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
DNAJC16	23341	hgsc.bcm.edu	hg19	1	15894410	15894410	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	DNAJC16	NM_015291	exon15	c.G2087A	p.G696D	ACACTGGTTATGT	.	123.0	26.0	162.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
BAI2	576	hgsc.bcm.edu	hg19	1	32203282	32203282	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	BAI2	NM_001703	exon19	c.C2847T	p.T949T	GAGCAGGGTGAGC	.	56.0	22.0	59.0	0.0	.	128	.	.	.	none	.	.	PASS	Atlas-SNP
ABCA4	24	hgsc.bcm.edu	hg19	1	94502837	94502837	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	ABCA4	NM_000350	exon25	c.G3677T	p.G1226V	TCTTGACCAATGC	.	80.0	14.0	161.0	0.0	.	275	.	.	.	none	.	.	PASS	Atlas-SNP
KCNA2	3737	hgsc.bcm.edu	hg19	1	111146524	111146524	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	KCNA2	NM_001204269	exon3	c.G881T	p.R294L	ATGACACGGAGGA	.	92.0	33.0	170.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
SPAG17	200162	hgsc.bcm.edu	hg19	1	118535132	118535132	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	SPAG17	NM_206996	exon36	c.T5318A	p.V1773D	TTTATGACCTCAT	.	100.0	25.0	174.0	0.0	.	263	.	.	.	none	.	.	PASS	Atlas-SNP
FMO4	2329	hgsc.bcm.edu	hg19	1	171303684	171303684	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	FMO4	NM_002022	exon8	c.T962C	p.I321T	AAAACATTGATGT	.	79.0	31.0	124.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
CEP350	9857	hgsc.bcm.edu	hg19	1	180063597	180063597	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	CEP350	NM_014810	exon34	c.A8357T	p.Q2786L	GCAATCAGGAGCT	.	47.0	16.0	37.0	0.0	.	418	.	.	.	none	.	.	PASS	Atlas-SNP
ADAM17	6868	hgsc.bcm.edu	hg19	2	9630624	9630624	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	ADAM17	NM_003183	exon19	c.G2157A	p.M719I	AGAATCCATGCTG	.	55.0	11.0	50.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
TTC7A	57217	hgsc.bcm.edu	hg19	2	47300864	47300864	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	TTC7A	NM_020458	exon20	c.C2379T	p.G793G	GCTGGGCCACAAG	.	62.0	24.0	111.0	0.0	.	80	.	.	.	none	.	.	PASS	Atlas-SNP
SPTBN1	6711	hgsc.bcm.edu	hg19	2	54876308	54876308	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	SPTBN1	NM_003128	exon25	c.A5183G	p.Q1728R	TGGGACAGGACTA	.	74.0	4.0	75.0	0.0	.	378	.	.	.	none	.	.	PASS	Atlas-SNP
IL1R2	7850	hgsc.bcm.edu	hg19	2	102626224	102626224	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	IL1R2	NM_001261419	exon3	c.G268T	p.D90Y	GCCCAGGACGGTG	.	270.0	85.0	359.0	1.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
SLC4A10	57282	hgsc.bcm.edu	hg19	2	162711596	162711596	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	SLC4A10	NM_001178016	exon6	c.C566A	p.T189N	ATGGAACTGTGTT	.	77.0	33.0	82.0	0.0	.	309	.	.	.	none	.	.	PASS	Atlas-SNP
SLC4A10	57282	hgsc.bcm.edu	hg19	2	162711597	162711597	+	Silent	SNP	T	T	G	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	SLC4A10	NM_001178016	exon6	c.T567G	p.T189T	TGGAACTGTGTTG	.	76.0	33.0	83.0	0.0	.	309	.	.	.	none	.	.	PASS	Atlas-SNP
UGT1A9	54600	hgsc.bcm.edu	hg19	2	234580748	234580748	+	Silent	SNP	T	T	C	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	UGT1A9,NS,carcinoma,0,1	UGT1A9	NM_021027	exon1	c.T168C	p.V56V	GGTGGTTGTAGTC	.	96.0	4.0	107.0	1.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
