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Detection of Compound Microsatellite?

The MISA microsatellite finder (Thiel et al., 2003) is a tool for finding microsatellites in nucleotide sequences. In addition to the detection of perfect microsatellites, MISA is also able to find perfect compound microsatellites that are composed multiple occurrences of more than one simple sequence motif. How can we find these Compound Microsatellites?

rna-seq
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written by talib429 • talib429

MISA is also able to find perfect compound microsatellites that are composed multiple occurrences of more than one simple sequence motif.

reads like the answer to your question.

How can we find these Compound Microsatellites?

I recommend you rephrase your question in the original post in order make clearer what you're looking for and what it is that MISA doesn't provide you. Also, you're title is very specific, I would replace SSR with microsatellite

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written by Carambakaracho Carambakaracho

Thank you @carambakaracho for your suggestions

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written by talib429 • talib429

...is that all that you wanted to say? Do you need help about how to use MISA?

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written by Kevin Blighe Kevin Blighe

yes I need help for using misa. All software are based on linux based and online there a limitation of 2mb for sequences to upload can you help me with misa in offline mode.

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written by talib429 • talib429

It sounds like you need more practical help than we can reasonably provide. For example, if you need to use linux, you could:

  • install a linux virtual environment on your current operating system
  • use the Windows 10 linux subsystem
  • rent some 'cloud' server space, e.g., Amazon AWS

Is there nobody locally who can help?

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written by Kevin Blighe Kevin Blighe

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