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Old 05-06-2016, 09:32 AM   #1
DRYTCYV
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Default Miseq V2 kit (2x250 cycles) drop quality

Hi,

We detected some drop quality (R2) on the Miseq V2 kit (2x250 cycles), anyone else?
p. ex. R1 finished arround 87% Q30 and R2 with 67%.

Is the V2 kit the new (old) V3 (2x300 cycles)?

Cheers,
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Old 05-06-2016, 09:36 AM   #2
GenoMax
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For all discussions about MiSeq quality it is essential to include information about the type of library, cluster density for the run, spike-in type and concentration used :-)

Last edited by GenoMax; 05-06-2016 at 09:50 AM.
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Old 05-06-2016, 09:47 AM   #3
DRYTCYV
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Quote:
Originally Posted by GenoMax View Post
For all discussions about MiSeq quality it is essential to include information about the type of library, cluster density for the run, spike-in type and concentrarion used :-)
You're completely right

Lib prep : Nextera XT
Samples: Mixed genomes no Phix
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File Type: jpg v2_kit_quality.JPG (28.2 KB, 31 views)
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Old 05-06-2016, 09:54 AM   #4
GenoMax
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You chances of getting a free replacement kit from Illumina would be slim for this one The drop does not look too bad. Could be library pool dependent in this case. Perhaps it is only some of the samples from the pool that are dragging that total number down for R2. Have you checked?
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Old 05-06-2016, 10:16 AM   #5
DRYTCYV
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Quote:
Originally Posted by GenoMax View Post
You chances of getting a free replacement kit from Illumina would be slim for this one The drop does not look too bad. Could be library pool dependent in this case. Perhaps it is only some of the samples from the pool that are dragging that total number down for R2. Have you checked?
The replacement for this kit arrived today
We'll receive another kit, from other Run, no more replacements because of the high cluster density

This kit its very stable even in overclustering mode, but now looks like the old V3.
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Old 05-06-2016, 10:32 AM   #6
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What does quality by cycle look like? No PhiX makes it hard to nail down if it's an issue with your pool
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