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Old 11-17-2011, 12:53 PM   #7
HESmith
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Location: Bethesda MD

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There's an alternative approach, assuming that you have not yet constructed the libraries. Design them so the junction is at the opposite end of the insert, and perform paired-end sequencing. Cluster calling is based only on the first five cycles of read one, so you'll avoid the low-complexity issue.
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