How to find out off target reads?

Question

[gskbioinfo143]

Here is the summary of Iontorrent run result..

valid reads is only 19% how to improve it..

how to find reads outside target region?

Reads	21481392
Mapped Reads	19442218
Mapped %	90.50725391
Valid Reads	19.67%
Total-Reads on Target	3823517
On Target	24.72%
Off Target Reads	15618701

[Pierre Lindenbaum]

can't resist citing @BioMickWatson ...
 

@yokofakun I find "rm *.fastq" works best for Ion Torrent data

— Mick Watson (@BioMickWatson) June 29, 2015

[gskbioinfo143]

what the meaning of ur message?

[Brian Bushnell]

Oh, come on...  I agree for Solid, but surely Ion Torrent is much better.