Say for a 1 MB region, i want to mask the exons and repeats (simple and interspersed) that are present in my specified region .Is there any tool available that can perform this task i.e. masking the exons and repeats at same time ???
Dear Noor us Sehar,
I think that Repeatmasker.org will be useful tool for your aims.
All the best,
Vladimir
Thanx for your response but i cant get it.
If possible, please elaborate your answer in more detail.
Dear Noor us Sehar,
I think that Repeatmasker.org will be useful tool for your aims.
All the best,
Vladimir
I think and I just checked that out that RepeatMasker is only useful to mask repeats and low complexity sequences. In order to mask exons, one should choose the organism under study (I guess human) that could be done with Ensembl/BioMart, for instance, and select for exons of all genes, then use this to mask your sequence. Good luck.
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