| australia | | influenza a virus (a/shearwater/australia/1975(h5n3)) | no rank | 1 | 0 |
| australia | queensland | influenza a virus (a/shearwater/australia/751/1975(h5n3)) | no rank | 8 | 0 |
| australia | victoria | influenza a virus (a/duck/victoria/0305-2/2012(h5n3)) | no rank | 8 | 0 |
| canada | quebec | influenza a virus (a/mallard/quebec/16334/2005(h5n3)) | no rank | 8 | 0 |
| canada | saskatchewan | influenza a virus (a/duck/sk/4612/2010(h5n3)) | no rank | 8 | 0 |
| canada | saskatchewan | influenza a virus (a/duck/sk/4628/2010(h5n3)) | no rank | 8 | 0 |
| canada | saskatchewan | influenza a virus (a/northern pintail/sk/4612/2010(h5n3)) | no rank | 2 | 0 |
| canada | saskatchewan | influenza a virus (a/northern pintail/sk/4628/2010(h5n3)) | no rank | 2 | 0 |
| chile | | influenza a virus (a/yellow-billed pintail/chile/c1267/2015(h5n3)) | no rank | 8 | 0 |
| china | | influenza a virus (a/duck/hong kong/205/1977(h5n3)) | no rank | 1 | 0 |
| china | | influenza a virus (a/duck/hong kong/23/1976(h5n3)) | no rank | 8 | 0 |
| china | | influenza a virus (a/duck/hong kong/308/78(h5n3)) | no rank | 1 | 0 |
| china | | influenza a virus (a/duck/hong kong/312/1978(h5n3)) | no rank | 8 | 0 |
| china | | influenza a virus (a/duck/hong kong/394/1978(h5n3)) | no rank | 8 | 0 |
| china | | influenza a virus (a/duck/hong kong/698/1979(h5n3)) | no rank | 8 | 0 |
| china | | influenza a virus (a/duck/hong kong/819/1980(h5n3)) | no rank | 8 | 0 |
| china | | influenza a virus (a/duck/hong kong/820/80(h5n3)) | no rank | 1 | 0 |
| china | | influenza a virus (a/duck/hong kong/825/80(h5n3)) | no rank | 1 | 0 |
| china | | influenza a virus (a/duck/jiang xi/197820/2003(h5n3)) | no rank | 8 | 0 |
| china | | influenza a virus (a/duck/jiang xi/6146/2003(h5n3)) | no rank | 8 | 0 |
| china | | influenza a virus (a/duck/jiangxi/6151/2003(h5n3)) | no rank | 1 | 0 |
| china | | influenza a virus (a/duck/yunnan/435/2002(h5n3)) | no rank | 8 | 0 |
| china | | influenza a virus (a/goose/hong kong/23/1978(h5n3)) | no rank | 9 | 0 |
| china | | influenza a virus (a/kunke/1/71(h3n2)) | no rank | 1 | 0 |
| china | | influenza a virus (a/mallard/italy/208/2000(h5n3)) | no rank | 1 | 0 |
| china | | influenza a virus (a/mallard/italy/36/2002(h5n3)) | no rank | 1 | 0 |
| china | | influenza a virus (a/mallard/italy/37/2002(h5n3)) | no rank | 1 | 0 |
| china | | influenza a virus (a/migratory duck/hong kong/mp206/2004(h5n3)) | no rank | 8 | 0 |
| china | | influenza a virus (a/migratory duck/jiang xi/13487/2005(h5n3)) | no rank | 8 | 0 |
| china | guangdong | h5n3 subtype | no rank | 0 | 2 |
| china | jiangxi | h5n3 subtype | no rank | 0 | 1 |
| china | sichuan | h5n3 subtype | no rank | 0 | 1 |
| czech republic | south moravian region | influenza a virus (a/mallard/czech republic/15008-11k/2009(h5n3)) | no rank | 17 | 0 |
| east timor | | h5n3 subtype | no rank | 0 | 1 |
| france | | influenza a virus (a/breeder duck/france/090045b/2009(h5n3)) | no rank | 8 | 0 |
| france | | influenza a virus (a/duck/france/02166/2002(h5n3)) | no rank | 8 | 0 |
| france | | influenza a virus (a/duck/france/05054a/2005(h5n3)) | no rank | 3 | 0 |
| france | | influenza a virus (a/duck/france/06436/2006(h5n3)) | no rank | 8 | 0 |
