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How can I determine which portions of my nucleic acid sequence will be considered to be of low complexity during a filtered blastn search?

April 26, 2017acid Complexity determine filtered low nucleic portions sequence

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How can I determine which portions of my nucleic acid sequence will be considered to be of low complexity during a filtered blastn search?

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Blastn uses a program called DUST to filter nucleic acid sequences for low complexity. DUST is available as source code and in the form of Unix binaries at ftp://ncbi.nlm.nih.gov/pub/tatusov/dust/version1/. To see the results of filtering for a FASTA-formatted nucleic acid sequence in a file called, for example, “nuc.fsa”, execute DUST as follows: dust nuc.fsa.