STAC	6769	hgsc.bcm.edu	hg19	3	36587768	36587768	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	STAC	NM_003149	exon11	c.T1196G	p.L399R	ATGTACTAGAAAA	.	80.0	62.0	86.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
SETD2	29072	hgsc.bcm.edu	hg19	3	47061276	47061276	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	SETD2	NM_014159	exon19	c.A7405T	p.K2469X	TGCTTTTCTTTGC	.	85.0	72.0	151.0	1.0	.	721	.	.	.	none	.	.	PASS	Atlas-SNP
NPRL2	10641	hgsc.bcm.edu	hg19	3	50386372	50386372	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	NPRL2,NS,carcinoma,0,1	NPRL2	NM_006545	exon5	c.A518T	p.D173V	GGTACATCATACT	.	149.0	107.0	165.0	1.0	.	27	.	.	.	none	.	.	PASS	Atlas-SNP
BAP1	8314	hgsc.bcm.edu	hg19	3	52441190	52441190	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	BAP1	NM_004656	exon7	c.G580A	p.G194R	GCCTACCATGGTC	.	52.0	34.0	66.0	0.0	.	371	.	.	.	none	.	.	PASS	Atlas-SNP
ZBTB11	27107	hgsc.bcm.edu	hg19	3	101378652	101378652	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	ZBTB11	NM_014415	exon6	c.C2021G	p.T674R	ACACCTGTGTGCT	.	99.0	36.0	125.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
KCTD8	386617	hgsc.bcm.edu	hg19	4	44450342	44450342	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	KCTD8	NM_198353	exon1	c.G199A	p.D67N	TACTGTCCGGGAC	.	36.0	14.0	23.0	0.0	.	96	.	.	.	none	.	.	PASS	Atlas-SNP
CDC20B	166979	hgsc.bcm.edu	hg19	5	54429246	54429246	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	CDC20B	NM_001170402	exon6	c.G691T	p.D231Y	AGTAGTCATTTCG	.	99.0	37.0	139.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
OTP	23440	hgsc.bcm.edu	hg19	5	76932809	76932809	+	Missense_Mutation	SNP	G	G	C	rs148662448	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	OTP	NM_032109	exon2	c.C284G	p.A95G	TGGCCGGCTTGGC	.	152.0	49.0	141.0	0.0	.	29	.	.	.	alt	G|0.995;A|0.005	.	PASS	Atlas-SNP
AFF4	27125	hgsc.bcm.edu	hg19	5	132270292	132270292	+	Silent	SNP	T	T	G	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	AFF4	NM_014423	exon3	c.A465C	p.S155S	GTTATATGACTCA	.	147.0	65.0	183.0	0.0	.	120	.	.	.	none	.	.	PASS	Atlas-SNP
CDHR2	54825	hgsc.bcm.edu	hg19	5	175995765	175995765	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	CDHR2,colon,carcinoma,0,1	CDHR2	NM_017675	exon4	c.G211T	p.A71S	TTCTTCGCTGTCA	.	123.0	7.0	125.0	1.0	.	152	.	.	.	none	.	.	PASS	Atlas-SNP
DST	667	hgsc.bcm.edu	hg19	6	56480769	56480769	+	Missense_Mutation	SNP	C	C	T	rs148062292		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	DST	NM_001723	exon24	c.G7496A	p.R2499Q	GCCACCCGGTACT	.	114.0	44.0	141.0	0.0	.	1427	.	.	.	weak	C|1.000;T|0.000	0.000	PASS	Atlas-SNP
SEPT7	989	hgsc.bcm.edu	hg19	7	35930344	35930344	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	SEPT7	NM_001011553	exon10	c.A936T	p.K312N	CAGAAAACTTGCA	.	27.0	15.0	30.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
FOXP2	93986	hgsc.bcm.edu	hg19	7	114299729	114299729	+	Splice_Site	SNP	G	G	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	FOXP2	NM_014491	exon13	c.1647+1G>A	.	TGGAAGGTAACTA	.	58.0	25.0	96.0	0.0	.	133	.	.	.	none	.	.	PASS	Atlas-SNP
