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INDIVIDUALS: SNP LIST:	GROUPS: SAVED GENE LIST: GENE LIST:	INDIVIDUALS: EXCLUDE SNP LIST:	EXCLUDE GROUPS: EXCLUDE SAVED GENE LIST: EXCLUDE GENE LIST:
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OMIM:
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VARIANT EFFECT	FUNCTIONAL CLASS	IMPACT
MUTATION TYPE:	CHR: POS:

DBSNP BUILD: EXCLUDE VARIANTS AT VARISNP	READ DEPTH: QUAL:	VARIANTS PER GENE:
SHOW ONLY VARIANTS PRESENT IN COMMON GENES BETWEEN ALL THE INDIVIDUALS SELECTED SHOW ONLY VARIANTS AT EXACTLY SAME POSITION BETWEEN ALL THE INDIVIDUALS SELECTED EXCLUDE ALL VARIANTS PRESENT IN LATEST DBSNP BUILD SHOW ONLY VARIANTS PRESENT AT HGMD

FREQUENCIES

1000 GENOMES FREQUENCY	EXCLUDE ALL VARIANTS PRESENT IN 1000GENOMES	DBSNP FREQUENCY	EXCLUDE ALL VARIANTS PRESENT IN DBSNP	ESP6500 FREQUENCY	EXCLUDE ALL VARIANTS PRESENT IN EXOME SEQUENCING PROJECT

SCORES

SIFT SCORE	EXCLUDE VARIANTS WITHOUT SIFT SCORE	POLYPHEN2 SCORE	EXCLUDE VARIANTS WITHOUT POLYPHEN SCORE
CADD	EXCLUDE VARIANTS WITHOUT CADD SCORE	MCAP	EXCLUDE VARIANTS WITHOUT M-CAP SCORE

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Genes:
AC017104.2, AMDHD1, ANKRD20A2, APOBR, ATG16L2, ATP11A, BAIAP2L2, C1orf65, CCDC88B, FAM47E-STBD1, FLYWCH1, GDF7, HRNR, INTS1, KIAA1211, LRRC26, NLRP6, NPAS3, NPIPA3, POTEM, SPAG1, SPATA31A4, SYNM, TMED8, TMEM132A, TRIM7, USP31, VPS37C, WTIP, ZAR1, ZNF320,

+ Genes associated with diseases 1

Genes at Omim

SPAG1,

SPAG1	Ciliary dyskinesia, primary, 28, 615505 (3)

