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Table 5 Real paired-end reads: search times.

From: A random-permutations-based approach to fast read alignment

Software Search time (s)
  SRR023337
78 bp, paired
ERR009392
108 bp, paired
Bowtie -v 3 2004 2145
Bowtie -v 2 264 315
Bowtie -n 3 628 718
Bowtie2 -very-fast 650 848
Bowtie2 -fast 740 961
Bowtie2 -sensitive 978 1351
Bowtie2 -very-sensitive 1749 2576
BWA -o 0 903 2001
BWA -o 1 1707 3540
Permutations-based (report one) 345 259
Permutations-based (report more) 608 488
  1. Each dataset contained 106 pairs of reads from the fastq files obtained from the "1000 Genomes" website. Search times are reported.