SGK223	0	hgsc.bcm.edu	hg19	8	8234118	8234118	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	.	NM_001080826	exon2	c.G1801T	p.G601C	CGACACCGTTGGT	.	88.0	23.0	76.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF395	55893	hgsc.bcm.edu	hg19	8	28209093	28209093	+	Silent	SNP	C	C	A	rs145491469	byfrequency;alternate_allele	TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	ZNF395,NS,carcinoma,0,1	ZNF395	NM_018660	exon7	c.G1152T	p.P384P	GGACTCCGGGCCA	.	178.0	62.0	160.0	1.0	.	54	.	.	.	alt	C|1.000;T|0.000	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	hg19	8	144998457	144998457	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	PLEC	NM_201380	exon31	c.G6051A	p.L2017L	CTCCTCCAGCCGC	.	18.0	8.0	23.0	0.0	.	1144	.	.	.	none	.	.	PASS	Atlas-SNP
VPS13A	23230	hgsc.bcm.edu	hg19	9	79955424	79955424	+	Silent	SNP	T	T	A	rs144477984	byfrequency;alternate_allele	TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	VPS13A	NM_001018038	exon50	c.T6984A	p.A2328A	AGTGGCTGAAGAA	.	91.0	42.0	122.0	0.0	.	735	.	.	.	alt	T|1.000;C|0.000	.	PASS	Atlas-SNP
TLL2	7093	hgsc.bcm.edu	hg19	10	98136535	98136535	+	Missense_Mutation	SNP	C	C	A	rs150738442	alternate_allele	TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	TLL2	NM_012465	exon18	c.G2362T	p.A788S	GGCTCGCCAGGGT	.	104.0	33.0	86.0	0.0	.	122	.	.	.	alt	C|1.000;T|0.000	.	PASS	Atlas-SNP
GBF1	8729	hgsc.bcm.edu	hg19	10	104130546	104130546	+	Missense_Mutation	SNP	G	G	T	rs7894865	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	GBF1	NM_001199378	exon29	c.G3589T	p.V1197L	TTCCTTGTGGAGC	.	101.0	40.0	133.0	0.0	.	142	.	.	.	alt	G|0.996;A|0.004	.	PASS	Atlas-SNP
SUFU	51684	hgsc.bcm.edu	hg19	10	104353417	104353417	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	SUFU	NM_001178133	exon5	c.C622A	p.L208I	GAAGAGCTACACT	.	73.0	39.0	89.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
POLR2L	5441	hgsc.bcm.edu	hg19	11	840428	840428	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	POLR2L	NM_021128	exon2	c.C148T	p.L50L	GGGCCAGCAGCAT	.	173.0	48.0	193.0	0.0	.	2	.	.	.	none	.	.	PASS	Atlas-SNP
SAAL1	113174	hgsc.bcm.edu	hg19	11	18101957	18101957	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	SAAL1	NM_138421	exon12	c.G1414C	p.V472L	TCTGAACCTTCAA	.	68.0	16.0	102.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
GAB2	9846	hgsc.bcm.edu	hg19	11	77934564	77934564	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	GAB2	NM_080491	exon6	c.C1461T	p.D487D	AAGTGAGTCAAAG	.	229.0	70.0	270.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
CASP5	838	hgsc.bcm.edu	hg19	11	104879534	104879534	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	CASP5	NM_001136112	exon2	c.A220C	p.K74Q	TCTTACTTTTTAC	.	58.0	23.0	83.0	0.0	.	213	.	.	.	none	.	.	PASS	Atlas-SNP
KDM5A	5927	hgsc.bcm.edu	hg19	12	404935	404935	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	KDM5A	NM_001042603	exon26	c.C4259G	p.P1420R	TTCCGAGGTTGTT	.	143.0	54.0	199.0	0.0	.	307	.	.	.	none	.	.	PASS	Atlas-SNP
AEBP2	121536	hgsc.bcm.edu	hg19	12	19615463	19615463	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	AEBP2	NM_001114176	exon2	c.G691C	p.D231H	ATAATGGATGTAG	.	32.0	13.0	25.0	0.0	.	21	.	.	.	none	.	.	PASS	Atlas-SNP
PFKM	5213	hgsc.bcm.edu	hg19	12	48538849	48538849	+	Silent	SNP	C	C	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	PFKM	NM_001166686	exon23	c.C2241A	p.A747A	TTTTGCCACTAAG	.	119.0	42.0	71.0	0.0	.	117	.	.	.	none	.	.	PASS	Atlas-SNP
NCKAP1L	3071	hgsc.bcm.edu	hg19	12	54903761	54903761	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	NCKAP1L	NM_005337	exon7	c.T727G	p.S243A	GCTAATTCAGATA	.	150.0	56.0	142.0	0.0	.	180	.	.	.	none	.	.	PASS	Atlas-SNP