| france | | influenza a virus (a/mallard/france/061054/2006(h5n3)) | no rank | 8 | 0 |
| france | | influenza a virus (a/mallard/france/06964/2006(h5n3)) | no rank | 8 | 0 |
| france | | influenza a virus (a/muscovy duck/france/070090b/2007(h5n3)) | no rank | 8 | 0 |
| germany | | influenza a virus (a/duck/germany/r1789/2008(h5n3)) | no rank | 1 | 0 |
| germany | | influenza a virus (a/mallard/bavaria/36/2006(h5n3)) | no rank | 2 | 0 |
| germany | | influenza a virus (a/mallard/bavaria/38/2006(h5n3)) | no rank | 2 | 0 |
| germany | | influenza a virus (a/mallard/bavaria/39/2006(h5n3)) | no rank | 2 | 0 |
| guatemala | | influenza a virus (a/blue-winged teal/guatemala/cip049h098-32/2010(h5n3)) | no rank | 8 | 0 |
| guatemala | | influenza a virus (a/blue-winged teal/guatemala/cip049h105-05/2011(h5n3)) | no rank | 8 | 0 |
| guatemala | | influenza a virus (a/blue-winged teal/guatemala/cip049h113-53/2013(h5n3)) | no rank | 8 | 0 |
| guatemala | santa rosa department | influenza a virus (a/blue-winged teal/guatemala/cip049-08/2010(h5n3)) | no rank | 8 | 0 |
| guatemala | santa rosa department | influenza a virus (a/blue-winged teal/guatemala/cip049-09/2010(h5n3)) | no rank | 8 | 0 |
| hong kong | | h5n3 subtype | no rank | 0 | 4 |
| hong kong | | influenza a virus (a/duck/hong kong/205/1977(h5n3)) | no rank | 8 | 0 |
| hong kong | | influenza a virus (a/duck/hong kong/313-4/1978(h5n3)) | no rank | 1 | 0 |
| hong kong | | influenza a virus (a/duck/hong kong/694/1979(h5n3)) | no rank | 8 | 0 |
| hong kong | | influenza a virus (a/duck/hong kong/819/1980(h5n3)) | no rank | 8 | 0 |
| hong kong | | influenza a virus (a/duck/hong kong/820/1980(h5n3)) | no rank | 8 | 0 |
| hong kong | | influenza a virus (a/duck/hong kong/821/1980(h5n3)) | no rank | 8 | 0 |
| hong kong | | influenza a virus (a/goose/hong kong/23/1978(h5n3)) | no rank | 8 | 0 |
| italy | | influenza a virus (a/duck/italy/775/2004(h5n3)) | no rank | 8 | 0 |
| italy | | influenza a virus (a/mallard/italy/208/2000(h5n3)) | no rank | 7 | 0 |
| italy | | influenza a virus (a/mallard/italy/36/2002(h5n3)) | no rank | 7 | 0 |
| italy | | influenza a virus (a/mallard/italy/37/2002(h5n3)) | no rank | 7 | 0 |
| italy | | influenza a virus (a/teal/italy/3812/2005(h5n3)) | no rank | 9 | 0 |
| japan | | influenza a virus (a/duck/chiba/1/2006(h5n3)) | no rank | 1 | 0 |
| japan | | influenza a virus (a/duck/hokkaido/w240/2014(h5n3)) | no rank | 7 | 0 |
| japan | | influenza a virus (a/duck/hokkaido/w280/2014(h5n3)) | no rank | 7 | 0 |
| japan | | influenza a virus (a/duck/niigata/514/2006(h5n3)) | no rank | 1 | 0 |
| japan | | influenza a virus (a/duck/shizuoka/40/2002(h5n3)) | no rank | 1 | 0 |
| japan | | influenza a virus (a/duck/tsukuba/394/2005(h5n3)) | no rank | 1 | 0 |
| japan | | influenza a virus (a/mallard/miyagi/53/1976(h5n3)) | no rank | 1 | 0 |
| japan | | influenza a virus (a/whistling swan/shimone/499/1983(h5n3)) | no rank | 5 | 0 |
| japan | aomori prefecture | influenza a virus (a/northern pintail/aomori/385/2008(h5n3)) | no rank | 2 | 0 |
| japan | chiba prefecture | influenza a virus (a/duck/chiba/1/2006(h5n3)) | no rank | 1 | 0 |
| japan | chiba prefecture | influenza a virus (a/duck/chiba/4-v463/2009(h5n3)) | no rank | 1 | 0 |
