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	chromosome_name_WU	start_WU	stop_WU	reference_WU	variant_WU	type_WU	gene_name_WU	transcript_name_WU	transcript_species_WU	transcript_source_WU	transcript_version_WU	strand_WU	transcript_status_WU	trv_type_WU	c_position_WU	amino_acid_change_WU	ucsc_cons_WU	domain_WU	all_domains_WU	deletion_substructures_WU	transcript_error_WU
MT-ND4	0	genome.wustl.edu	36	MT	11216	11216	+	Nonsense_Mutation	SNP	C	C	A			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	MT	11216	11216	C	A	SNP	MT-ND4	ENST00000361381	human	ensembl	54_36p	+1	known	nonsense	c.456	p.Y152*	NULL	HMMPfam_Oxidored_q1	HMMPfam_Oxidored_q5_N,HMMPfam_Oxidored_q1	-	no_stop_codon:bad_bp_length_for_coding_region
YIPF6	286451	genome.wustl.edu	36	X	67668523	67668523	+	Missense_Mutation	SNP	A	A	T			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	X	67668523	67668523	A	T	SNP	YIPF6	NM_173834	human	genbank	54_36p	+1	provisional	missense	c.668	p.Y223F	1.000	NULL	HMMPfam_Yip1	-	no_errors
TMEM41B	440026	genome.wustl.edu	36	11	9261712	9261712	+	Silent	SNP	G	G	A			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	11	9261712	9261712	G	A	SNP	TMEM41B	NM_015012	human	genbank	54_36p	-1	validated	silent	c.711	p.V237	0.993	HMMPfam_SNARE_assoc	HMMPfam_SNARE_assoc,PatternScan_PTS_HPR_SER	-	no_errors
LOC100133431	100133431	genome.wustl.edu	36	X	2784761	2784764	+	Frame_Shift_Del	DEL	TCTA	TCTA	-			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	TCTA	TCTA			TCTA	TCTA	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	X	2784761	2784764	TCTA	-	DEL	LOC100133431	XM_001713711	human	genbank	54_36p	+1	model	frame_shift_del	c.128_131	p.I47fs	0.025:0.023:0.025:0.026	NULL	NULL	-	no_start_codon:pseudogene:no_stop_codon
SERINC2	347735	genome.wustl.edu	36	1	31678476	31678477	+	In_Frame_Ins	INS	-	-	CAG			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	-	-			-	-	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	31678476	31678477	-	CAG	INS	SERINC2	NM_178865	human	genbank	54_36p	+1	validated	in_frame_ins	c.1089_1090	p.367in_frame_insQ	0.300:0.539	HMMPfam_Serinc	HMMPfam_Serinc	-	no_errors
EPB41L5	57669	genome.wustl.edu	36	2	120578168	120578168	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	2	120578168	120578168	C	A	SNP	EPB41L5	ENST00000331393	human	ensembl	54_36p	+1	known	missense	c.1400	p.P467H	1.000	NULL	HMMPfam_FA,HMMPfam_FERM_N,HMMPfam_FERM_C,PatternScan_FERM_1,PatternScan_FERM_2,HMMPfam_FERM_M,superfamily_FERM_3-hlx,HMMSmart_B41,superfamily_SSF50729,superfamily_SSF54236	-	no_errors
TCEANC	170082	genome.wustl.edu	36	X	13590684	13590684	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	X	13590684	13590684	A	G	SNP	TCEANC	NM_152634	human	genbank	54_36p	+1	validated	missense	c.226	p.T76A	1.000	HMMPfam_TFIIS,superfamily_Conserved domain common to transcription factors TFIIS elongin A CRSP70	HMMPfam_TFIIS,superfamily_Conserved domain common to transcription factors TFIIS elongin A CRSP70,superfamily_Elongation factor TFIIS domain 2,HMMSmart_SM00510,HMMPfam_TFIIS_M,superfamily_Zinc beta-ribbon	-	no_errors
