Table 5 Top BLASTn and reference hits for intra-host variantsCase
From: Genetic diversity among pandemic 2009 influenza viruses isolated from a transmission chain
Case | Gene | Variant nt Location | Reference/Accession number | Virus |
|---|---|---|---|---|
C | PA | c | CY018882 | A/green wing teal/Ohio/175/1986(H2N1) |
CY080052 | A/mallard/Interior Alaska/8BM3519/2008(H12N5) | |||
CY079192 | A/mallard/Interior Alaska/8MP0792R1/2008(H12N5) | |||
CY079120 | A/northern pintail/Interior Alaska/8BM3582/2008(H3N8) | |||
D | PA | 1800 | CY097775.1 | A/mallard/Mississippi/442/2010(H1N1) |
CY062007.1 | A/New York/7036/2009(H1N1) | |||
CY060749.1 | A/Ontario/9739/2009(H1N1) | |||
JN584193.1 | A/swine/Quebec/1257774/2010(H3N2) | |||
CY073799.1 | A/duck/Malaysia/2001(H9N2) | |||
D | HA | 844 | CY061741.1 | A/swine/Hong Kong/2314/2009(H1N2) |
Chakrabarti et al. (2009)29 | Dk/India/TR-NIV4396/ 08(H5N1) | |||
D | PB1 | 437 | - | - |
D | PB1 | 796 | - | - |
D | PB1 | 1791 | - | - |
D | NA | 458 | HM598359.1 | A/Thailand/CU-MV56/2010(H1N1) |
Baz et al. (2010)28 | A/Brisbane/59/2007-like(H1N1) | |||
D | NA | 823 | HM625654.1 | A/Rome/PTV8/2009(H1N1) |
HM598322.1 | A/Thailand/CU-MV9/2010(H1N1) | |||
CY092411.1 | A/Sydney/DD3-48/2010(H1N1) | |||
JF807497.1 | A/Chennai/10/2009(H1N1) | |||
CY091665.1 | A/Singapore/GP4344/2010(H1N1) |