Table 3

Specific sequences and contaminants in turkey astrovirus and human rhinovirus 16 assemblies.

TURKEY ASTROVIRUS


Contig Length

Sequence reads

Best Hit


689

2

Avian

501

2

None

423

2

None

518

2

None

259

2

None

1267

28

Turkey astrovirus

2785

67

Turkey astrovirus

1692

43

Turkey astrovirus

Total Sequences

148

Percent Specific

93.24%

Genome coverage

90.84%

HUMAN RHINOVIRUS 16


Contig Length

Sequence Reads

Best Hit


265

8

Mammalian

537

2

Mammalian

981

27

Mammalian

1091

7

Bacterial

1297

10

Bacterial

553

1

None

385

1

None

342

3

None

815

32

None

909

18

None

676

8

None

487

9

None

4823

105

Human Rhinovirus 16

1685

90

Human Rhinovirus 16

Total Sequences

321

Percent Specific

60.75%

Genome coverage

90.23%


Sequences were analyzed against a non redundant database using a blastn algorithm. Viral specific sequences were identified as matching the reference genome with a blastn cut off below 10-25. Non-specific (non-viral contaminant) sequences were identified if they had a cut off value below 10-10, while None means that no blastn results were found below the 10-10 cut off value.

Djikeng et al. BMC Genomics 2008 9:5   doi:10.1186/1471-2164-9-5

Open Data