Hey all,

I have recently started to work with Miseq fungal data sets. I am using Mothur based platform for the data analysis, where i am using UNITE databases for Classification of fungal data sets. My query is, during Align.seq command which aligned reference files should be used? I have tried with UNITE. fasta reference files, but unfortunately it is not aligned, similarly SILVA doesn't have ITS reference data sets. SO i am kind off got stuck with my data analysis. Can anyone help me in this regard?

Thanks

Ven