1	0	genome.wustl.edu	37	6	160557340	160557340	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	6	160557340	160557340	G	A	SNP	SLC22A1	ENST00000366963	human	ensembl	74_37	+1	known	missense	c.928	p.G310R	1.000	pfam_Sub_transporter,pfam_MFS,superfamily_MFS_dom_general_subst_transpt,pfscan_MFS_dom,tigrfam_Orgcat_transp	pfam_Sub_transporter,pfam_MFS,superfamily_MFS_dom_general_subst_transpt,pfscan_MFS_dom,tigrfam_Orgcat_transp	-	no_errors	SLC22A1	HGNC	ENSG00000175003				122	0	0	77	20	20.6186
HSPA1L	0	genome.wustl.edu	37	6	31779555	31779555	+	Silent	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	6	31779555	31779555	G	A	SNP	HSPA1L	ENST00000375654	human	ensembl	74_37	-1	known	silent	c.195	p.P65	1.000	pfam_Hsp_70_fam,prints_Hsp_70_fam	pfam_Hsp_70_fam,pfam_MreB_Mrl,prints_Hsp_70_fam	-	no_errors	HSPA1L	HGNC	ENSG00000204390				174	0	0	127	25	16.4474
KCNK16	0	genome.wustl.edu	37	6	39285601	39285601	+	Silent	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	6	39285601	39285601	G	A	SNP	KCNK16	ENST00000425054	human	ensembl	74_37	-1	known	silent	c.456	p.A152	0.004	NULL	pfam_2pore_dom_K_chnl_dom,prints_2pore_dom_K_chnl	-	no_errors	KCNK16	HGNC	ENSG00000095981				23	0	0	30	5	14.2857
LAMB4	0	genome.wustl.edu	37	7	107677848	107677848	+	Missense_Mutation	SNP	T	T	C			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	7	107677848	107677848	T	C	SNP	LAMB4	ENST00000205386	human	ensembl	74_37	-1	known	missense	c.4664	p.K1555R	0.000	NULL	pfam_EGF_laminin,pfam_Laminin_N,superfamily_Galactose-bd-like,smart_Laminin_N,smart_EGF_laminin,pfscan_Laminin_IV,pfscan_EGF_laminin,pfscan_Laminin_N	-	no_errors	LAMB4	HGNC	ENSG00000091128				217	0	0	164	52	24.0741
FLNC	0	genome.wustl.edu	37	7	128494220	128494220	+	Missense_Mutation	SNP	T	T	C			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	7	128494220	128494220	T	C	SNP	FLNC	ENST00000325888	human	ensembl	74_37	+1	known	missense	c.6677	p.L2226P	1.000	smart_Filamin,pfscan_Filamin/ABP280_repeat-like	pfam_Filamin/ABP280_repeat-like,pfam_CH-domain,superfamily_CH-domain,superfamily_Ig_E-set,smart_CH-domain,smart_Filamin,pfscan_CH-domain,pfscan_Filamin/ABP280_repeat-like	-	no_errors	FLNC	HGNC	ENSG00000128591				33	0	0	28	10	26.3158
CARD11	0	genome.wustl.edu	37	7	2954991	2954991	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	7	2954991	2954991	C	T	SNP	CARD11	ENST00000396946	human	ensembl	74_37	-1	known	missense	c.2719	p.E907K	0.997	NULL	pfam_CARD,superfamily_DEATH-like_dom,superfamily_P-loop_NTPase,superfamily_PDZ,pfscan_CARD	-	no_errors	CARD11	HGNC	ENSG00000198286				71	0	0	47	17	26.5625
HECW1	0	genome.wustl.edu	37	7	43477748	43477748	+	RNA	SNP	A	A	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	7	43477748	43477748	A	T	SNP	HECW1	ENST00000471043	human	ensembl	74_37	+1	known	rna	NULL	NULL	0.999	-	-	-	no_errors	HECW1	HGNC	ENSG00000002746				89	0	0	64	17	20.9877
SEPT14	0	genome.wustl.edu	37	7	55914311	55914311	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	7	55914311	55914311	C	T	SNP	SEPT14	ENST00000388975	human	ensembl	74_37	-1	known	missense	c.74	p.R25H	0.061	NULL	pfam_Cell_div_GTP-bd,superfamily_P-loop_NTPase,pirsf_Septin	-	no_errors	SEPT14	HGNC	ENSG00000154997				92	0	0	65	24	26.9663