MT-CYB	0	genome.wustl.edu	36	MT	14915	14915	+	Silent	SNP	A	A	T			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	MT	14915	14915	A	T	SNP	MT-CYB	ENST00000361789	human	ensembl	54_36p	+1	known	silent	c.168	p.S56	NULL	HMMPfam_Cytochrom_B_N,superfamily_Transmembr_di-haem_cytochrome	HMMPfam_Cytochrom_B_N,HMMPfam_Cytochrom_B_C,superfamily_Cytochrome_b/b6_C,superfamily_Transmembr_di-haem_cytochrome	-	no_stop_codon:bad_bp_length_for_coding_region
MUC3A	4584	genome.wustl.edu	36	7	100397019	100397019	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	7	100397019	100397019	C	A	SNP	MUC3A	XM_001725354	human	genbank	54_36p	+1	model	missense	c.1124	p.T375N	0.071	NULL	superfamily_EGF/Laminin,PatternScan_EGF_1,PatternScan_EGF_2,HMMSmart_SM00181,superfamily_SEA domain,HMMSmart_SM00200,HMMPfam_SEA	-	no_errors
MUC4	4585	genome.wustl.edu	36	3	196999844	196999844	+	Missense_Mutation	SNP	A	A	T			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	3	196999844	196999844	A	T	SNP	MUC4	ENST00000405167	human	ensembl	54_36p	-1	known	missense	c.3002	p.V1001E	0.002	NULL	HMMPfam_VWD,HMMSmart_SM00216,HMMPfam_NIDO,HMMSmart_SM00539,HMMPfam_AMOP,HMMSmart_SM00723,PatternScan_SUGAR_TRANSPORT_2,HMMSmart_SM00181,PatternScan_EGF_1,superfamily_EGF/Laminin	-	no_errors
CSH2	1443	genome.wustl.edu	36	17	59303780	59303780	+	Silent	SNP	G	G	A			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	17	59303780	59303780	G	A	SNP	CSH2	NM_020991	human	genbank	54_36p	-1	reviewed	silent	c.345	p.P115	0.987	HMMPfam_Hormone_1,superfamily_4-helical cytokines	HMMPfam_Hormone_1,superfamily_4-helical cytokines,PatternScan_SOMATOTROPIN_1,PatternScan_SOMATOTROPIN_2	-	no_errors
HECW1	23072	genome.wustl.edu	36	7	43514204	43514204	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	7	43514204	43514204	G	A	SNP	HECW1	NM_015052	human	genbank	54_36p	+1	validated	missense	c.3815	p.R1272Q	1.000	superfamily_HECT,HMMSmart_HECTc	HMMSmart_C2,superfamily_C2_CaLB,HMMPfam_C2,superfamily_WW_Rsp5_WWP,HMMSmart_WW,HMMPfam_WW,PatternScan_WW_DOMAIN_1,superfamily_HECT,HMMSmart_HECTc,HMMPfam_HECT	-	no_errors
RPS6KA6	27330	genome.wustl.edu	36	X	83259120	83259120	+	Splice_Site	SNP	T	T	A			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	X	83259120	83259120	T	A	SNP	RPS6KA6	NM_014496	human	genbank	54_36p	-1	provisional	splice_site	c.790-2	e10-2	0.997	-	-	-	no_errors
GPR98	84059	genome.wustl.edu	36	5	90115461	90115461	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	5	90115461	90115461	C	T	SNP	GPR98	NM_032119	human	genbank	54_36p	+1	reviewed	missense	c.13484	p.A4495V	1.000	NULL	HMMPfam_GPS,PatternScan_LIPOYL,HMMPfam_Calx-beta,HMMSmart_SM00237,HMMPfam_EPTP,PatternScan_A_DEAMINASE,superfamily_Concanavalin A-like lectins/glucanases	-	no_errors
TCERG1L	256536	genome.wustl.edu	36	10	132781477	132781477	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	10	132781477	132781477	A	G	SNP	TCERG1L	NM_174937	human	genbank	54_36p	-1	validated	missense	c.1699	p.F567L	1.000	superfamily_FF,HMMSmart_FF,HMMPfam_FF	PatternScan_WW_DOMAIN_1,superfamily_WW_Rsp5_WWP,HMMSmart_WW,HMMPfam_WW,superfamily_FF,HMMSmart_FF,HMMPfam_FF	-	no_errors
MT-CO2	0	genome.wustl.edu	36	MT	7820	7820	+	Silent	SNP	C	C	A			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	MT	7820	7820	C	A	SNP	MT-CO2	ENST00000361739	human	ensembl	54_36p	+1	known	silent	c.234	p.L78	NULL	HMMPfam_COX2_TM,superfamily_Cytochrome c oxidase subunit II-like transmembrane region	PatternScan_COX2,HMMPfam_COX2,superfamily_Cupredoxins,HMMPfam_COX2_TM,superfamily_Cytochrome c oxidase subunit II-like transmembrane region	-	no_errors