Genes at Clinical Genomics Database

Genes at HGMD

Summary

Number of Variants: 973
Number of Genes: 31

Export to: CSV

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AC017104.2
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	2	.	232317259	40.77	C	T	LowQual	0/1	0	SYNONYMOUS_CODING	LOW	None							None None	None None None None	None
	View	wes_0001 hg19 bwa gatk freebayes combined	2	.	232317267	37.77	G	A	LowQual	0/1	0	NON_SYNONYMOUS_CODING	MODERATE	None				0.01	0.99		None None	None None None None	None
AMDHD1
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	12	rs1436121 dbSNP Clinvar	96337225	34.77	C	T	LowQual	0/1	0	SYNONYMOUS_CODING	LOW	None	0.25479	0.25480	0.14615				None None	None None None None	AMDHD1\|0.4419198\|18.57%
ANKRD20A2
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	9	rs2207456 dbSNP Clinvar	42410290	36.77	T	C	LowQual	0/1	0	NON_SYNONYMOUS_CODING	MODERATE	None				0.58	0.00		None None	None None None None	ANKRD20A3\|0.001944577\|91.12%,ANKRD20A2\|0.001339079\|93.66%
APOBR
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	16	rs149271 dbSNP Clinvar	28506872	47.77	A	G	LowQual	0/1	0	SYNONYMOUS_CODING	LOW	None	0.29473	0.29470	0.38627				None None	None None None None	CLN3\|0.080923796\|55%,APOBR\|0.000791084\|96.71%
ATG16L2
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	11	rs370813789 dbSNP Clinvar	72525477	38.77	G	T	LowQual	0/1	0	START_GAINED	LOW	None	0.00260	0.00260	0.00511				None None	None None None None	ATG16L2\|0.066744827\|58.21%
ATP11A
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	13	rs556529412 dbSNP Clinvar	113344750	30.77	G	C	LowQual	0/1	0	NON_SYNONYMOUS_CODING	MODERATE	None	0.00020	0.00020		0.02	0.04		None None	None None None None	ATP11A\|0.13314168\|45.42%
BAIAP2L2
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	22	rs17856487 dbSNP Clinvar	38485540	44.77	A	G	LowQual	0/1	0	NON_SYNONYMOUS_CODING	MODERATE	None	0.39078	0.39080		0.50	0.00		None None	None None None None	BAIAP2L2\|0.045525826\|64.05%
C1orf65
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	1	rs10907376 dbSNP Clinvar	223567803	31.77	G	A	LowQual	0/1	0	NON_SYNONYMOUS_CODING	MODERATE	None	0.17592	0.17590	0.23830	0.63	0.06		None None	None None None None	CCDC185\|0.002678789\|89.3%
CCDC88B
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	11	rs145110055 dbSNP Clinvar	64116842	39.77	G	T	LowQual	0/1	0	NON_SYNONYMOUS_CODING	MODERATE	None	0.00499	0.00499	0.00524	0.03	0.06		None None	None None None None	CCDC88B\|0.013893169\|77.95%
FAM47E-STBD1
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	4	rs1837871 dbSNP Clinvar	77211104	40.77	A	G	LowQual	0/1	0	None	None	None	0.13558	0.13560		0.00	0.93		None None	None None None None	FAM47E-STBD1\|0.00841981\|82.23%
FLYWCH1
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	16	rs9928269 dbSNP Clinvar	2998911	32.77	C	T	LowQual	0/1	0	None	None	None	0.35264	0.35260		0.11	0.51		None None	None None None None	FLYWCH1\|0.005253658\|85.5%
GDF7
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs13013489 dbSNP Clinvar	20870579	35.77	G	A	LowQual	0/1	0	SYNONYMOUS_CODING	LOW	None	0.80771	0.80770	0.14529				None None	None None None None	GDF7\|0.067640553\|57.97%
HRNR
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	1	rs4845424 dbSNP Clinvar	152186222	43.77	T	C	LowQual	0/1	0	NON_SYNONYMOUS_CODING	MODERATE	None	0.35963	0.35960		0.13	0.00		None None	None None None None	HRNR\|0.000187528\|99.8%
INTS1
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	7	rs1369011 dbSNP Clinvar	1543981	37.77	C	A	LowQual	0/1	0	SYNONYMOUS_CODING	LOW	None	0.57788	0.57790	0.40305				None None	None None None None	INTS1\|0.091590581\|52.91%
