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	COSMIC_Codon	COSMIC_Gene	Transcript_Id	Exon	ChromChange	AAChange	Genome_Plus_Minus_10_Bp	Drug_Target	TTotCov	TVarCov	NTotCov	NVarCov	dbSNPPopFreq	COSMIC_Gene_Freq	COSMIC_Site_Freq	TVarRat	NVarRat	dbSNP_Strength	dbSNP_AF	dbSNP_PopFreq	Confidence	Algorithm
NOL9	79707	hgsc.bcm.edu	hg19	1	6586011	6586011	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	NOL9	NM_024654	exon12	c.T2012G	p.L671R	CCAGGAAGTTTAA	.	105.0	47.0	106.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
WDR65	149465	hgsc.bcm.edu	hg19	1	43688643	43688643	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	WDR65	NM_001195831	exon16	c.G2681A	p.G894E	TCAAGGGAGAAAC	.	201.0	98.0	237.0	1.0	.	76	.	.	.	none	.	.	PASS	Atlas-SNP
EVI5	7813	hgsc.bcm.edu	hg19	1	93029241	93029241	+	Nonsense_Mutation	SNP	A	A	C	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	EVI5	NM_005665	exon17	c.T2076G	p.Y692X	CCCAATATACTGG	.	60.0	14.0	88.0	0.0	.	94	.	.	.	none	.	.	PASS	Atlas-SNP
SV2A	9900	hgsc.bcm.edu	hg19	1	149882136	149882136	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	SV2A	NM_014849	exon5	c.C1075G	p.R359G	AGAAACGGGGGCT	.	68.0	33.0	76.0	0.0	.	123	.	.	.	none	.	.	PASS	Atlas-SNP
SETDB1	9869	hgsc.bcm.edu	hg19	1	150936091	150936091	+	Missense_Mutation	SNP	C	C	A	rs148647469	byfrequency;alternate_allele	TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	SETDB1	NM_012432	exon20	c.C3543A	p.N1181K	AACCAACATGGCC	.	230.0	19.0	223.0	0.0	.	204	.	.	.	alt	C|1.000;T|0.000	.	PASS	Atlas-SNP
ZNF687	57592	hgsc.bcm.edu	hg19	1	151259239	151259239	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	ZNF687	NM_020832	exon2	c.A472G	p.T158A	GGCAAAACTCCCT	.	74.0	33.0	91.0	0.0	.	94	.	.	.	none	.	.	PASS	Atlas-SNP
CRTC2	200186	hgsc.bcm.edu	hg19	1	153921707	153921707	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	CRTC2	NM_181715	exon12	c.T1558G	p.S520A	CACCTGAGGACTG	.	100.0	39.0	139.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
DCAF8	50717	hgsc.bcm.edu	hg19	1	160206968	160206968	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	DCAF8	NM_015726	exon6	c.G916A	p.A306T	CAACTGCATCTTC	.	249.0	96.0	321.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
CDC42BPA	8476	hgsc.bcm.edu	hg19	1	227182647	227182647	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	CDC42BPA	NM_003607	exon35	c.G4905T	p.R1635S	GAATTCCCTCTTT	.	32.0	14.0	52.0	0.0	.	528	.	.	.	none	.	.	PASS	Atlas-SNP
SMYD3	64754	hgsc.bcm.edu	hg19	1	246021812	246021812	+	Silent	SNP	G	G	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	SMYD3	NM_001167740	exon10	c.C1062T	p.T354T	CTCCATGGTCCGA	.	86.0	35.0	125.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
HS1BP3	64342	hgsc.bcm.edu	hg19	2	20840800	20840800	+	Silent	SNP	A	A	G	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	HS1BP3	NM_022460	exon3	c.T339C	p.N113N	GATCTCATTGAAC	.	57.0	21.0	62.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
C2orf78	388960	hgsc.bcm.edu	hg19	2	74044108	74044108	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	C2orf78	NM_001080474	exon3	c.T2758C	p.Y920H	TATGGCTACACAA	.	81.0	26.0	100.0	0.0	.	150	.	.	.	none	.	.	PASS	Atlas-SNP
