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Table 2 Effects of matching direction and window size on grouping results and time to analyze data using the PSI algorithm.

From: FastGroup: A program to dereplicate libraries of 16S rDNA sequences

Matching 5' Trim 3' Trim Window # of Groups Analysis
Direction    Size   Time (~min)
5' 1 N in 50 bp Bact517 10 54 8
3' 1 N in 50 bp Bact517 10 48 4
5' 1 N in 50 bp 1 N in 50 bp 10 92 12
3' 1 N in 50 bp 1 N in 50 bp 10 94 30
5' 500 bp* 1 N in 50 bp 10 64 5
3' 500 bp* 1 N in 50 bp 10 55 3
3' 1 N in 50 bp Bact517 5 49 <1
3' 1 N in 50 bp Bact517 10 48 4
3' 1 N in 50 bp Bact517 25 51 67
  1. * FastGroup it is not capable of both using a specific number of bp from one end and trimming the other end using one of the other parameters. In these examples, this limitation was circumvented by first trimming the sequences using the 1 N in 50 bp criteria. The output fasta_groups.txt file was then used as the input file for a second FastGroup analysis where 500 bp from the 5' end were used for grouping.