GDE1	51573	hgsc.bcm.edu	hg19	16	19516303	19516303	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	GDE1	NM_016641	exon5	c.T748G	p.F250V	TAACAAATATAAA	.	164.0	51.0	145.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
EEF2K	29904	hgsc.bcm.edu	hg19	16	22237117	22237117	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	EEF2K	NM_013302	exon2	c.C67T	p.H23Y	GCTGGCCATGATG	.	92.0	20.0	82.0	0.0	.	142	.	.	.	none	.	.	PASS	Atlas-SNP
CX3CL1	6376	hgsc.bcm.edu	hg19	16	57413588	57413588	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	CX3CL1	NM_002996	exon2	c.A113G	p.K38R	GCAGCAAGATGAC	.	85.0	19.0	71.0	0.0	.	27	.	.	.	none	.	.	PASS	Atlas-SNP
SLC12A4	6560	hgsc.bcm.edu	hg19	16	67981315	67981315	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	SLC12A4	NM_001145962	exon15	c.G1997C	p.G666A	CGGATCCCGTCAC	.	34.0	8.0	37.0	0.0	.	81	.	.	.	none	.	.	PASS	Atlas-SNP
NFATC3	4775	hgsc.bcm.edu	hg19	16	68224719	68224719	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	NFATC3	NM_173163	exon9	c.C2147A	p.P716Q	CAGTTCCATCTTT	.	171.0	95.0	206.0	0.0	.	190	.	.	.	none	.	.	PASS	Atlas-SNP
CHMP1A	5119	hgsc.bcm.edu	hg19	16	89715819	89715819	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	CHMP1A	NM_001083314	exon3	c.G172A	p.D58N	CGCCATCCGAAGC	.	210.0	63.0	150.0	0.0	.	15	.	.	.	none	.	.	PASS	Atlas-SNP
CDK10	8558	hgsc.bcm.edu	hg19	16	89756963	89756963	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	CDK10	NM_052988	exon3	c.C163T	p.R55W	CCAGATCGGGCCC	.	144.0	28.0	111.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
ACAP1	9744	hgsc.bcm.edu	hg19	17	7250507	7250507	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	ACAP1	NM_014716	exon14	c.G1289A	p.W430X	CGGAGTGGGCCAG	.	121.0	38.0	105.0	0.0	.	66	.	.	.	none	.	.	PASS	Atlas-SNP
ATAD5	79915	hgsc.bcm.edu	hg19	17	29162059	29162059	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	ATAD5	NM_024857	exon2	c.G960C	p.K320N	CTTTAAGACAGTT	.	61.0	22.0	108.0	0.0	.	150	.	.	.	none	.	.	PASS	Atlas-SNP
LRRC37B	114659	hgsc.bcm.edu	hg19	17	30348539	30348539	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	LRRC37B	NM_052888	exon1	c.G374T	p.R125L	ACAAGCGGACTCC	.	153.0	49.0	167.0	0.0	.	67	.	.	.	none	.	.	PASS	Atlas-SNP
MFSD11	79157	hgsc.bcm.edu	hg19	17	74772621	74772621	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	MFSD11	NM_001242532	exon12	c.C1183T	p.Q395X	TTTGTTCAGGTAA	.	220.0	108.0	236.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
SYT4	6860	hgsc.bcm.edu	hg19	18	40853823	40853823	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	SYT4	NM_020783	exon2	c.G571A	p.D191N	ATGGGTCAGAGGT	.	112.0	46.0	109.0	0.0	.	162	.	.	.	none	.	.	PASS	Atlas-SNP
MRPL54	116541	hgsc.bcm.edu	hg19	19	3765208	3765208	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	MRPL54,colon,carcinoma,0,1	MRPL54	NM_172251	exon2	c.G163A	p.A55T	AGCGAGGCCCTCA	.	50.0	24.0	90.0	0.0	.	9	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF225	7768	hgsc.bcm.edu	hg19	19	44635911	44635911	+	Silent	SNP	A	A	C	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	ZNF225	NM_013362	exon5	c.A1144C	p.R382R	AGCTTCAGATGGG	.	101.0	47.0	113.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF547	284306	hgsc.bcm.edu	hg19	19	57888699	57888699	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	ZNF547	NM_173631	exon4	c.G355A	p.A119T	TGTCCAGCACATC	.	91.0	27.0	97.0	0.0	.	45	.	.	.	none	.	.	PASS	Atlas-SNP