KIAA1211
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	4	rs11723379 dbSNP Clinvar	57180616	45.77	G	C	LowQual	0/1	0	SYNONYMOUS_CODING	LOW	None	0.30192	0.30190	0.33313				None None	None None None None	KIAA1211\|0.006705951\|83.84%
LRRC26
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	9	rs12000091 dbSNP Clinvar	140064219	39.77	T	C	LowQual	0/1	0	SYNONYMOUS_CODING	LOW	None	0.23223	0.23220					None None	None None None None	LRRC26\|0.003610166\|87.59%
NLRP6
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	11	rs6421985 dbSNP Clinvar	280221	30.77	A	C	LowQual	0/1	0	NON_SYNONYMOUS_CODING	MODERATE	None	0.71985	0.71980	0.09595	1.00	0.00		None None	None None None None	NLRP6\|0.003459946\|87.83%
NPAS3
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	14	rs10142034 dbSNP Clinvar	34269775	32.77	C	G	LowQual	0/1	0	SYNONYMOUS_CODING	LOW	None	0.08267	0.08267					None None	None None None None	NPAS3\|0.999985495\|0.09%
NPIPA3
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	16	rs200000305 dbSNP Clinvar	14820034	40.77	C	T	LowQual	0/1	0	NON_SYNONYMOUS_CODING	MODERATE	None				0.17	0.77		None None	None None None None	NPIPA3\|0.000787204\|96.74%
POTEM
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	14	rs138327719 dbSNP Clinvar	19990641	39.77	C	T	LowQual	0/1	0	SYNONYMOUS_CODING	LOW	None							None None	None None None None	POTEM\|0.001625013\|92.23%
SPAG1
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	8	rs2514681 dbSNP Clinvar	101225559	45.77	C	G	LowQual	0/1	0	SYNONYMOUS_CODING	LOW	None	0.34205	0.34210					None None	None None None None	SPAG1\|0.055472579\|61.06%
SPATA31A4
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	9	rs199889036 dbSNP Clinvar	41323425	39.77	G	A	LowQual	0/1	0	NON_SYNONYMOUS_CODING	MODERATE	None				0.02	0.00		None None	None None None None	None
SYNM
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	15	rs1044356 dbSNP Clinvar	99645813	31.77	G	A	LowQual	0/1	0	SYNONYMOUS_CODING	LOW	None	0.43251	0.43250					None None	None None None None	SYNM\|0.017742741\|75.44%
TMED8
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	14	rs3742737 dbSNP Clinvar	77843384	43.77	G	T	LowQual	0/1	0	NON_SYNONYMOUS_CODING	MODERATE	None	0.24860	0.24860		1.00	0.00		None None	None None None None	TMED8\|0.183347782\|38.62%,SAMD15\|0.00831901\|82.32%
TMEM132A
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	11	rs7715 dbSNP Clinvar	60701987	40.77	G	A	LowQual	0/1	0	SYNONYMOUS_CODING	LOW	None	0.42153	0.42150	0.37646				None None	None None None None	TMEM132A\|0.032552659\|68.37%
TRIM7
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	5	rs2770945 dbSNP Clinvar	180631828	37.77	G	C	LowQual	0/1	0	NON_SYNONYMOUS_CODING	MODERATE	None	0.11162	0.11160		0.22	0.05		None None	None None None None	TRIM7\|0.09228032\|52.76%
	View	wes_0001 hg19 bwa gatk freebayes combined	5	rs2545112 dbSNP Clinvar	180631817	34.77	T	C	LowQual	0/1	0	SYNONYMOUS_CODING	LOW	None	0.50619	0.50620					None None	None None None None	TRIM7\|0.09228032\|52.76%
USP31
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	16	rs184560422 dbSNP Clinvar	23160238	47.77	A	G	LowQual	0/1	0	SYNONYMOUS_CODING	LOW	None	0.02696	0.02696	0.02335				None None	None None None None	USP31\|0.07088354\|57.26%
VPS37C
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	11	rs754382 dbSNP Clinvar	60899767	46.77	A	G	LowQual	0/1	0	NON_SYNONYMOUS_CODING	MODERATE	None	0.85324	0.85320	0.27128	0.80	0.00		None None	None None None None	VPS37C\|0.05614625\|60.89%
WTIP
