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Table 5 The alignment rate and precision of Bowtie2 on single-end simulated data with different initial values of K.

From: Re-alignment of the unmapped reads with base quality score

 

50-bp

75-bp

100-bp

K

Align.Rate(%)

Prec(%)

Align.Rate(%)

Prec(%)

Align.Rate(%)

Prec(%)

10

0.870362

0.981524

0.858727

0.981852

0.834774

0.981529

9

0.869464

0.981703

0.856311

0.982638

0.832754

0.982217

8

0.868262

0.982009

0.853695

0.983442

0.830495

0.982984

7

0.866564

0.982608

0.85074

0.984281

0.827873

0.983787

6

0.864261

0.983586

0.847368

0.985199

0.824662

0.984629

5

0.861039

0.985146

0.84329

0.98618

0.820193

0.985421

4

0.856596

0.987344

0.837615

0.987297

0.812949

0.986246

3

0.850384

0.990075

0.828366

0.988768

0.800774

0.987542

2

0.841539

0.993

0.813271

0.991168

0.782962

0.990233

1

0.825283

0.995516

0.794526

0.994829

0.763764

0.993865

  1. There are 7,740,912 simulated single-end reads with length 50-bp, 5,156,962 with length 75-bp, and 3,868,843 with length 100-bp.
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BMC Bioinformatics

ISSN: 1471-2105

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