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Table 1 Runtime parameters and speedup for MUMmerGPU test workloads. MUMmerGPU is consistently more than 3 times faster than mummer for a variety of sequencing data.

From: High-throughput sequence alignment using Graphics Processing Units

Reference Reference length (bp) # of queries Query length mean ± stdev. Min alignment length (l) # of suffix trees (k) Speedup
C. briggsae Chr. III (Sanger) 13,163,117 2,357,666 717.84 ± 159.44 100 2 3.71
L. monocytogenes (454) 2,944,528 6,620,471 200.54 ± 60.51 20 1 3.79
S. suis (Illumina/Solexa) 2,007,491 26,592,500 35.96 ± 0.27 20 1 3.47
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