Table 1.

Percentage of simulated HiSeq2000-like and Ion proton-like reads aligned

Sequencing platform simulated	Aligner	Reads
		Not aligned	Aligned once	Aligned more than once
HiSeq2000-likea	Bowtie2	0.01	96.65	3.33
	BWA-MEM	0.50	98.08	1.41
Ion Proton-likeb	Bowtie2	0.01	97.03	2.96
	BWA-MEM	0.60	97.79	1.62

^aFixed-length (100 nt), paired-end library.

^bVariable length (200 nt average), single-end library.