<p>I have obtained ( interspersed repeats ) libraries in the Palm plant genome. Still, unfortunately, the candidates obtained seems false positive a lot of tandem repeats found, due to denovo identifications tools I assume, then employing TRF tandem repeat finder to mask any tandem repeat, I have succeeded to mask them.</p>
<p>But my question here, how can I discard sequence with a belonging header, if the Candidates masked more than 40% of the full length for each of the identified candidates?</p>
<p>Thank you</p>

CC BY-SA 4.0
2020-11-26T10:27:14.007Z
Hi @BioInfo I understand the problem, its a good question. Clearly the problem is species specific (viruses don't have tandem repeats). Could you hint as to the species please? It would be useful to know the assembler?
M__
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2020-11-26T10:38:53.257Z
@Michael question updated, I'm working with palm genome.
M.Bioinfo
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2020-11-26T12:15:35.717Z
Thanks better, not perfect, but –Errhhh wait ... what is a "Freut plant" ... happy plant (German), "fruit plant"? I'm no wiser.
M__
<filtering>
Discard Candidates if N >= 40%
# Discard Candidates if N >= 40%

(Asked by: username_0 on 2020-11-26)

I have obtained ( interspersed repeats ) libraries in the Palm plant genome. Still, unfortunately, the candidates obtained seems false positive a lot of tandem repeats found, due to denovo identifications tools I assume, then employing TRF tandem repeat finder to mask any tandem repeat, I have succeeded to mask them.

But my question here, how can I discard sequence with a belonging header, if the Candidates masked more than 40% of the full length for each of the identified candidates?

Thank you

**Tags:** filtering
> **Comments:**
> **username_1**: Hi @BioInfo I understand the problem, its a good question. Clearly the problem is species specific (viruses don't have tandem repeats). Could you hint as to the species please? It would be useful to know the assembler?  
> **username_0**: @Michael question updated, I'm working with palm genome.  
> **username_1**: Thanks better, not perfect, but –Errhhh wait ... what is a "Freut plant" ... happy plant (German), "fruit plant"? I'm no wiser.  

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## 0 answers