SEPT10	151011	hgsc.bcm.edu	hg19	2	110323346	110323346	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	SEPT10	NM_144710	exon7	c.G853C	p.V285L	CTTGTACAACACC	.	70.0	26.0	101.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
MYO1B	4430	hgsc.bcm.edu	hg19	2	192194689	192194689	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	MYO1B	NM_012223	exon4	c.T280G	p.S94A	TACAGATCCCTAC	.	116.0	8.0	121.0	0.0	.	160	.	.	.	none	.	.	PASS	Atlas-SNP
TAMM41	132001	hgsc.bcm.edu	hg19	3	11851067	11851067	+	Silent	SNP	A	A	T	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	.	NM_138807	exon6	c.T798A	p.P266P	TTTTCCAGGAGGG	.	156.0	38.0	115.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
LTF	4057	hgsc.bcm.edu	hg19	3	46477717	46477717	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	LTF	NM_002343	exon17	c.T2102A	p.L701H	TCCAGGAGGGCTG	.	100.0	50.0	85.0	0.0	.	98	.	.	.	none	.	.	PASS	Atlas-SNP
MCM2	4171	hgsc.bcm.edu	hg19	3	127335805	127335805	+	Silent	SNP	G	G	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	MCM2	NM_004526	exon10	c.G1617A	p.V539V	GAAAGTGTCCAGC	.	166.0	47.0	145.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
TLR1	7096	hgsc.bcm.edu	hg19	4	38799493	38799493	+	Nonsense_Mutation	SNP	A	A	T	rs200631178	bycluster;alternate_allele	TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	TLR1	NM_003263	exon4	c.T960A	p.Y320X	GATTTCATAGATA	.	68.0	22.0	100.0	0.0	.	70	.	.	.	alt	A|0.999;G|0.001	.	PASS	Atlas-SNP
SHISA3	152573	hgsc.bcm.edu	hg19	4	42400345	42400345	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	SHISA3	NM_001080505	exon1	c.C272A	p.T91N	GCATCACTGCGCG	.	64.0	29.0	73.0	0.0	.	27	.	.	.	none	.	.	PASS	Atlas-SNP
CEP135	9662	hgsc.bcm.edu	hg19	4	56858116	56858116	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	CEP135	NM_025009	exon15	c.A1874T	p.Y625F	AAAAATATGAATT	.	458.0	176.0	515.0	1.0	.	115	.	.	.	none	.	.	PASS	Atlas-SNP
GPR151	134391	hgsc.bcm.edu	hg19	5	145894580	145894580	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	GPR151	NM_194251	exon1	c.G1097A	p.S366N	GGAGAGCTGGGTT	.	94.0	29.0	102.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
DSP	1832	hgsc.bcm.edu	hg19	6	7578083	7578083	+	Silent	SNP	C	C	G	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	DSP	NM_004415	exon21	c.C2949G	p.T983T	GAGGACCATGATT	.	58.0	23.0	57.0	0.0	.	306	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF76	7629	hgsc.bcm.edu	hg19	6	35262232	35262232	+	Splice_Site	SNP	G	G	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	ZNF76	NM_003427	exon13	c.1495-1G>A	.	CTTTCAGGTCACA	.	88.0	23.0	123.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
DNAH8	1769	hgsc.bcm.edu	hg19	6	38850785	38850785	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	DNAH8	NM_001206927	exon54	c.T7958G	p.I2653S	ACAATATTAGAAC	.	408.0	144.0	452.0	1.0	.	1239	.	.	.	none	.	.	PASS	Atlas-SNP
TFAP2B	7021	hgsc.bcm.edu	hg19	6	50791382	50791382	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	TFAP2B	NM_003221	exon2	c.G344A	p.G115D	AAGTGGGTTCGGA	.	268.0	110.0	203.0	0.0	.	91	.	.	.	none	.	.	PASS	Atlas-SNP
PHIP	55023	hgsc.bcm.edu	hg19	6	79672856	79672856	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	PHIP	NM_017934	exon30	c.T3493C	p.C1165R	TTTCACATTCTTC	.	96.0	42.0	91.0	0.0	.	177	.	.	.	none	.	.	PASS	Atlas-SNP
