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Old 03-14-2016, 01:55 PM   #1
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Location: California

Join Date: Mar 2016
Posts: 1
Post low Q30 in index, miseq v3 600

I recently ran a v3 600 cycle kit on a Miseq and the Q30 values dropped way down in the index read. The sample was 2-plex using N701 and N702. The basecalls in the index fastq look like junk. Any ideas as to what the problem could be? I'm using the standard primers.
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