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Table 3 Genes annotated and predicted by ZCURVE_V and the GeneMark VIOLIN database for human immunodeficiency virus 1 (HIV-1) a

From: ZCURVE_V: a new self-training system for recognizing protein-coding genes in viral and phage genomes

Genes annotated

Genes predicted by ZCURVE_V

Genes predicted by GeneMark

Start

Stop

Length (aa)

Gene

Start

Stop

Length (aa)

Start

Stop

Length (aa)

336

1838

501

gag

336

1838

501

336

1838

501

1631

4642

1004

Pol

1904

4642

913

1904

4642

913

4587

5165

193

Vif

4587

5165

193

   

5105

5341

79

Vpr

5105

5341

237

5105

5341

237

5377

7970

87

Tat

5377

5595

73

   

5516

8199

117

Rev

      

5608

5856

83

Vpu

5608

5856

83

5608

5856

83

5771

8341

857

Env

5771

8341

857

5771

8341

857

    

7602

7694

31

   

8343

8714

124

Nef

8343

8714

124

8343

8714

124

  1. a Bold denotes gene found by adapting the default settings of ZCURVE_V, i.e., keeping the overlapping genes. Bold and italic figures are associated with the gene, in which the 3' end is not consistent with annotated one, but is embedded within it.
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BMC Bioinformatics

ISSN: 1471-2105

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