Table 5.

High confidence SV predictions for the eight prostate cancer patient samples

Type	Sample	Gene	Region	Chr	Start	End	Read support	VAF	DGV	dbSNP
Duplication	8	PIGU	Exon	20	34676880	34677076	48	11.58–18.57%	–	–
Deletion	5	PTEN	Intron	10	87893068	87893965	47	64.50%	esv2678342*	–
Deletion	6, 8	IKBKB	Intron	8	42290344	42290377	124, 86	37.2%, 33.7%	–	rs143122536
Insertion	All	TMPRSS2	Intron	21	41470789	41470789	32–60	50.7–60.5%	–	rs112132031

The read support is the number of unique reads only; PCR duplicates are removed. (*) The DGV variant is slightly longer than the one discovered here.