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	19	rs150721734 dbSNP Clinvar	34973087	37.77	G	A	LowQual	0/1	0	NON_SYNONYMOUS_CODING	MODERATE	None	0.03195	0.03195		0.57	0.02		None None	None None None None	WTIP\|0.033098736\|68.11%
ZAR1
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	4	.	48492849	35.77	G	A	LowQual	0/1	0	NON_SYNONYMOUS_CODING	MODERATE	None				0.05	0.89		None None	None None None None	ZAR1\|0.008324205\|82.31%
ZNF320
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	19	rs200273751 dbSNP Clinvar	53391501	35.77	T	C	LowQual	0/1	0	SYNONYMOUS_CODING	LOW	None	0.14337	0.14340					None None	None None None None	ZNF320\|0.00111515\|94.88%
Omim - GeneCards - NCBI
	Options	Individual	Chr	RsId	Pos	Qual	Ref	Alt	Filter	Gen	Read Depth	Effect	Impact	Func Class	1kgenomes	dbSNP	ESP6500	Sift	PP2	CADD	M-CAP	CLINVAR	HI Score
	View	wes_0001 hg19 bwa gatk freebayes combined	1	rs76732376 dbSNP Clinvar	161600792	48.77	A	C	LowQual	0/1	0	None	None	None	0.49141	0.49140					None None	None None None None	FCGR3A\|0.001574377\|92.43%,FCGR2B\|0.005666385\|85.02%,FCGR3B\|0.001357203\|93.56%
	View	wes_0001 hg19 bwa gatk freebayes combined	1	rs12036026 dbSNP Clinvar	162825258	34.77	T	C	LowQual	0/1	0	None	None	None	0.12979	0.12980					None None	None None None None	C1orf110\|0.002183779\|90.47%
	View	wes_0001 hg19 bwa gatk freebayes combined	1	rs12136860 dbSNP Clinvar	192546142	38.77	A	G	LowQual	0/1	0	None	None	None	0.03395	0.03395					None None	None None None None	RGS1\|0.285121922\|28.71%
	View	wes_0001 hg19 bwa gatk freebayes combined	1	rs4915345 dbSNP Clinvar	197102839	31.77	A	C	LowQual	0/1	0	None	None	None	0.81590	0.81590					None None	None None None None	ASPM\|0.161871432\|41.31%
	View	wes_0001 hg19 bwa gatk freebayes combined	1	rs16847895 dbSNP Clinvar	201122816	47.77	T	C	LowQual	0/1	0	None	None	None	0.12580	0.12580					None None	None None None None	TMEM9\|0.094542822\|52.23%
	View	wes_0001 hg19 bwa gatk freebayes combined	1	rs11811659 dbSNP Clinvar	201688897	30.77	T	C	LowQual	0/1	0	None	None	None	0.58846	0.58850					None None	None None None None	NAV1\|0.501729014\|15.76%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs11127175 dbSNP Clinvar	28814185	30.77	G	T	LowQual	0/1	0	None	None	None	0.29613	0.29610					None None	None None None None	PLB1\|0.018823638\|74.77%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs1881256 dbSNP Clinvar	28841021	36.77	G	A	LowQual	0/1	0	None	None	None	0.64796	0.64800					None None	None None None None	PLB1\|0.018823638\|74.77%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs56270786 dbSNP Clinvar	30143530	31.77	C	T	LowQual	0/1	0	None	None	None	0.00619	0.00619	0.00969				None None	None None None None	ALK\|0.859785808\|4.47%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs829574 dbSNP Clinvar	30682360	32.77	G	A	LowQual	0/1	0	None	None	None	0.73023	0.73020					None None	None None None None	LCLAT1\|0.164209262\|41%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs2276567 dbSNP Clinvar	30955528	31.77	C	A	LowQual	0/1	0	None	None	None	0.79054	0.79050					None None	None None None None	CAPN13\|0.007226463\|83.28%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs7602817 dbSNP Clinvar	31422187	43.77	G	A	LowQual	0/1	0	None	None	None	0.24321	0.24320					None None	None None None None	CAPN14\|0.013270833\|78.32%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs45494293 dbSNP Clinvar	32897206	36.77	A	C	LowQual	0/1	0	None	None	None	0.04193	0.04193					None None	None None None None	TTC27\|0.207150934\|35.89%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs11676264 dbSNP Clinvar	