mothur

top matches in align.seqs

Hello,
I was wondering if the alignment for each read reported back from align.seqs is the “best” match for that read and if there is a way to get a list of perhaps the top 5 or top 10 alignments for each read?

Thank you,
Jennifer

the top match is in the report file generated by align.seqs

Hello, related to this: is there a way to display multiple template matches (e.g. top 10) for each candidate sequence in the report? Or is the alignment of a candiate sequence only performed with the best matching template sequence identified after k-mer searching?

Thank you for your consideration,
Kim

Sorry, align.seqs only looks for and reports the top match.
Pat