BCLAF1	9774	hgsc.bcm.edu	hg19	6	136597062	136597062	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	BCLAF1	NM_014739	exon5	c.G1601A	p.R534K	TTGATCCTAAGTG	.	138.0	41.0	96.0	0.0	.	203	.	.	.	none	.	.	PASS	Atlas-SNP
GRM1	2911	hgsc.bcm.edu	hg19	6	146720170	146720170	+	Silent	SNP	C	C	T	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	GRM1	NM_000838	exon8	c.C1995T	p.G665G	GGTTGGCCTCTCC	.	127.0	58.0	142.0	0.0	.	419	.	.	.	none	.	.	PASS	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	hg19	6	152675910	152675910	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	SYNE1	NM_033071	exon67	c.G10831C	p.E3611Q	TTTGCTCCATTAG	.	91.0	35.0	110.0	0.0	.	3227	.	.	.	none	.	.	PASS	Atlas-SNP
FAM20C	56975	hgsc.bcm.edu	hg19	7	208912	208912	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	FAM20C	NM_020223	exon3	c.G799A	p.G267S	TCGGGGGGCACGC	.	107.0	37.0	117.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
RAPGEF5	9771	hgsc.bcm.edu	hg19	7	22200164	22200164	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	RAPGEF5	NM_012294	exon14	c.C1039T	p.Q347X	TCTTTTGAAATTC	.	71.0	31.0	43.0	0.0	.	96	.	.	.	none	.	.	PASS	Atlas-SNP
TARP	0	hgsc.bcm.edu	hg19	7	38305038	38305038	+	Silent	SNP	T	T	C	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	.	NM_001003806	exon2	c.A57G	p.S19S	GTCCAGTGACTTT	.	160.0	31.0	99.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
TRRAP	8295	hgsc.bcm.edu	hg19	7	98562256	98562256	+	Silent	SNP	C	C	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	TRRAP	NM_001244580	exon47	c.C6813A	p.T2271T	AGGGACCCTTATG	.	140.0	84.0	114.0	0.0	.	863	.	.	.	none	.	.	PASS	Atlas-SNP
E2F5	1875	hgsc.bcm.edu	hg19	8	86119659	86119659	+	Splice_Site	SNP	G	G	C	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	E2F5	NM_001951	exon5	c.551-1G>C	.	TGACCAGGTGATA	.	52.0	15.0	77.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
ANGPT1	284	hgsc.bcm.edu	hg19	8	108509678	108509678	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	ANGPT1,rectum,carcinoma,0,1	ANGPT1	NM_001199859	exon1	c.C109A	p.Q37K	CATGTTGAATCCG	.	98.0	38.0	74.0	0.0	.	111	.	.	.	none	.	.	PASS	Atlas-SNP
ANGPT1	284	hgsc.bcm.edu	hg19	8	108509679	108509679	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	ANGPT1	NM_001199859	exon1	c.T108G	p.I36M	ATGTTGAATCCGG	.	99.0	40.0	75.0	0.0	.	111	.	.	.	none	.	.	PASS	Atlas-SNP
SMU1	55234	hgsc.bcm.edu	hg19	9	33048246	33048246	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	SMU1	NM_018225	exon11	c.G1301T	p.S434I	CTGAAGCTTCTGA	.	63.0	20.0	90.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
FAM13C	220965	hgsc.bcm.edu	hg19	10	61023877	61023877	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	FAM13C	NM_198215	exon9	c.A992G	p.N331S	AAATCATTCATCC	.	65.0	23.0	79.0	0.0	.	124	.	.	.	none	.	.	PASS	Atlas-SNP
GLUD1	2746	hgsc.bcm.edu	hg19	10	88819991	88819991	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	GLUD1	NM_005271	exon9	c.C1205A	p.A402D	CCTTCAGCAATGA	.	100.0	37.0	140.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
