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Table 6 Comparison of meta-methods to NextGenMap and BWA

From: MaxSSmap: a GPU program for mapping divergent short reads to genomes with the maximum scoring subsequence

 (a) Percent of one million 250 bp reads mapped correctly to the human chromosome one genome. Shown in parenthesis are incorrectly mapped reads and remaining are rejected
Div BWA NextGenMap NextGenMap+MaxSSmap_fast
Reads without gaps
.1 96(3) 99 (1) 99 (1)
.2 33 (6) 86 (6) 94 (6.2)
.3 0.8 (6) 37 (9) 88 (10.5)
Reads with gaps
.1 89 (3) 96 (2) 98 (2)
.2 28 (5) 79 (6) 92 (6.5)
.3 0.7 (0.5) 30 (7) 80 (9.4)
(b) Time in minutes to map one million 250 bp reads to the human chromosome one genome
Div BWA NextGenMap NextGenMap+MaxSSmap_fast
Reads without gaps
.1 1.6 7.1 10.3
.2 0.8 44 626
.3 0.6 65 3992
Reads with gaps
.1 1.5 9.8 176
.2 0.7 51 1126
.3 0.6 66 4611
  1. See Table 3 caption for details about reads.