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Table 2 Performance of k-base encoding

From: Local alignment of generalized k-base encoded DNA sequence

k(encoding width)

Time in s (0 SNPs)

Time in s (1 SNP)

Time in s (2 SNPs)

1

7

7

7

2

65

65

65

3

403

346

403

4

2178

2166

2178

5

23464

23460

23466

  1. Performance time (in seconds) of k-base encoding assuming a real-word per-base error-ate on 50 bp reads presented in Table 1.
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BMC Bioinformatics

ISSN: 1471-2105

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