how to retrieve pre-clustering sequences

Hi everyone,
I’m wondering if anyone might have suggestions about how to retrieve all sequences that a merged into particular pre-clusters. I’m interested because I think pre-clustering may reduce the ability to use somewhat high similarity thresholds (i.e., 99%) for the final clustering step. I want to see what the similarity distributions look like in practice for various pre-clustering thresholds.

The pre.cluster command creates a fasta and names file. The fasta contains the representative sequences. The names file contains all the sequences. Here is a link to mothur’s wiki page describing the name file,