How to allow insert base in bbduk.sh?

[giby]

Hi,

When I try to trim illumina reads, if the reads got an inserted base, mismatch argument do not trim it, for it considers all shifted base as a mismatch. How to solve that?

Thanks in advance

[matrs]

From the bbduk guide

“hdist” means “hamming distance”; this allows one mismatch.

This quote is referring to hdist=1