RNF144B	255488	genome.wustl.edu	36	6	18495748	18495752	+	Frame_Shift_Del	DEL	TCCTG	TCCTG	-			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	TCCTG	TCCTG			TCCTG	TCCTG	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	6	18495748	18495752	TCCTG	-	DEL	IBRDC2	ENST00000397236	human	ensembl	54_36p	+1	known	frame_shift_del	c.25_29	p.C10fs	0.002:0.037:0.048:0.040:0.020	NULL	NULL	-	no_start_codon
OBSCN	84033	genome.wustl.edu	36	1	226626014	226626014	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	226626014	226626014	C	A	SNP	OBSCN	NM_001098623	human	genbank	54_36p	+1	reviewed	missense	c.20912	p.T6971N	0.000	NULL	HMMPfam_IQ,HMMSmart_SM00015,HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain),HMMSmart_SM00219,HMMPfam_PH,HMMSmart_SM00233,HMMSmart_SM00220,HMMSmart_SM00406,HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_fn3,HMMSmart_SM00060,PatternScan_PROTEIN_KINASE_TYR,PatternScan_PROTEIN_KINASE_ST,superfamily_Fibronectin type III,superfamily_Protein kinase-like (PK-like),HMMPfam_I-set,HMMPfam_V-set,HMMPfam_ig,PatternScan_PROTEIN_KINASE_ATP,HMMPfam_Pkinase,PatternScan_GLYCOSYL_HYDROL_F5,superfamily_Immunoglobulin,superfamily_PH domain-like	-	no_errors
CNN3	1266	genome.wustl.edu	36	1	95165151	95165151	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	95165151	95165151	C	T	SNP	CNN3	ENST00000370206	human	ensembl	54_36p	-1	known	missense	c.143	p.R48K	0.000	NULL	superfamily_Calponin-homology domain CH-domain,HMMPfam_CH,HMMSmart_SM00033,PatternScan_CALPONIN_1,HMMPfam_Calponin	-	no_start_codon
LOC100133051	100133051	genome.wustl.edu	36	2	131048465	131048465	+	Silent	SNP	C	C	T			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	2	131048465	131048465	C	T	SNP	LOC100133051	XM_001723869	human	genbank	54_36p	+1	model	silent	c.70	p.L24	0.370	superfamily_Trypsin-like serine proteases,HMMPfam_Trypsin,HMMSmart_SM00020	superfamily_Trypsin-like serine proteases,HMMPfam_Trypsin,HMMSmart_SM00020	-	no_errors
OR6P1	128366	genome.wustl.edu	36	1	156799318	156799318	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	156799318	156799318	C	T	SNP	OR6P1	ENST00000334632	human	ensembl	54_36p	-1	known	missense	c.701	p.R234H	0.005	superfamily_SSF81321,HMMPfam_7tm_1	superfamily_SSF81321,HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1	-	no_errors
LOC729150	729150	genome.wustl.edu	36	3	126997263	126997263	+	RNA	SNP	T	T	C			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	3	126997263	126997263	T	C	SNP	LOC729150	XR_015819	human	genbank	54_36p	+1	model	rna	NULL	NULL	1.000	-	-	-	pseudogene
DUX1	26584	genome.wustl.edu	36	10	135341067	135341067	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	10	135341067	135341067	G	A	SNP	DUX1	NM_012146	human	genbank	54_36p	+1	provisional	missense	c.505	p.G169S	0.991	NULL	HMMPfam_Homeobox,HMMSmart_SM00389,superfamily_Homeodomain-like	-	no_stop_codon
