Table 6.

Private variants of pedigree I called with SAMtools and GATK

Individual	200		201		202		203		Case /control
	SAMtools	GATK	SAMtools	GATK	SAMtools	GATK	SAMtools	GATK	SAMtools	GATK
Nonsynonymous SNV	770	698	792	675	820	751	748	663	85	56
Frame shift	160	23	148	25	162	24	167	23	23	4
Indel	754	60	779	67	726	61	781	54	224	12
Stopgain	28	6	33	11	35	12	28	10	8	1
Stoploss	33	3	3	1	2	0	7	1	5	0
5´UTR	669	84	712	98	603	92	647	88	156	21
3´UTR	1001	177	1046	192	934	166	1015	195	322	35
Exonic	1718	794	1744	802	1712	854	1667	795	225	75
Exonic, splicing	94	10	96	9	93	10	89	13	14	2