I was wondering what % of reads others are finding incorporated into velvet assemblies? I often see as low as 25-30% -- even with PE data, good (summary) quality scores, and high initial coverage. Is there an interpretation / reason for low % read incorporation?
I am using Illumina GA2 with reads from 45 - 76 bp and inserts from 300-600.
I am using Illumina GA2 with reads from 45 - 76 bp and inserts from 300-600.
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