Removing sequences originated from repetitive regions from FASTQ
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10.6 years ago

Hi,

I would like to know if there is any way to remove sequences that are originated from repetitive regions ( paralogs ) of the genome with out having reference genome?

paralogs Fastq • 2.5k views
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There is a lot more repetitiveness in many genomes than paralogs.

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10.6 years ago
Prakki Rama ★ 2.7k

I think without any reference, it is not going to be easy to find out if the read is from repeat region or not. I have not tested, but may be, you can try running CENSOR on your reads, which searches against a reference collection of repeats.

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