Thanks for help in understanding 454SOP. I have started to work on my sample(which contains fungal sample) data from 454seq. When i am doing alignment using command
mothur > align.seqs(fasta=its.shhh.trim.unique.fasta, reference=UNITEv7_sh_99.fasta, inputdir=ITS, outputdir=ITS, processors=12)
Setting output directory to: ITS/
Setting input directory to: ITS/
Using 12 processors.
Reading in the ITS/UNITEv7_sh_99.fasta template sequences… [ERROR]: template is not aligned, aborting.
Where is the problem, Iam not able to sort it out…
Thanks in advance.