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Old 01-22-2013, 08:58 AM   #1
Location: UK

Join Date: Nov 2010
Posts: 49
Default Can You mix indexed with un-indexed library on MiSeq run ?

Would it be possible to mix indexed (8nt index for 16 samples) with un-indexed library (eg Rohland et al 2012 trimmed adapters) to run on the same MiSeq run ? Would the unindexed reads endup in unrecognized bin/unaligned bin (less of a problem) or clusters would not be registered - the run would have to be set to a indexed mode, to read the indices (my guess).
Thanks in advance!
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