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Old 10-15-2008, 05:06 AM   #1
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Location: Belgium

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Default paired end sequencing - direct/incerted repeats

Hi all,

Doe anyone have experience with nextgen sequencing of BACs containing large direct and inverted repeats? Which technology (454 or solexa, using resp. emulsion-PCR on beads and brigde-PCR on solid phase) would be most suitable for this?
how long can you go for a paired end library on 454 or Solexa (I know with 454 there is a kit for 3K long-tag paired end sequencing)? And what is the accuracy of library length (e.g. 3 Kb +- 100? bp)?
Any help on this is welcome! Thanks,

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Old 01-01-2009, 02:16 PM   #2
Location: Seattle, WA

Join Date: Apr 2008
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One possible approach if the coverage is high enough is to simply look for breakpoints that are sequenced (repeat junctions, etc).
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