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Old 12-20-2018, 11:40 AM   #4
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Location: Purdue University, West Lafayette, Indiana

Join Date: Aug 2008
Posts: 2,307

You are running non-UDI indexes on the NovaSeq? Are you not concerned about index swapping?

We demultiplex allowing 0 mismatches for all Illumina runs these days. So I haven't taken note of non-concordant perfect index matches between the MiSeq and NovaSeq.

However, this is an issue mentioned in the Illumina White Paper on using an iSeq to titrate reactions for a NovaSeq.
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