HMX3	340784	hgsc.bcm.edu	hg19	10	124896686	124896686	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	HMX3	NM_001105574	exon2	c.C513G	p.S171R	CAAGAGCCCGGAC	.	200.0	72.0	278.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
EPS8L2	64787	hgsc.bcm.edu	hg19	11	720135	720135	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	EPS8L2	NM_022772	exon5	c.A239G	p.Q80R	TGGTGCAGCTGAG	.	238.0	87.0	343.0	0.0	.	42	.	.	.	none	.	.	PASS	Atlas-SNP
HIPK3	10114	hgsc.bcm.edu	hg19	11	33373178	33373178	+	Silent	SNP	T	T	C	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	HIPK3	NM_005734	exon15	c.T2832C	p.S944S	AGAAAGTAGTTGT	.	279.0	23.0	276.0	0.0	.	92	.	.	.	none	.	.	PASS	Atlas-SNP
MRPL16	54948	hgsc.bcm.edu	hg19	11	59573911	59573911	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	MRPL16	NM_017840	exon4	c.A665T	p.N222I	AGCATGTTGGCAG	.	82.0	34.0	80.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
MRPL16	54948	hgsc.bcm.edu	hg19	11	59573937	59573937	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	MRPL16	NM_017840	exon4	c.G639C	p.W213C	AAATGTCCAGGGG	.	77.0	37.0	80.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
BEST1	7439	hgsc.bcm.edu	hg19	11	61730245	61730245	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	BEST1	NM_004183	exon10	c.A1619G	p.N540S	AGTTTAACCTGAC	.	124.0	36.0	181.0	0.0	.	85	.	.	.	none	.	.	PASS	Atlas-SNP
LTBP3	4054	hgsc.bcm.edu	hg19	11	65308749	65308749	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	LTBP3	NM_001130144	exon20	c.A2741G	p.H914R	TTGTGGTGGGGCT	.	22.0	10.0	24.0	0.0	.	55	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA1731	85459	hgsc.bcm.edu	hg19	11	93455212	93455212	+	Silent	SNP	T	T	C	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	KIAA1731	NM_033395	exon20	c.T5943C	p.D1981D	TACAGATCCAGGT	.	50.0	24.0	52.0	0.0	.	173	.	.	.	none	.	.	PASS	Atlas-SNP
MTMR2	8898	hgsc.bcm.edu	hg19	11	95580921	95580921	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	MTMR2	NM_016156	exon10	c.G1136T	p.W379L	GACAACCAGTGGG	.	143.0	56.0	185.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
C11orf1	64776	hgsc.bcm.edu	hg19	11	111753128	111753128	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	C11orf1	NM_022761	exon2	c.T82A	p.C28S	CCACACTGTGGCA	.	122.0	45.0	119.0	0.0	.	15	.	.	.	none	.	.	PASS	Atlas-SNP
SORL1	6653	hgsc.bcm.edu	hg19	11	121430332	121430332	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	SORL1	NM_003105	exon21	c.G3015T	p.M1005I	GCTCATGGACATG	.	103.0	42.0	119.0	0.0	.	218	.	.	.	none	.	.	PASS	Atlas-SNP
SCN3B	55800	hgsc.bcm.edu	hg19	11	123516378	123516378	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	SCN3B	NM_018400	exon2	c.A136T	p.I46F	AGGAGATGCAGCG	.	93.0	35.0	128.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
PLCZ1	89869	hgsc.bcm.edu	hg19	12	18854673	18854673	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	PLCZ1	NM_033123	exon8	c.T902A	p.I301K	GTTCCTATTTTCT	.	74.0	31.0	87.0	0.0	.	107	.	.	.	none	.	.	PASS	Atlas-SNP
SLCO1A2	6579	hgsc.bcm.edu	hg19	12	21459852	21459852	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	SLCO1A2	NM_134431	exon6	c.G406T	p.G136X	GGGTTCCATTTTC	.	127.0	41.0	127.0	0.0	.	107	.	.	.	none	.	.	PASS	Atlas-SNP