33746842	42.77	G	C	LowQual	0/1	0	None	None	None	0.30072	0.30070					None None	None None None None	RASGRP3\|0.409208599\|20.23%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs28404646 dbSNP Clinvar	97882648	44.77	G	A	LowQual	0/1	0	None	None	None	0.54812	0.54810					None None	None None None None	ANKRD36\|0.001192347\|94.46%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs2033747 dbSNP Clinvar	100916481	31.25	A	G	LowQual	1/1	0	None	None	None	0.33167	0.33170					None None	None None None None	LONRF2\|0.008305787\|82.33%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs566501219 dbSNP Clinvar	135199173	30.77	G	C	LowQual	0/1	0	None	None	None	0.00060	0.00060					None None	None None None None	MGAT5\|0.683509788\|8.97%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs201742966 dbSNP Clinvar	135260665	49.77	A	G	LowQual	0/1	0	None	None	None							None None	None None None None	TMEM163\|0.334528018\|25.14%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs148420460 dbSNP Clinvar	135922944	34.77	C	T	LowQual	0/1	0	None	None	None	0.00739	0.00739					None None	None None None None	RAB3GAP1\|0.302193442\|27.47%,ZRANB3\|0.132922312\|45.49%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs2304601 dbSNP Clinvar	136528034	33.77	C	A	LowQual	0/1	0	None	None	None	0.20168	0.20170					None None	None None None None	UBXN4\|0.177695859\|39.34%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs3769001 dbSNP Clinvar	136626078	42.77	A	G	LowQual	0/1	0	None	None	None	0.21765	0.21770					None None	None None None None	MCM6\|0.857412549\|4.52%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs13017246 dbSNP Clinvar	141113798	32.77	G	A	LowQual	0/1	0	None	None	None	0.22185	0.22180					None None	None None None None	LRP1B\|0.97329857\|1.62%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs12463798 dbSNP Clinvar	148716099	34.77	G	T	LowQual	0/1	0	None	None	None	0.36082	0.36080					None None	None None None None	ORC4\|0.790353646\|6.12%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs10169816 dbSNP Clinvar	152139271	30.77	C	T	LowQual	0/1	0	None	None	None	0.55571	0.55570					None None	None None None None	NMI\|0.002279821\|90.21%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs3821322 dbSNP Clinvar	152214424	37.77	C	T	LowQual	0/1	0	None	None	None	0.52376	0.52380					None None	None None None None	TNFAIP6\|0.338115785\|24.96%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs55739115 dbSNP Clinvar	183843744	30.77	T	C	LowQual	0/1	0	None	None	None	0.17292	0.17290					None None	None None None None	NCKAP1\|0.669863571\|9.37%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs1568368 dbSNP Clinvar	197008529	47.77	C	T	LowQual	0/1	0	None	None	None	0.70288	0.70290					None None	None None None None	STK17B\|0.190903367\|37.72%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs2272189 dbSNP Clinvar	219610322	31.77	G	A	LowQual	0/1	0	None	None	None	0.44748	0.44750					None None	None None None None	TTLL4\|0.074949486\|56.31%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs11891205 dbSNP Clinvar	219888259	48.77	A	G	LowQual	0/1	0	None	None	None	0.19589	0.19590					None None	None None None None	CCDC108\|0.017724873\|75.46%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs7560948 dbSNP Clinvar	219890979	31.77	T	C	LowQual	0/1	0	None	None	None	0.21126	0.21130					None None	None None None None	CCDC108\|0.017724873\|75.46%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs3731906 dbSNP Clinvar	220346596	35.77	C	T	LowQual	0/1	0	None	None	None	0.49681	0.49680					None None	None None None None	