DAGLB	0	genome.wustl.edu	37	7	6449475	6449475	+	Missense_Mutation	SNP	A	A	G			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	7	6449475	6449475	A	G	SNP	DAGLB	ENST00000297056	human	ensembl	74_37	-1	known	missense	c.2012	p.V671A	0.000	NULL	pfam_Lipase_3	-	no_errors	DAGLB	HGNC	ENSG00000164535				57	0	0	29	11	27.5
RIMS2	0	genome.wustl.edu	37	8	105105703	105105703	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	8	105105703	105105703	G	A	SNP	RIMS2	ENST00000436393	human	ensembl	74_37	+1	novel	missense	c.2726	p.R909Q	1.000	NULL	pfam_C2_dom,pfam_PDZ,superfamily_C2_dom,superfamily_PDZ,smart_PDZ,smart_C2_dom,pfscan_C2_dom,pfscan_PDZ	-	no_errors	RIMS2	HGNC	ENSG00000176406				194	0	0	240	44	15.493
CYP11B1	0	genome.wustl.edu	37	8	143959174	143959174	+	Missense_Mutation	SNP	T	T	C			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	8	143959174	143959174	T	C	SNP	CYP11B1	ENST00000377675	human	ensembl	74_37	-1	novel	missense	c.607	p.R203G	0.000	superfamily_Cyt_P450	pfam_Cyt_P450,superfamily_Cyt_P450,prints_Cyt_P450_E_grp-IV,prints_Cyt_P450_E_grp-I,prints_Cyt_P450_B,prints_Cyt_P450	-	no_errors	CYP11B1	HGNC	ENSG00000160882				56	0	0	84	8	8.69565
NAT2	0	genome.wustl.edu	37	8	18258091	18258091	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	8	18258091	18258091	C	T	SNP	NAT2	ENST00000286479	human	ensembl	74_37	+1	known	missense	c.578	p.T193M	0.998	pfam_Arylamine_N-AcTrfase,prints_Arylamine_N-AcTrfase	pfam_Arylamine_N-AcTrfase,prints_Arylamine_N-AcTrfase	-	no_errors	NAT2	HGNC	ENSG00000156006				132	0	0	115	61	34.6591
ENTPD4	0	genome.wustl.edu	37	8	23291882	23291882	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	8	23291882	23291882	C	T	SNP	ENTPD4	ENST00000358689	human	ensembl	74_37	-1	known	missense	c.1570	p.V524I	1.000	pfam_GDA1_CD39_NTPase	pfam_GDA1_CD39_NTPase	-	no_errors	ENTPD4	HGNC	ENSG00000197217				140	0	0	125	18	12.5874
TRIM35	0	genome.wustl.edu	37	8	27156046	27156046	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	8	27156046	27156046	G	A	SNP	TRIM35	ENST00000305364	human	ensembl	74_37	-1	known	missense	c.466	p.R156W	0.952	NULL	pfam_SPRY_rcpt,pfam_Znf_B-box,pfam_Znf_C3HC4_RING-type,superfamily_ConA-like_lec_gl_sf,smart_Znf_RING,smart_Znf_B-box,smart_PRY,smart_SPla/RYanodine_receptor_subgr,pfscan_B30.2/SPRY,pfscan_Znf_B-box,pfscan_Znf_RING,prints_Butyrophylin	-	no_errors	TRIM35	HGNC	ENSG00000104228				124	0	0	125	68	35.2332
SNTG1	0	genome.wustl.edu	37	8	51664620	51664620	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	8	51664620	51664620	C	A	SNP	SNTG1	ENST00000518864	human	ensembl	74_37	+1	known	missense	c.1344	p.S448R	1.000	NULL	pfam_PDZ,superfamily_PDZ,smart_PDZ,smart_Pleckstrin_homology,pfscan_PDZ,pfscan_Pleckstrin_homology	-	no_errors	SNTG1	HGNC	ENSG00000147481				176	0	0	156	46	22.7723
MUSK	0	genome.wustl.edu	37	9	113563100	113563100	+	Silent	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	9	113563100	113563100	C	T	SNP	MUSK	ENST00000374448	human	ensembl	74_37	+1	known	silent	c.2442	p.Y814	0.990	pfam_Ser-Thr/Tyr_kinase_cat_dom,pfam_Prot_kinase_dom,superfamily_Kinase-like_dom,smart_Ser/Thr_dual-sp_kinase_dom,smart_Tyr_kinase_cat_dom,pfscan_Prot_kinase_dom	pfam_Ser-Thr/Tyr_kinase_cat_dom,pfam_Ig_I-set,pfam_Prot_kinase_dom,pfam_Frizzled_dom,pfam_Immunoglobulin,pfam_Ig_V-set,superfamily_Kinase-like_dom,superfamily_Frizzled_dom,smart_Ig_sub,smart_Ig_sub2,smart_Ser/Thr_dual-sp_kinase_dom,smart_Tyr_kinase_cat_dom,pfscan_Frizzled_dom,pfscan_Prot_kinase_dom,pfscan_Ig-like_dom,prints_Ser-Thr/Tyr_kinase_cat_dom	-	no_errors	MUSK	HGNC	ENSG00000030304				73	0	0	52	14	21.2121