BAZ2A	11176	hgsc.bcm.edu	hg19	12	56994768	56994768	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	BAZ2A	NM_013449	exon22	c.A4415C	p.H1472P	TCCCTGTGCTTGT	.	101.0	39.0	124.0	0.0	.	263	.	.	.	none	.	.	PASS	Atlas-SNP
LRP1	4035	hgsc.bcm.edu	hg19	12	57600368	57600368	+	Silent	SNP	C	C	T	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	LRP1	NM_002332	exon76	c.C11703T	p.R3901R	TGTCCGCATTGAT	.	119.0	56.0	123.0	0.0	.	428	.	.	.	none	.	.	PASS	Atlas-SNP
KIF5A	3798	hgsc.bcm.edu	hg19	12	57969029	57969029	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	KIF5A	NM_004984	exon16	c.T1879A	p.S627T	GAGCTCTCATCCT	.	117.0	9.0	98.0	0.0	.	143	.	.	.	none	.	.	PASS	Atlas-SNP
MED13L	23389	hgsc.bcm.edu	hg19	12	116460358	116460358	+	Silent	SNP	A	A	G	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	MED13L	NM_015335	exon5	c.T528C	p.N176N	GCATACATTACTT	.	88.0	32.0	92.0	0.0	.	193	.	.	.	none	.	.	PASS	Atlas-SNP
SLC15A4	121260	hgsc.bcm.edu	hg19	12	129293996	129293996	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	SLC15A4	NM_145648	exon4	c.A1034G	p.Q345R	AGACTCTGTAAAA	.	82.0	11.0	101.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	hg19	13	103390355	103390355	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	.	NM_001146197	exon4	c.A12692G	p.K4231R	TGCTCTTTGTCTT	.	87.0	40.0	105.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
FLVCR2	55640	hgsc.bcm.edu	hg19	14	76045630	76045630	+	Nonsense_Mutation	SNP	C	C	G	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	FLVCR2	NM_017791	exon1	c.C315G	p.Y105X	CCAGTACGGCTCC	.	96.0	11.0	111.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
KCNK10	54207	hgsc.bcm.edu	hg19	14	88707144	88707144	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	KCNK10	NM_138318	exon3	c.T423G	p.N141K	TCCCGCATTGTCA	.	56.0	24.0	50.0	0.0	.	273	.	.	.	none	.	.	PASS	Atlas-SNP
ZC3H14	79882	hgsc.bcm.edu	hg19	14	89061310	89061310	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	ZC3H14	NM_207662	exon1	c.A240C	p.K80N	AGCAAAAATTTCA	.	148.0	54.0	214.0	0.0	.	71	.	.	.	none	.	.	PASS	Atlas-SNP
EML5	161436	hgsc.bcm.edu	hg19	14	89128042	89128042	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	EML5	NM_183387	exon25	c.G3631T	p.G1211W	CGTCCCCGGTAGC	.	144.0	57.0	145.0	0.0	.	141	.	.	.	none	.	.	PASS	Atlas-SNP
ADSSL1	122622	hgsc.bcm.edu	hg19	14	105207480	105207480	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	ADSSL1	NM_199165	exon8	c.G822T	p.M274I	ACCCATGGTCCGA	.	53.0	23.0	64.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	hg19	15	28499655	28499655	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	HERC2	NM_004667	exon20	c.G2881A	p.A961T	TTTTGGCTTCAAT	.	20.0	6.0	24.0	0.0	.	501	.	.	.	none	.	.	PASS	Atlas-SNP
HERC1	8925	hgsc.bcm.edu	hg19	15	64025169	64025169	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	HERC1	NM_003922	exon14	c.C2822A	p.A941D	ATTTCAGCCAGGT	.	131.0	50.0	167.0	0.0	.	624	.	.	.	none	.	.	PASS	Atlas-SNP
PKD1	5310	hgsc.bcm.edu	hg19	16	2168325	2168325	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	PKD1	NM_000296	exon5	c.C668T	p.A223V	GAGAGGGCTGCGA	.	150.0	31.0	136.0	0.0	.	184	.	.	.	none	.	.	PASS	Atlas-SNP
ANKS4B	257629	hgsc.bcm.edu	hg19	16	21261239	21261239	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	ANKS4B	NM_145865	exon2	c.G352C	p.D118H	CTCCTGGACAAGG	.	150.0	49.0	106.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
