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  • how to detect ori of plasmid

    hi, I want to predict ori of a plasmid. but it sems there is not a good method for plasmid. we can use GC skew to find ori of genome. is it available for plasmid.
    In addition, I found it is vary slowly to open up SEQanswers web in china. does anyone have the same question?
    thanks

  • #2
    Moving to ....um...general?

    You can guess at the origin of replication as the coverage may be higher there if you were to sequence a dividing population. I've seen this in bacterial datasets. I would guess that unless the plasmid is very large that you'd have a hard time detecting the overabundance of replication near the ori.

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    • #3
      Originally posted by ECO View Post
      Moving to ....um...general?

      You can guess at the origin of replication as the coverage may be higher there if you were to sequence a dividing population. I've seen this in bacterial datasets. I would guess that unless the plasmid is very large that you'd have a hard time detecting the overabundance of replication near the ori.
      thanks. my plasmid in a bacteria is only 11k. the relation between coverage and ori is interesting. could you explain it. why it happened?

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