ITGB2	3689	hgsc.bcm.edu	hg19	21	46306670	46306670	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	ITGB2	NM_000211	exon15	c.T2228G	p.L743R	GACTTGAGCTTCT	.	43.0	6.0	73.0	0.0	.	107	.	.	.	none	.	.	PASS	Atlas-SNP
NF2	4771	hgsc.bcm.edu	hg19	22	30038223	30038223	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	NF2	NM_000268	exon4	c.C396A	p.Y132X	GATCTACTGCCCT	.	55.0	37.0	66.0	0.0	.	1312	.	.	.	none	.	.	PASS	Atlas-SNP
SLC9A7	84679	hgsc.bcm.edu	hg19	X	46491075	46491075	+	Silent	SNP	A	A	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	SLC9A7	NM_001257291	exon14	c.T1686A	p.V562V	GGGGTCAACACCA	.	48.0	17.0	26.0	0.0	.	73	.	.	.	none	.	.	PASS	Atlas-SNP
MCTS1	28985	hgsc.bcm.edu	hg19	X	119739295	119739295	+	Silent	SNP	C	C	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	MCTS1	NM_001137554	exon2	c.C48A	p.I16I	CTGCATCCAGTTG	.	126.0	30.0	163.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
MCTS1	28985	hgsc.bcm.edu	hg19	X	119739296	119739296	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	MCTS1	NM_001137554	exon2	c.C49T	p.Q17X	TGCATCCAGTTGA	.	123.0	30.0	165.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
SEPT7	989	hgsc.bcm.edu	hg19	7	35930341	35930341	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	SEPT7	NM_001011553	exon10	c.932delG	p.R311fs	.	.	31.0	15.0	30.0	0.0	.	24	.	0.483871	0	none	.	.	PASS	Atlas-INDEL
RASA4	10156	hgsc.bcm.edu	hg19	7	102240772	102240772	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	RASA4	NM_006989	exon7	c.575delC	p.A192fs	.	.	103.0	10.0	100.0	0.0	.	7	.	0.0970874	0	none	.	.	PASS	Atlas-INDEL
STAG2	10735	hgsc.bcm.edu	hg19	X	123184115	123184118	+	Frame_Shift_Del	DEL	AATG	AATG	-	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	AATG	AATG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	STAG2	NM_001042749	exon11	c.972_975del	p.324_325del	.	.	179.0	61.0	252.0	0.0	.	309	.	0.340782	0	none	.	.	PASS	Atlas-INDEL
KRT18P55	284085	hgsc.bcm.edu	hg19	17	26604362	26604363	+	RNA	INS	-	-	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	.	.	.	.	.	.	.	76.0	35.0	92.0	0.0	.	.	.	0.460526	0	none	.	.	PASS	Atlas-INDEL
MCTS1	28985	hgsc.bcm.edu	hg19	X	119739292	119739293	+	Frame_Shift_Ins	INS	-	-	AT	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	MCTS1	NM_001137554	exon2	c.45_46insAT	p.C15fs	.	.	131.0	28.0	159.0	0.0	.	40	.	0.21374	0	none	.	.	PASS	Atlas-INDEL
TMEM144	55314	hgsc.bcm.edu	hg19	4	159138552	159138552	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	TMEM144	NM_018342	exon5	c.311delT	p.L104X	.	.	62.0	26.0	92.0	0.0	.	34	.	0.419355	0	none	.	.	PASS	Atlas-INDEL
OR51A2	401667	hgsc.bcm.edu	hg19	11	4976463	4976469	+	Frame_Shift_Del	DEL	AGGGAAG	AGGGAAG	-	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	AGGGAAG	AGGGAAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	OR51A2	NM_001004748	exon1	c.476_482del	p.159_161del	.	.	164.0	27.0	244.0	0.0	.	40	.	0.164634	0	none	.	.	PASS	Atlas-INDEL
DNAJC16	23341	hgsc.bcm.edu	hg19	1	15894493	15894493	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	DNAJC16	NM_015291	exon15	c.2169delA	p.I723fs	.	.	75.0	17.0	110.0	0.0	.	59	.	0.226667	0	none	.	.	PASS	Atlas-INDEL