IL4R	3566	hgsc.bcm.edu	hg19	16	27374814	27374814	+	Nonsense_Mutation	SNP	C	C	A	rs370734074	alternate_allele	TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	IL4R	NM_000418	exon11	c.C2141A	p.S714X	TCTACTCAGCCCT	.	99.0	35.0	73.0	0.0	.	70	.	.	.	alt	.	.	PASS	Atlas-SNP
ZNF629	23361	hgsc.bcm.edu	hg19	16	30794005	30794005	+	Silent	SNP	G	G	A	rs372927017		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	ZNF629	NM_001080417	exon3	c.C1644T	p.G548G	GCTGTCGCCCTGG	.	72.0	30.0	64.0	0.0	.	44	.	.	.	weak	.	.	PASS	Atlas-SNP
CHD9	80205	hgsc.bcm.edu	hg19	16	53301225	53301225	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	CHD9	NM_025134	exon21	c.C4340G	p.T1447S	TTGACACTCCAAG	.	126.0	7.0	94.0	0.0	.	203	.	.	.	none	.	.	PASS	Atlas-SNP
RPA1	6117	hgsc.bcm.edu	hg19	17	1787152	1787152	+	Silent	SNP	C	C	T	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	RPA1	NM_002945	exon13	c.C1288T	p.L430L	TCTGATCTAAAGA	.	240.0	50.0	188.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
TBC1D16	125058	hgsc.bcm.edu	hg19	17	77987194	77987194	+	Silent	SNP	C	C	T	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	TBC1D16	NM_019020	exon2	c.G153A	p.G51G	CTGCAGCCCCTCC	.	115.0	61.0	117.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
CACNA1A	773	hgsc.bcm.edu	hg19	19	13394119	13394119	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	CACNA1A	NM_001127221	exon22	c.G3787A	p.A1263T	CCTCGGCGGCCAG	.	117.0	46.0	118.0	0.0	.	715	.	.	.	none	.	.	PASS	Atlas-SNP
UNC13A	23025	hgsc.bcm.edu	hg19	19	17740112	17740112	+	Silent	SNP	G	G	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	UNC13A	NM_001080421	exon30	c.C3690T	p.L1230L	ATACTGGAGGAGC	.	50.0	15.0	70.0	0.0	.	299	.	.	.	none	.	.	PASS	Atlas-SNP
KLHL26	55295	hgsc.bcm.edu	hg19	19	18778568	18778568	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	KLHL26	NM_018316	exon3	c.G361A	p.A121T	GACTTCGCCTACA	.	87.0	27.0	92.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF790	388536	hgsc.bcm.edu	hg19	19	37309949	37309949	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	ZNF790	NM_206894	exon5	c.T1297G	p.W433G	AAGCCCAAGTAAA	.	91.0	39.0	107.0	0.0	.	89	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF546	339327	hgsc.bcm.edu	hg19	19	40521132	40521132	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	ZNF546	NM_178544	exon7	c.T1955A	p.L652H	CTCATCTCACGCA	.	107.0	39.0	101.0	0.0	.	93	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF600	162966	hgsc.bcm.edu	hg19	19	53268927	53268927	+	Nonsense_Mutation	SNP	G	G	C	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	ZNF600	NM_198457	exon3	c.C2082G	p.Y694X	ACACTTGTAAGGT	.	110.0	43.0	117.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM190	147744	hgsc.bcm.edu	hg19	19	55889460	55889460	+	Silent	SNP	G	G	C	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	TMEM190	NM_139172	exon5	c.G423C	p.T141T	GTCCACGGGCAGC	.	88.0	26.0	115.0	0.0	.	17	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF444	55311	hgsc.bcm.edu	hg19	19	56671522	56671522	+	Silent	SNP	T	T	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	ZNF444	NM_018337	exon5	c.T936A	p.A312A	GGTAGCTCCGGGC	.	23.0	10.0	36.0	0.0	.	15	.	.	.	none	.	.	PASS	Atlas-SNP