ZNF683	257101	genome.wustl.edu	36	1	26563874	26563897	+	In_Frame_Del	DEL	CCACCGAGCGCTGGGGTGCCCCAG	CCACCGAGCGCTGGGGTGCCCCAG	-			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	CCACCGAGCGCTGGGGTGCCCCAG	CCACCGAGCGCTGGGGTGCCCCAG			CCACCGAGCGCTGGGGTGCCCCAG	CCACCGAGCGCTGGGGTGCCCCAG	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	26563874	26563897	CCACCGAGCGCTGGGGTGCCCCAG	-	DEL	ZNF683	NM_173574	human	genbank	54_36p	-1	validated	in_frame_del	c.750_727	p.LGHPSARW243in_frame_del	0.000:0.000:0.000:0.000:0.000:0.000:0.000:0.000:0.000:0.000:0.000:0.000:0.000:0.000:0.032:0.013:0.002:0.003:0.001:0.000:0.001:0.000:0.002:0.000	NULL	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667	-	no_errors
LARP7	51574	genome.wustl.edu	36	4	113788310	113788310	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	4	113788310	113788310	C	T	SNP	LARP7	NM_015454	human	genbank	54_36p	+1	validated	missense	c.1013	p.T338I	0.095	NULL	"superfamily_""Winged helix"" DNA-binding domain,HMMSmart_SM00715,HMMPfam_La,superfamily_RNA-binding domain RBD,HMMSmart_SM00360,HMMPfam_RRM_1,HMMPfam_RRM_3"	-	no_errors
LOC727770	727770	genome.wustl.edu	36	1	141766541	141766541	+	RNA	SNP	A	A	G			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	141766541	141766541	A	G	SNP	LOC727770	XR_037208	human	genbank	54_36p	+1	model	rna	NULL	NULL	0.946	-	-	-	pseudogene
LOC645269	645269	genome.wustl.edu	36	10	70953120	70953120	+	Missense_Mutation	SNP	G	G	T			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	10	70953120	70953120	G	T	SNP	LOC645269	XM_001130159	human	genbank	54_36p	-1	model	missense	c.328	p.P110T	0.351	HMMPfam_DUF423	HMMPfam_DUF423	-	no_errors
PLEC	5339	genome.wustl.edu	36	8	145064376	145064376	+	Silent	SNP	G	G	A			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	8	145064376	145064376	G	A	SNP	PLEC1	NM_201380	human	genbank	54_36p	-1	reviewed	silent	c.12012	p.D4004	0.085	HMMSmart_SM00250,superfamily_Plakin repeat	HMMPfam_Plectin,HMMSmart_SM00250,PatternScan_ACTININ_1,PatternScan_ACTININ_2,HMMPfam_CH,HMMSmart_SM00033,HMMPfam_S10_plectin,superfamily_Calponin-homology domain CH-domain,HMMSmart_SM00150,superfamily_Spectrin repeat,superfamily_Plakin repeat	-	no_errors
KIF27	55582	genome.wustl.edu	36	9	85691807	85691807	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	9	85691807	85691807	C	A	SNP	KIF27	NM_017576	human	genbank	54_36p	-1	provisional	missense	c.2208	p.K736N	1.000	NULL	HMMSmart_SM00129,superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMPfam_Kinesin,PatternScan_KINESIN_MOTOR_DOMAIN1	-	no_errors
TUBGCP6	85378	genome.wustl.edu	36	22	49004765	49004765	+	Silent	SNP	G	G	A			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	22	49004765	49004765	G	A	SNP	TUBGCP6	NM_020461	human	genbank	54_36p	-1	reviewed	silent	c.2202	p.Y734	0.991	HMMPfam_Spc97_Spc98	HMMPfam_Spc97_Spc98	-	no_errors
LOC100130667	100130667	genome.wustl.edu	36	1	119967577	119967577	+	Nonsense_Mutation	SNP	C	C	T			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	119967577	119967577	C	T	SNP	LOC100130667	XM_001715213	human	genbank	54_36p	+1	model	nonsense	c.1027	p.Q343*	0.998	NULL	NULL	-	no_errors
NCCRP1	342897	genome.wustl.edu	36	19	44383213	44383213	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	19	44383213	44383213	G	A	SNP	NCCRP1	NM_001001414	human	genbank	54_36p	+1	provisional	missense	c.805	p.V269M	1.000	HMMPfam_FBA,superfamily_Gal_bind_like	HMMPfam_FBA,superfamily_Gal_bind_like	-	no_errors