SPEG\|0.194067813\|37.41%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs74002071 dbSNP Clinvar	240923310	49.77	T	G	LowQual	0/1	0	None	None	None	0.10004	0.10000					None None	None None None None	NDUFA10\|0.004917761\|85.89%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs508944 dbSNP Clinvar	241079884	31.77	A	T	LowQual	0/1	0	None	None	None	0.19090	0.19090					None None	None None None None	OTOS\|0.040562317\|65.59%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs2975786 dbSNP Clinvar	241570391	39.77	A	G	LowQual	0/1	0	None	None	None	0.83666	0.83670					None None	None None None None	GPR35\|0.002428649\|89.83%
	View	wes_0001 hg19 bwa gatk freebayes combined	2	rs3821346 dbSNP Clinvar	241706874	48.77	C	T	LowQual	0/1	0	None	None	None	0.10304	0.10300					None None	None None None None	KIF1A\|0.102859335\|50.62%
	View	wes_0001 hg19 bwa gatk freebayes combined	3	rs775876533 dbSNP Clinvar	23963065	36.77	T	G	LowQual	0/1	0	None	None	None							None None	None None None None	NKIRAS1\|0.102321774\|50.73%,RPL15\|0.385832061\|21.68%
	View	wes_0001 hg19 bwa gatk freebayes combined	3	rs74928881 dbSNP Clinvar	24563021	48.77	G	C	LowQual	0/1	0	None	None	None	0.32089	0.32090					None None	None None None None	None
	View	wes_0001 hg19 bwa gatk freebayes combined	3	rs9811585 dbSNP Clinvar	35724596	40.77	T	G	LowQual	0/1	0	None	None	None	0.44349	0.44350					None None	None None None None	ARPP21\|0.628941513\|10.81%
	View	wes_0001 hg19 bwa gatk freebayes combined	3	rs2305234 dbSNP Clinvar	35785608	30.77	G	A	LowQual	0/1	0	None	None	None	0.08167	0.08167					None None	None None None None	ARPP21\|0.628941513\|10.81%
	View	wes_0001 hg19 bwa gatk freebayes combined	3	rs3732384 dbSNP Clinvar	36872224	38.77	T	C	LowQual	0/1	0	None	None	None	0.33127	0.33130					None None	None None None None	TRANK1\|0.04175171\|65.2%
	View	wes_0001 hg19 bwa gatk freebayes combined	3	rs472893 dbSNP Clinvar	37535865	46.77	T	C	LowQual	0/1	0	None	None	None	0.62740	0.62740					None None	None None None None	ITGA9\|0.291839002\|28.24%
	View	wes_0001 hg19 bwa gatk freebayes combined	3	rs539108 dbSNP Clinvar	37535866	46.77	G	A	LowQual	0/1	0	None	None	None	0.50839	0.50840					None None	None None None None	ITGA9\|0.291839002\|28.24%
	View	wes_0001 hg19 bwa gatk freebayes combined	3	rs267523 dbSNP Clinvar	37536225	35.77	C	A	LowQual	0/1	0	None	None	None	0.63279	0.63280					None None	None None None None	ITGA9\|0.291839002\|28.24%
	View	wes_0001 hg19 bwa gatk freebayes combined	3	rs6777340 dbSNP Clinvar	52188308	47.77	T	C	LowQual	0/1	0	None	None	None	0.34086	0.34090	0.20733				None None	None None None None	POC1A\|0.288693394\|28.46%
	View	wes_0001 hg19 bwa gatk freebayes combined	3	rs3733046 dbSNP Clinvar	52621627	33.77	C	T	LowQual	0/1	0	None	None	None	0.44689	0.44690					None None	None None None None	PBRM1\|0.664761336\|9.54%
	View	wes_0001 hg19 bwa gatk freebayes combined	3	rs73152412 dbSNP Clinvar	100514848	35.77	C	G	LowQual	0/1	0	None	None	None	0.11482	0.11480					None None	None None None None	ABI3BP\|0.072954425\|56.79%
	View	wes_0001 hg19 bwa gatk freebayes combined	3	rs12152417 dbSNP Clinvar	100530791	39.77	T	C	LowQual	0/1	0	None	None	None	0.11482	0.11480					None None	None None None None	ABI3BP\|0.072954425\|56.79%
	View	wes_0001 hg19 bwa gatk freebayes combined	3	rs349536 dbSNP Clinvar	140251487	36.77	T	C	LowQual	0/1	0	None	None	None	0.39996	0.40000					None None	None None None None	CLSTN2\|0.522285531\|14.88%
	View	wes_0001 hg19 bwa gatk freebayes combined	3	rs6771494 dbSNP Clinvar	140784929	40.77	T	C	LowQual	0/1	0	None	None	None	0.45168	0.45170	0.27025				None None	None None None None	SPSB4\|0.225435088\|33.84%
