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Old 09-26-2016, 03:07 AM   #2
Markiyan
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Location: Cambridge

Join Date: Sep 2010
Posts: 115
Lightbulb Have a look at methods for Zika virus sequencing project.

This sounds very similar to zika sequencing project, and should work reasonably well (provided it is medium GC% sequence).

Ideally one would like to make partial digest of the plasmid, aiming to cut most of them once or twice, and make 2D library from it.

PS: keep in mind the ~0.1 - 1% systematic error rate remaining after assembly consensus steps. It would really depend on the actual template sequence.

Hopefully there are no high GC hairpins in the sequence, because they would stop the complementary read (which goes from single stranded template).

So you may have some bits that have very low quality hear the hairpins.
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