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  • #1

    Finding SSRs on contigs

    Hi everyone,

    I need to search simpe sequence repeats(SSRs) on a de-novo assembled contigs. I aim to find perfect and almost perfect repeats on the contigs. Is there anyone who has experience with finding ssrs? If so, please give me an advice which tool should I use?

    Best Regars,
    Mehmet
    Tags: None
  • #2
    There's several tools, I usually use msatcommander.

    Comment

    • #3
      Hi,
      I tried to use msatcommander 0.8.2 version on linux. It worked but I suppose there is a newer version 1.0.2 but which doesn't work on linux. Which version do you use?

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      • #4
        It depends on which machine I'm working
        Generally I used to run it under win7.

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