Table 3.

Summary of CNVs detected by the Poisson-Gamma model across different laboratory strains and clinical samples

		γ=99%				γ=99.9%
Sample	Type of CNV	#Hits	#Loci	# Gene		#Hits	#Loci	#Gene	Largest CNV(kb)
HB3	Deletion	322	109	60		305	101	56	PFI1475 (2.0)
	Amplification	246	206	119		60	53	46	PF11_0503 (0.6)
DD2	Deletion	279	98	58		265	95	55	PFL2550w (1.7)
	Amplification	678	84	63		634	59	43	PFE1120w (14.8)
7G8	Deletion	243	125	83		205	101	61	MAL7P1.64 (1.1)
	Amplification	343	118	106		215	49	37	PFL1130w (6.7)
GB4	Deletion	262	98	48		253	92	45	PFC0110w (2.5)
	Amplification	108	84	79		47	38	36	PFL1155w (0.6)
OX005	Deletion	308	87	49		274	73	39	PFC0110w (2.8)
	Amplification	1019	772	516		192	140	118	PFD0669c (1.0)
OX006	Deletion	170	65	35		167	62	33	PF07_0013 (1.3)
	Amplification	277	226	188		90	70	64	MAL8P1.42 (1.1)

Results refer to the number of individual hits (i.e., 100-bp windows) and loci (pooled hits where contiguous) using the credible levels γ = 99% and 99.9% in the analysis.