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Old 03-04-2014, 01:26 AM   #28
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Location: Nebraska

Join Date: Nov 2012
Posts: 2


When I look through some outputs generated from the amos file following assembly, many of the contigs were assigned 0 reads (used default bank2contig after seeing many contigs were not showing up in the generated sam file). Obviously, this does not make much sense, but I was wondering if anyone else has came across this? I was trying to avoid mapping by using the amos file and now I just want to confirm that the contigs I am getting are 'real' I suppose.

I thought this may be due to read recycling at first, but reads show up under multiple contigs still. Anyone have other ideas what is causing this issue or how to correct it during assembly?

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