Got only unique distance

Commands in mothur
1

Hello,

I just new user in Mothur. I got the problem in my result to analyse 30,000 reads among 30 different samples which contains different number of sequences. I had create an alignment, create the distance matrix and phylogenetic tree in large file. After that I analysed in OTU with cluster command, but here I got only unique result. I understand that the distance was clustered follow the distance matrix which I run in Phylip, so I checked it back which was found that it has distance in 0.01, 0.03 or 0.05. I’m not sure what is the problem.

Thank you very much

2

I’m not 100% on what you’re asking, but I think what you want to do is to use a cutoff of 0.10 or 0.20 in diet.seqs.

3

Thank you for your answer. Now, I rerun for dist.seqs to receive distance at cutoff=0.30. It got the distance that I want. I understand that the problem which I got only unique distance, because my computer memory is limited or something was broken (due to getting writing failed, broken pipe in error).