Whole-genome sequencing and analysis of the Malaysian cynomolgus macaque (Macaca fascicularis) genome

Table 1 Summary of SOLiD libraries and sequence reads

Library	Read length (bp)	Insert size (bp)	Runs	Reads	Mapped reads	Analyzed reads^a	Coverage depth of analyzed reads
Fragment	50	-	8	2,648,128,521	1,976,720,560 (74.7%)	1,974,496,337 (74.6%)	33.4
Mate-pair A	25 (×2)	600-800	2	906,783,481	621,175,871 (68.5%)	355,589,008 (39.2%)^b	3.4
Mate-pair B	25 (×2)	800-1,000	2	1,335,583,547	814,866,634 (61.0%)	508,168,736 (38.0%)^b	4.8
Total	-	-	12	4,890,495,549	3,412,763,065 (69.8%)	2,838,254,081 (58.0%)	41.5

^aReads mapped on chrM and chrUr were removed. ^b'PCR or optical duplicates' (defined by Bioscope; mapped more than 100 loci) were removed, and properly paired reads were selected; each read of a pair was mapped on the same chromosome in a proper direction at a proper distance from each other.

ISSN: 1474-760X