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Old 03-07-2017, 11:48 AM   #7
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Location: US

Join Date: Apr 2013
Posts: 222

Originally Posted by GenoMax View Post
2X150bp only can sample 300 bp from a fragment (for what ever size fragment, as long as it can get sequenced).

Choice of insert sizes depends on what you are trying to do. If you have a reference available then making the libraries so the two ends do not overlap makes sense since you can sample a larger region. If you must have the entire region covered by the two reads (i.e. reads need to overlap) then you would want to make inserts smaller.

Which of these two cases were you wanting to do?
I do not have reference genome. My samples are environmental samples from soils. As I said, I got quit good joined ratio > 50%, which surprised me, because the reports told me the average insert size is 600 bp.
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