	View	wes_0001 hg19 bwa gatk freebayes combined	3	rs11925747 dbSNP Clinvar	141896522	35.77	T	A	LowQual	0/1	0	None	None	None	0.12560	0.12560					None None	None None None None	GK5\|0.050890253\|62.4%
	View	wes_0001 hg19 bwa gatk freebayes combined	4	.	15640473	31.77	A	C	LowQual	0/1	0	None	None	None							None None	None None None None	FBXL5\|0.363519658\|23.19%
	View	wes_0001 hg19 bwa gatk freebayes combined	3	rs4686525 dbSNP Clinvar	189456729	37.77	C	G	LowQual	0/1	0	None	None	None	0.65336	0.65340					None None	None None None None	TP63\|0.989489867\|1.11%
	View	wes_0001 hg19 bwa gatk freebayes combined	3	rs4481103 dbSNP Clinvar	192997432	35.77	C	T	LowQual	0/1	0	None	None	None	0.48163	0.48160					None None	None None None None	ATP13A5\|0.051025682\|62.36%
	View	wes_0001 hg19 bwa gatk freebayes combined	4	rs116671326 dbSNP Clinvar	4190508	43.77	C	T	LowQual	0/1	0	None	None	None							None None	None None None None	None
	View	wes_0001 hg19 bwa gatk freebayes combined	4	rs10937658 dbSNP Clinvar	5682811	35.77	G	A	LowQual	0/1	0	None	None	None	0.22744	0.22740					None None	None None None None	EVC2\|0.018780788\|74.81%
	View	wes_0001 hg19 bwa gatk freebayes combined	4	rs4689398 dbSNP Clinvar	6302199	31.77	C	T	LowQual	0/1	0	None	None	None	0.65615	0.65620					None None	None None None None	WFS1\|0.225742755\|33.79%
	View	wes_0001 hg19 bwa gatk freebayes combined	4	rs4688991 dbSNP Clinvar	6302220	32.77	C	G	LowQual	0/1	0	None	None	None	0.65695	0.65690					None None	None None None None	WFS1\|0.225742755\|33.79%
	View	wes_0001 hg19 bwa gatk freebayes combined	4	rs7696271 dbSNP Clinvar	48177954	33.77	A	G	LowQual	0/1	0	None	None	None	0.51937	0.51940					None None	None None None None	TEC\|0.720083632\|7.97%
	View	wes_0001 hg19 bwa gatk freebayes combined	4	rs3838233 dbSNP Clinvar	48537633	43.77	T	C	LowQual	0/1	0	None	None	None	0.48343	0.48340	0.25230				None None	None None None None	FRYL\|0.342095381\|24.68%
	View	wes_0001 hg19 bwa gatk freebayes combined	4	rs6840758 dbSNP Clinvar	96761144	39.77	T	C	LowQual	0/1	0	None	None	None	0.59285	0.59290					None None	None None None None	None
	View	wes_0001 hg19 bwa gatk freebayes combined	4	rs6533051 dbSNP Clinvar	103911222	35.77	C	G	LowQual	0/1	0	None	None	None	0.56290	0.56290					None None	None None None None	SLC9B1\|0.003950683\|87.1%
	View	wes_0001 hg19 bwa gatk freebayes combined	4	rs11301777 dbSNP Clinvar	106291824	38.77	G	A	LowQual	0/1	0	None	None	None	0.32089	0.32090					None None	None None None None	PPA2\|0.061865166\|59.36%
	View	wes_0001 hg19 bwa gatk freebayes combined	4	rs28368477 dbSNP Clinvar	154514800	30.77	G	A	LowQual	0/1	0	None	None	None	0.02356	0.02356					None None	None None None None	KIAA0922\|0.054275896\|61.4%
	View	wes_0001 hg19 bwa gatk freebayes combined	4	rs2102575 dbSNP Clinvar	187131504	33.77	G	A	LowQual	0/1	0	None	None	None	0.91034	0.91030					None None	None None None None	CYP4V2\|0.027940176\|70.46%,KLKB1\|0.016624072\|76.14%
	View	wes_0001 hg19 bwa gatk freebayes combined	4	rs11940227 dbSNP Clinvar	189065441	34.77	G	T	LowQual	0/1	0	None	None	None	0.41913	0.41910					None None	None None None None	TRIML1\|0.020324106\|74.01%
	View	wes_0001 hg19 bwa gatk freebayes combined	4	rs7679996 dbSNP Clinvar	190884085	35.77	T	C	LowQual	0/1	0	None	None	None	0.39677	0.39680					None None	None None None None	FRG1\|0.098149242\|51.5%
	View	wes_0001 hg19 bwa gatk freebayes combined	5	rs1035909 dbSNP Clinvar	465633	44.81	C	T	LowQual	0/1	0	None	None	None	0.58946	0.58950					None None	None None None None	EXOC3\|0.113521181\|48.58%