Table 2.

Main features of genome comparisons.

Sample	Number of Reads a	% Mapped Reads	Mean Coverage [1st-3rd Quartile]	Number of Variants Against KHV-J b	Number of Variants Against P0 b
P0	60,049,308	98.62	7802 [7868–7932]	80	-
P78-1c	1,297,956	37.86	262 [202–292]	46	21
P78-2c	2,179,255	37.07	418 [301–466]	54	26
P78-1s	3,002,298	27.08	356 [248–398]	50	25
P78-2s	3,315,745	32.28	568 [448–634]	49	23
P99-1c	3,280,716	30.30	559 [404–633]	103	58
P99-2c	2,227,886	31.94	395 [302–451]	103	57

^a All reads with a quality < Q30 were removed; ^b Only variations < 100 bp were considered here.