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Old 12-17-2014, 09:58 PM   #3
Junior Member
Location: Munich

Join Date: Dec 2014
Posts: 3

Thanks for your help, according to the Illumina tech support it is not possible. This is the answer: "MSR demultiplexes with a mismatch of 1. This is not configurable. If you'd like to demultiplex with a different mismatch, I'd advise exploring bcl2fastq1.8.4."
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