Analysis ITS gene dataset

Hello, I have a dataset generate from 454 amplicon sequencing. The gene is bacterial ITS. Since there is no way to align ITS, I would like to know the working flow.

Also, which database should I use?


After running trim.flows/shhh.flows/trim.seqs, I’m afraid you’re likely on your own. Perhaps other users who have done things with ITS could pipe up here.

it is a bacterial ITS, not fungi? not so much heard of using ITS for bacterial classification…