TRAK1	22906	genome.wustl.edu	36	3	42226582	42226584	+	In_Frame_Del	DEL	GGA	GGA	-			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	GGA	GGA			GGA	GGA	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	3	42226582	42226584	GGA	-	DEL	TRAK1	NM_014965	human	genbank	54_36p	+1	validated	in_frame_del	c.1890_1892	p.E634in_frame_del	0.025:0.053:0.080	NULL	HMMPfam_HAP1_N	-	no_errors
OSBPL5	114879	genome.wustl.edu	36	11	3080016	3080016	+	Missense_Mutation	SNP	G	G	T			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	11	3080016	3080016	G	T	SNP	OSBPL5	NM_020896	human	genbank	54_36p	-1	reviewed	missense	c.1398	p.D466E	1.000	HMMPfam_Oxysterol_BP	superfamily_SSF50729,HMMPfam_PH,HMMSmart_PH,HMMPfam_Oxysterol_BP,PatternScan_OSBP	-	no_errors
AKAP13	11214	genome.wustl.edu	36	15	83919417	83919417	+	Silent	SNP	G	G	A			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	15	83919417	83919417	G	A	SNP	AKAP13	NM_006738	human	genbank	54_36p	+1	reviewed	silent	c.714	p.P238	0.233	NULL	superfamily_ANK,HMMPfam_RII_binding_1,superfamily_SSF57889,HMMSmart_C1,PatternScan_ZF_DAG_PE_1,HMMPfam_C1_1,PatternScan_EF_HAND_1,superfamily_DH-domain,HMMPfam_RhoGEF,HMMSmart_RhoGEF,HMMPfam_PH,superfamily_SSF50729,HMMSmart_PH	-	no_errors
PLEKHH1	57475	genome.wustl.edu	36	14	67116295	67116295	+	Silent	SNP	G	G	A			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	14	67116295	67116295	G	A	SNP	PLEKHH1	NM_020715	human	genbank	54_36p	+1	validated	silent	c.3132	p.T1044	0.970	HMMSmart_SM00295	HMMPfam_MyTH4,HMMSmart_SM00139,HMMPfam_PH,HMMSmart_SM00233,HMMPfam_FERM_M,superfamily_Second domain of FERM,HMMSmart_SM00295,superfamily_PH domain-like	-	no_errors
ARFGEF2	10564	genome.wustl.edu	36	20	47023105	47023105	+	Silent	SNP	G	G	A			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	20	47023105	47023105	G	A	SNP	ARFGEF2	NM_006420	human	genbank	54_36p	+1	reviewed	silent	c.1542	p.V514	1.000	superfamily_ARM-type_fold	superfamily_ARM-type_fold,superfamily_Sec7,HMMPfam_Sec7,HMMSmart_Sec7,HMMPfam_DUF1981	-	no_errors
SPAG17	200162	genome.wustl.edu	36	1	118399885	118399885	+	Missense_Mutation	SNP	A	A	G	rs28878787	byCluster	TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	118399885	118399885	A	G	SNP	SPAG17	NM_206996	human	genbank	54_36p	-1	validated	missense	c.2716	p.S906P	0.997	NULL	NULL	-	no_errors
LOC400986	400986	genome.wustl.edu	36	2	95983463	95983463	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	2	95983463	95983463	T	C	SNP	LOC400986	XM_001717763	human	genbank	54_36p	-1	model	missense	c.1154	p.D385G	0.004	NULL	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat	-	no_errors
ARHGAP40	343578	genome.wustl.edu	36	20	36710715	36710715	+	Silent	SNP	G	G	A			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	20	36710715	36710715	G	A	SNP	C20orf95	XM_293123	human	genbank	54_36p	+1	model	silent	c.1737	p.E579	0.000	NULL	HMMPfam_RhoGAP,HMMSmart_SM00324,superfamily_GTPase activation domain GAP	-	no_errors
EYA4	2070	genome.wustl.edu	36	6	133831555	133831555	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	6	133831555	133831555	C	A	SNP	EYA4	NM_004100	human	genbank	54_36p	+1	reviewed	missense	c.963	p.N321K	0.993	NULL	HMMPfam_Hydrolase	-	no_errors
