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. 2014 Jan 9;30(9):1266–1272. doi: 10.1093/bioinformatics/btu014

Table 3.

Time to match 1000 new sequences in seconds, split into user (u) and system (s) contributions for the indexed and batch approaches

Number of sequences 1000 5000 10 000 50 000
Naïve 52.1 258.9 519.2 2582.6
Indexed 0.9u + 0.1s 0.9u + 0.1s 0.9u + 0.2s 1.7u + 15s
Batch 2.3u + 0.1s 3.5u + 0.1s 4.8u + 0.1s 12.1u + 0.1s