COMMD7	149951	hgsc.bcm.edu	hg19	20	31292673	31292673	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	COMMD7,NS,carcinoma,0,1	COMMD7	NM_053041	exon6	c.G370A	p.A124T	CTATGGCCCATCG	.	103.0	28.0	103.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
MYH7B	57644	hgsc.bcm.edu	hg19	20	33585257	33585257	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	MYH7B	NM_020884	exon32	c.G3687T	p.E1229D	GGAGGAGGCGGCG	.	64.0	40.0	32.0	0.0	.	145	.	.	.	none	.	.	PASS	Atlas-SNP
BCR	613	hgsc.bcm.edu	hg19	22	23632573	23632573	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	BCR	NM_021574	exon14	c.T2755G	p.S919A	GTCCACTCAGCCA	.	58.0	29.0	70.0	0.0	.	74	.	.	.	none	.	.	PASS	Atlas-SNP
AKAP4	8852	hgsc.bcm.edu	hg19	X	49957181	49957181	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	AKAP4	NM_003886	exon5	c.C2183A	p.A728E	GAGGCTGCTTGTT	.	52.0	11.0	46.0	0.0	.	131	.	.	.	none	.	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	hg19	17	11584061	11584062	+	Frame_Shift_Ins	INS	-	-	AC	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	DNAH9	NM_001372	exon19	c.3598_3599insAC	p.N1200fs	.	.	235.0	66.0	175.0	0.0	.	695	.	0.280851	0	none	.	.	PASS	Atlas-Indel,Pindel
MYH11	4629	hgsc.bcm.edu	hg19	16	15820719	15820720	+	Frame_Shift_Ins	INS	-	-	TT	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	MYH11	NM_001040114	exon29	c.3865_3866insAA	p.V1289fs	.	.	47.0	10.0	60.0	0.0	.	520	.	0.212766	0	none	.	.	PASS	Atlas-INDEL
KRT15	3866	hgsc.bcm.edu	hg19	17	39674603	39674617	+	In_Frame_Del	DEL	GGTCTTGAAGTATTG	GGTCTTGAAGTATTG	-	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	GGTCTTGAAGTATTG	GGTCTTGAAGTATTG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	KRT15	NM_002275	exon1	c.464_478del	p.155_160del	.	.	68.0	27.0	87.0	0.0	.	60	.	0.397059	0	none	.	.	PASS	Atlas-Indel,Pindel
COG3	83548	hgsc.bcm.edu	hg19	13	46054274	46054274	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	COG3	NM_031431	exon4	c.397delT	p.Y133fs	.	.	93.0	30.0	137.0	0.0	.	52	.	0.322581	0	none	.	.	PASS	Atlas-Indel,Pindel
TMEM190	147744	hgsc.bcm.edu	hg19	19	55889450	55889456	+	Frame_Shift_Del	DEL	CGCCGTC	CGCCGTC	-	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	CGCCGTC	CGCCGTC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	TMEM190	NM_139172	exon5	c.412_418del	p.138_140del	.	.	80.0	17.0	107.0	0.0	.	17	.	0.2125	0	none	.	.	PASS	Atlas-Indel,Pindel
GNA14	9630	hgsc.bcm.edu	hg19	9	80043875	80043875	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	GNA14	NM_004297	exon5	c.672delC	p.F224fs	.	.	117.0	46.0	122.0	0.0	.	50	.	0.393162	0	none	.	.	PASS	Atlas-Indel,Pindel
KIF20A	10112	hgsc.bcm.edu	hg19	5	137519054	137519055	+	Splice_Site	INS	-	-	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	KIF20A	NM_005733	exon8	c.1027+2->A	.	.	.	99.0	21.0	102.0	0.0	.	53	.	0.212121	0	none	.	.	PASS	Atlas-Indel,Pindel
SLC34A1	6569	hgsc.bcm.edu	hg19	5	176815315	176815316	+	Frame_Shift_Ins	INS	-	-	TGAGTCCC	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	SLC34A1	NM_003052	exon8	c.878_879insTGAGTCCC	p.D293fs	.	.	72.0	13.0	117.0	0.0	.	73	.	0.180556	0	none	.	.	PASS	Atlas-Indel,Pindel