WWC3	0	genome.wustl.edu	37	X	10058913	10058913	+	Silent	SNP	C	C	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	X	10058913	10058913	C	T	SNP	WWC3	ENST00000380861	human	ensembl	74_37	+1	known	silent	c.480	p.G160	1.000	NULL	superfamily_C2_dom	-	no_errors	WWC3	HGNC	ENSG00000047644				52	0	0	49	4	7.54717
SLITRK2	0	genome.wustl.edu	37	X	144905746	144905746	+	Silent	SNP	G	G	T			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	X	144905746	144905746	G	T	SNP	SLITRK2	ENST00000370490	human	ensembl	74_37	+1	known	silent	c.1803	p.S601	0.003	NULL	pfam_Leu-rich_rpt,smart_LRR-contain_N,smart_Leu-rich_rpt_typical-subtyp,smart_Cys-rich_flank_reg_C	-	no_errors	SLITRK2	HGNC	ENSG00000185985				55	0	0	57	3	5
BCOR	0	genome.wustl.edu	37	X	39923059	39923059	+	Nonsense_Mutation	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	X	39923059	39923059	G	A	SNP	BCOR	ENST00000378444	human	ensembl	74_37	-1	known	nonsense	c.3649	p.R1217*	1.000	NULL	pfam_Ankyrin_rpt,superfamily_Ankyrin_rpt-contain_dom,smart_Ankyrin_rpt,pfscan_Ankyrin_rpt,pfscan_Ankyrin_rpt-contain_dom	-	no_errors	BCOR	HGNC	ENSG00000183337				60	0	0	32	39	54.9296
MAGED2	0	genome.wustl.edu	37	X	54836552	54836552	+	Missense_Mutation	SNP	C	C	G			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	X	54836552	54836552	C	G	SNP	MAGED2	ENST00000218439	human	ensembl	74_37	+1	known	missense	c.443	p.A148G	0.153	NULL	pfam_MAGE,pfscan_MAGE	-	no_errors	MAGED2	HGNC	ENSG00000102316				20	0	0	5	5	50
NLGN4X	0	genome.wustl.edu	37	X	5821174	5821174	+	Silent	SNP	G	G	A			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	X	5821174	5821174	G	A	SNP	NLGN4X	ENST00000381093	human	ensembl	74_37	-1	known	silent	c.1605	p.N535	0.757	pfam_CarbesteraseB	pfam_CarbesteraseB,pfam_AB_hydrolase_3,prints_Neuroligin	-	no_errors	NLGN4X	HGNC	ENSG00000146938				58	0	0	22	22	50
ARID1A	0	genome.wustl.edu	37	1	27101593	27101593	+	Frame_Shift_Del	DEL	A	A	-			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	1	27101593	27101593	A	-	DEL	ARID1A	ENST00000324856	human	ensembl	74_37	+1	known	frame_shift_del	c.4875	p.I1625fs	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				137	0	0	76	45	37.1901
ENSG00000266535	0	genome.wustl.edu	37	17	31439098	31439099	+	RNA	DEL	AG	AG	-			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	AG	AG					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	17	31439098	31439099	AG	-	DEL	ENSG00000266535	ENST00000584688	human	ensembl	74_37	+1	known	rna	NULL	NULL	0.563:0.970	-	-	-	no_errors	RP11-40A13.1	Clone_based_vega_gene	ENSG00000266535				26	0	0	18	3	14.2857
AKAP12	0	genome.wustl.edu	37	6	151674836	151674837	+	Frame_Shift_Del	DEL	AG	AG	-			TCGA-BR-6707-01A-11D-1882-08	TCGA-BR-6707-10A-01D-1882-08	AG	AG					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	f40887e2-d046-43db-b163-23289154966d	f115f32a-fbd4-4f02-afc8-1f7f0d5a3842	6	151674836	151674837	AG	-	DEL	AKAP12	ENST00000253332	human	ensembl	74_37	+1	known	frame_shift_del	c.5310_5311	p.E1773fs	0.001:0.215	NULL	pfam_Pkinase-A_anch_WSK-motif,pfam_RII_binding_1	-	no_errors	AKAP12	HGNC	ENSG00000131016				22	0	0	15	4	21.0526
