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Old 08-30-2017, 12:30 PM   #23
Senior Member
Location: CT

Join Date: Apr 2015
Posts: 243

lower than expected phiX indicates that your quant was off. If you loaded your library to get 30% and only could align 15% phiX, that means that your 16S was approximately twice as concentrated as you thought so took up twice as many spots on the flowcell as you planned. Recovering roughly the amount of phiX as you put on is a decent indication that your library quant was correct
Microbial ecologist, running a sequencing core. I have lots of strong opinions on how to survey communities, pretty sure some are even correct.
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