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Table 3 Average running times of top 4 aligners at different read lengths.

From: RandAL: a randomized approach to aligning DNA sequences to reference genomes

  35 bp 51 bp 76 bp 100 bp 200 bp 400 bp
BWA-SW 8.1 13.4 21.6 30.1 56.9 105.2
Bowtie2 2.8 4.1 5.8 8.1 18.3 41.6
CUSHAW2 4.2 7.8 12.7 19.3 67.8 228.5
RandAL 11.1 12.9 13.6 14.5 26.2 81.6