Mutation discovery in mice by whole exome sequencing

Table 2 Representative coverage statistics from exome re-sequencing (2 × 100 bp) of six mutant strains

	Sample
	5330 (*hbck*)	6246 (*sunk*)	8568 (*lear*)	12856 (*shep*)	13782 (*aphl*)	13716 (*vgim*)
Targeted exons	203,224	203,224	203,224	203,224	203,224	203,224
Final target bases	54,367,244	54,367,244	54,367,244	54,367,244	54,367,244	54,367,244
Target bases covered	52,934,978	52,493,811	52,832,014	52,647,881	52,664,921	53,004,900
Percentage target bases covered	97.37	96.55	97.18	96.84	96.87	97.49
Target bases not covered	1,432,266	1,873,433	1,535,230	1,719,363	1,702,323	1,362,344
Percentage target bases not covered	2.63	3.45	2.82	3.16	3.13	2.51
Total reads^a	39,675,108	39,641,830	31,817,686	42,405,386	59,956,764	67,359,382
Number of reads in target regions	23,319,015	23,335,916	19,211,748	25,227,205	36,227,876	39,948,582
Percentage reads in target regions	58.77	58.87	60.38	59.49	60.42	59.31
Average coverage	32.72	32.59	26.75	35.32	50.78	56.31
Median coverage	30.33	30.02	23.23	33.02	46.61	50.02
Coverage at 20×	76.4	73.6	61.9	77.5	85.8	88
Coverage at 10×	92.1	89.3	87.1	90.7	92.9	94.5
Coverage at 5×	95.7	93.8	94.3	94.4	95.1	96.2
Coverage at 1×	97.4	96.6	97.2	96.8	96.9	97.5
NC80	0.51	0.47	0.46	0.49	0.47	0.46
1/NC80	1.94	2.13	2.18	2.06	2.13	2.17

1/NC80 is the fold 80 penalty, which represents the fold of over sequencing necessary to move 80% of the below median bases to median. Coverage statistics for all samples sequenced can be found in Additional file 3. ^a2 × 100 bp, Illumina HiSeq.

ISSN: 1474-760X