Table 3. Summary of read number, coverage, and mapping results of the two NGS platforms.

Characteristics	Illumina MiSeq	Ion torrent PGM
Flow cell/chip type	Standard	316
Total no. of reads	14M	915k and 1.25M
Mean read length	99.3bp	99.24bp
Average quality of reads (Phred)	33.79	24.24
Average no. of reads/sample	247,749	99,774
%mapped reads	76%	88%
Coverage, mean [min, max]	1,262 [171, 3642]	439 [75, 1326]
% of target area with ≥ 50 fold coverage	99.93	99.68
% of insertions	0.01	1.27
% of deletions	0.04	0.67
% of mismatches	0.29	0.23

All values are average calculations from the 20 analyzed samples.