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Old 03-19-2015, 09:56 AM   #2
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Location: East Coast USA

Join Date: Feb 2008
Posts: 7,089

Unique clusters is what you need to consider.

If you sequence only one end then you get 150M reads but if you sequence the other then you get 300M reads. Each unique cluster can generate n x 2 number of reads. Illumina tends to quote number of paired end reads in their specifications (so that corresponds to half the number of unique clusters being sequenced).

In example above you don't change the loading concentration but just sequence the other end of the fragment to get a pair of reads for each cluster.
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