Repeatmasker results

Question

[Shakunthala Natarajan]

I input the fasta sequence of a novel fungus from spades assembler into repeatmasker (using rmblast) with the following command: ../RepeatMasker/RepeatMasker/ -species Fungi -xsmall x.fasta

After running the results are: No repetitive sequences were found in x.fasta

Can someone please let me know what can this mean?

Thank you!

Answer 1

[Mensur Dlakic]

After running the results are: No repetitive sequences were found in x.fasta

The meaning is obvious.

If you are not sure that RepeatMasker is installed correctly, I suggest you run it on a short sequence with known repeats and verify they can be identified.

[Shakunthala Natarajan]

Ok. Thank you!