Table 2. Coverage of clones genomes.

	PN386	PN583	PN777	Common regions	Reference genome covered	PN115 genome covered
Coverage 1× or more	113 Mb	132 Mb	139 Mb	95 Mb	194 Mb	168 Mb
Coverage 2× or more	46 Mb	64 Mb	44 Mb	16 Mb	122 Mb	98 Mb
Coverage 3× or more	15 Mb	25 Mb	14 Mb	0.2 Mb	54 Mb	52 Mb
Coverage 4× or more	6 Mb	11 Mb	5 Mb	0 Mb	22 Mb	22 Mb
Coverage 5× or more	3 Mb	5 Mb	2 Mb	0 Mb	10 Mb	10 Mb
Coverage 6× or more	1.3 Mb	2.2 Mb	1 Mb	0 Mb	4.5 Mb	4.5 Mb

Size of the portion of genome aligned on the reference genome at different coverage levels for the three sequences clones and PN115. Common regions correspond between all clones sequenced in 454 GS-FLX. In the polymorphism call we only considered regions with 6.00 fold genome coverage or more.