RPL13AP20	387841	genome.wustl.edu	36	12	12920018	12920018	+	RNA	SNP	G	G	C			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	12	12920018	12920018	G	C	SNP	RPL13AP20	XR_042179	human	genbank	54_36p	+1	model	rna	NULL	NULL	1.000	-	-	-	pseudogene
MUC4	4585	genome.wustl.edu	36	3	196992041	196992041	+	Splice_Site	SNP	T	T	G			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	3	196992041	196992041	T	G	SNP	MUC4	ENST00000381931	human	ensembl	54_36p	-1	known	splice_site	c.64-2	e2-2	0.034	-	-	-	no_start_codon:no_stop_codon
ADCY5	111	genome.wustl.edu	36	3	124554002	124554002	+	Silent	SNP	C	C	T			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	3	124554002	124554002	C	T	SNP	ADCY5	NM_183357	human	genbank	54_36p	-1	validated	silent	c.1251	p.A417	0.445	NULL	HMMPfam_Guanylate_cyc,HMMSmart_CYCc,superfamily_A/G_cyclase,HMMPfam_DUF1053,PatternScan_GUANYLATE_CYCLASE_1	-	no_errors
PI1KAP2	0	genome.wustl.edu	36	22	20167349	20167351	+	In_Frame_Del	DEL	CTT	CTT	-			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	CTT	CTT			CTT	CTT	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	22	20167349	20167351	CTT	-	DEL	PI1KAP2	ENST00000360806	human	ensembl	54_36p	-1	known	in_frame_del	c.678_676	p.K226in_frame_del	1.000:1.000:1.000	superfamily_Protein kinase-like (PK-like)	superfamily_Protein kinase-like (PK-like),HMMPfam_PI3_PI4_kinase,HMMSmart_SM00146,PatternScan_PI3_4_KINASE_2	-	no_errors
LOC441098	441098	genome.wustl.edu	36	5	99753785	99753785	+	RNA	SNP	G	G	C			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	5	99753785	99753785	G	C	SNP	LOC441098	XR_042321	human	genbank	54_36p	+1	model	rna	NULL	NULL	0.305	-	-	-	pseudogene
C3orf56	285311	genome.wustl.edu	36	3	128398266	128398266	+	Silent	SNP	T	T	A			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	3	128398266	128398266	T	A	SNP	C3orf56	ENST00000398112	human	ensembl	54_36p	+1	known	silent	c.48	p.R16	0.003	NULL	NULL	-	no_errors
DRD5P1	1817	genome.wustl.edu	36	2	91237422	91237422	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	2	91237422	91237422	C	T	SNP	DRD5P1	ENST00000328341	human	ensembl	54_36p	-1	known	missense	c.215	p.R72H	1.000	superfamily_SSF81321,HMMPfam_7tm_1	superfamily_SSF81321,HMMPfam_7tm_1	-	no_errors
ENSG00000212884	0	genome.wustl.edu	36	NT_113930	117544	117544	+	Missense_Mutation	SNP	G	G	C			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	NT_113930	117544	117544	G	C	SNP	ENSG00000212884	ENST00000391571	human	ensembl	54_36p	+1	known	missense	c.175	p.V59L	NULL	HMMPfam_2-Hacid_dh,superfamily_SSF52283	HMMPfam_2-Hacid_dh,superfamily_SSF52283	-	no_errors
BCAR3	8412	genome.wustl.edu	36	1	93820716	93820716	+	Silent	SNP	G	G	A	rs79172831	byCluster;by1000genomes	TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	93820716	93820716	G	A	SNP	BCAR3	NM_003567	human	genbank	54_36p	-1	reviewed	silent	c.1416	p.G472	0.782	superfamily_Ras GEF	HMMPfam_SH2,HMMSmart_SM00252,HMMSmart_SM00147,superfamily_Ras GEF	-	no_errors
KIAA1370	56204	genome.wustl.edu	36	15	50673187	50673187	+	Silent	SNP	A	A	G			TCGA-AB-2862-03B-01W-0728-08	TCGA-AB-2862-11B-01W-0729-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	15	50673187	50673187	A	G	SNP	KIAA1370	NM_019600	human	genbank	54_36p	-1	validated	silent	c.2688	p.I896	0.992	NULL	NULL	-	no_errors
