Table 4A. Comparison on the number of SVs recalled across various sub-sampled data of published and validated SVs of Patient 46T through manual counting of supporting real pairs.

Methods	Intersect with published 46T data (at various ‘x’ downsampling rates) - PE170-insert_size
	1x	2x	3x	4x	5x	6x
BatAlign	121	114	100	83	68	59
Bowtie2	98	71	64	62	57	55
BWA	78	64	62	59	57	54
BWA-SW	116	104	81	71	65	58
GEM	80	66	64	63	60	55
SeqAlto	106	77	65	62	59	56
BWA-MEM	116	103	82	68	66	58