Hi,
I need some help in solving this puzzle which probably is trivial for most of the members/users.
I am working with NGS data from a targeted region. when I looked at the total number of reads that mapped to the target regions it accounts for only 40-50% of the total mapped reads. so I was wondering about where the rest of the reads mapped on to genome but I don't know how to check this. I would really appreciate if any of you know how to find the reads and regions that are out side of the target sequence.
Thanks for reading. Ram
Hi ramsom. More information would be better if you want people to help you. Tell us about what you are trying to do, the organism, what program you used to map, the format you are working with, and any other pertinent information that will help you get a useful answer. Cheers