CSMD3	114788	hgsc.bcm.edu	hg19	8	113662424	113662425	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	CSMD3	NM_198123	exon19	c.3159_3160insA	p.N1053fs	.	.	228.0	26.0	228.0	0.0	.	2325	.	0.114035	0	none	.	.	PASS	Atlas-Indel,Pindel
FAM134C	162427	hgsc.bcm.edu	hg19	17	40744166	40744171	+	In_Frame_Del	DEL	GTCAGG	GTCAGG	-	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	GTCAGG	GTCAGG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	FAM134C	NM_178126	exon2	c.250_255del	p.84_85del	.	.	59.0	31.0	75.0	0.0	.	26	.	0.525424	0	none	.	.	PASS	Atlas-Indel,Pindel
MIDN	90007	hgsc.bcm.edu	hg19	19	1251579	1251580	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	MIDN	NM_177401	exon3	c.252_253insC	p.K84fs	.	.	72.0	22.0	88.0	0.0	.	34	.	0.305556	0	none	.	.	PASS	Atlas-Indel,Pindel
PLAG1	5324	hgsc.bcm.edu	hg19	8	57079249	57079250	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	PLAG1	NM_002655	exon5	c.1056_1057insT	p.L352fs	.	.	93.0	40.0	102.0	0.0	.	123	.	0.430108	0	none	.	.	PASS	Atlas-Indel,Pindel
FAM208A	23272	hgsc.bcm.edu	hg19	3	56680758	56680758	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	FAM208A	NM_001112736	exon14	c.2008delT	p.S670fs	.	.	130.0	73.0	110.0	0.0	.	113	.	0.561538	0	none	.	.	PASS	Atlas-Indel,Pindel
NAIP	4671	hgsc.bcm.edu	hg19	5	70316605	70316606	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	NAIP	NM_022892	exon3	c.63_64insT	p.L21fs	.	.	199.0	17.0	214.0	0.0	.	38	.	0.0854271	0	none	.	.	PASS	Atlas-Indel,Pindel
HSCB	150274	hgsc.bcm.edu	hg19	22	29138082	29138085	+	Frame_Shift_Del	DEL	AGAT	AGAT	-	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	AGAT	AGAT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	HSCB	NM_172002	wholegene	.	.	.	.	86.0	43.0	93.0	0.0	.	16	.	0.5	0	none	.	.	PASS	Atlas-Indel,Pindel
THY1	7070	hgsc.bcm.edu	hg19	11	119290952	119290959	+	Frame_Shift_Del	DEL	TGCTTCTT	TGCTTCTT	-	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	TGCTTCTT	TGCTTCTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	THY1	NM_006288	exon3	c.176_183del	p.59_61del	.	.	80.0	23.0	98.0	0.0	.	21	.	0.2875	0	none	.	.	PASS	Atlas-Indel,Pindel
GMEB2	26205	hgsc.bcm.edu	hg19	20	62236196	62236212	+	Splice_Site	DEL	GGTGAAGTGAAGGGAGG	GGTGAAGTGAAGGGAGG	-	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	GGTGAAGTGAAGGGAGG	GGTGAAGTGAAGGGAGG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	GMEB2	.	.	.	.	.	.	47.0	10.0	37.0	0.0	.	44	.	0.213	.	none	.	.	PASS	Pindel
C7orf63	79846	hgsc.bcm.edu	hg19	7	89936365	89936368	+	Frame_Shift_Del	DEL	AGCC	AGCC	-	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	AGCC	AGCC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	C7orf63	NM_001039706	exon20	c.2415_2418del	p.805_806del	.	.	329.0	101.0	306.0	0.0	.	158	.	0.307	.	none	.	.	PASS	Pindel
TROAP	10024	hgsc.bcm.edu	hg19	12	49717698	49717698	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-Y8-A895-01A-11D-A35Z-10	TCGA-Y8-A895-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ddcb521-adce-4fcc-8f3b-0cfd15f4274b	404c87ca-74c1-4140-bb3c-0186ece2d39e	.	TROAP	NM_001100620	exon3	c.214delG	p.A72fs	.	.	101.0	25.0	130.0	0.0	.	80	.	0.248	.	none	.	.	PASS	Pindel