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Old 12-06-2017, 08:11 PM   #2
finswimmer
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Location: Europe

Join Date: Oct 2016
Posts: 53
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Hello,

Read 2 und 3 are the index read. As they have just a few cycles the Q30 is alway higher than in Read 1 und 4.

What was the Cluster density? Have you had better runs before? What kind of gDNA do you try to sequence (human?) ? Maybe you have low diversity in your target regions, which makes it hard for the MiSeq to distiginguish the clusters . Spike in phiX might help.

fin swimmer
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