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Old 01-08-2014, 10:26 AM   #1
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Location: Chile

Join Date: Jan 2014
Posts: 5
Default MiSeq run with low Q30 and high cluster PF

Hi all,

Could anybody give me an idea or though on the following?

I made a run with the MiSeq using the TrueSeq LT kit and 151 cycles. It was an amplicon library with 3 different DNA, everyone with his own index. The run has very low Q30, around 6%, but has Clusters PF (passing filter) of 85%. The number of clusters is around 1100 K/mm2. Moreover, no reads were identified.

Could have been the PhiX? it was set at 15% but not freshly made, only two weeks old (protocol recommendation is 3 weeks max).

Anyway, any help will be greatly appreciated. Bye.
haroldnunez is offline   Reply With Quote