| japan | hokkaido prefecture | h5n3 subtype | no rank | 0 | 2 |
| japan | hokkaido prefecture | influenza a virus (a/duck/hokkaido/167/2007(h5n3)) | no rank | 8 | 0 |
| japan | hokkaido prefecture | influenza a virus (a/duck/hokkaido/w240/2014(h5n3)) | no rank | 1 | 0 |
| japan | hokkaido prefecture | influenza a virus (a/duck/hokkaido/w280/2014(h5n3)) | no rank | 1 | 0 |
| japan | ibaraki prefecture | influenza a virus (a/duck/tsukuba/394/2005(h5n3)) | no rank | 1 | 0 |
| japan | ibaraki prefecture | influenza a virus (a/duck/tsukuba/419/2005(h5n3)) | no rank | 1 | 0 |
| japan | kyoto prefecture | h5n3 subtype | no rank | 0 | 1 |
| japan | miyagi ken prefecture | influenza a virus (a/mallard/miyagi/53/1976(h5n3)) | no rank | 1 | 0 |
| japan | miyazaki prefecture | h5n3 subtype | no rank | 0 | 1 |
| japan | niigata prefecture | influenza a virus (a/duck/niigata/514/2006(h5n3)) | no rank | 1 | 0 |
| japan | oita prefecture | h5n3 subtype | no rank | 0 | 1 |
| japan | shimane prefecture | h5n3 subtype | no rank | 0 | 1 |
| japan | shimane prefecture | influenza a virus (a/whistling swan/shimane/580/2002(h5n3)) | no rank | 8 | 0 |
| japan | shizuoka prefecture | influenza a virus (a/duck/shizuoka/40/2002(h5n3)) | no rank | 1 | 0 |
| japan | tottori prefecture | influenza a virus (a/teal/tottori/150/2002(h5n3)) | no rank | 1 | 0 |
| japan | yamaguchi prefecture | h5n3 subtype | no rank | 0 | 2 |
| kazakhstan | | influenza a virus (a/greylag goose/central kazakhstan/3733/2009(h5n3)) | no rank | 1 | 0 |
| kazakhstan | | influenza a virus (a/greylag goose/central kazakhstan/3735/2009(h5n3)) | no rank | 1 | 0 |
| mexico | sonora | influenza a virus (a/green winged teal/mexico-sonora/827/2009(h5n3)) | no rank | 2 | 0 |
| mexico | sonora | influenza a virus (a/green winged teal/mexico-sonora/840/2009(h5n3)) | no rank | 2 | 0 |
| mexico | sonora | influenza a virus (a/northern shoveler/mexico-sonora/797/2008(h5n3)) | no rank | 8 | 0 |
| mexico | sonora | influenza a virus (a/northernshoveler/mexico-sonora/796/2008(h5n3)) | no rank | 2 | 0 |
| mongolia | | influenza a virus (a/common shelduck/mongolia/2187/2011(h5n3)) | no rank | 2 | 0 |
| mongolia | | influenza a virus (a/duck/mongolia/194/2011(h5n3)) | no rank | 1 | 0 |
| mongolia | | influenza a virus (a/duck/mongolia/195/2011(h5n3)) | no rank | 1 | 0 |
| mongolia | | influenza a virus (a/duck/mongolia/334/2014 (h5n3)) | no rank | 1 | 0 |
| mongolia | | influenza a virus (a/wild bird/mongolia/2066/2011(h5n3)) | no rank | 8 | 0 |
| netherlands | | influenza a virus (a/greater white-fronted goose/netherlands/2/2009(h5n3)) | no rank | 8 | 0 |
| netherlands | | influenza a virus (a/greater white-fronted goose/netherlands/5/2010(h5n3)) | no rank | 8 | 0 |
| netherlands | | influenza a virus (a/mallard duck/netherlands/1/2008(h5n3)) | no rank | 8 | 0 |
| netherlands | | influenza a virus (a/mallard duck/netherlands/19/2009(h5n3)) | no rank | 8 | 0 |
| netherlands | | influenza a virus (a/mallard duck/netherlands/20/2009(h5n3)) | no rank | 8 | 0 |
| netherlands | | influenza a virus (a/mallard duck/netherlands/30/2008(h5n3)) | no rank | 8 | 0 |
| netherlands | | influenza a virus (a/mallard duck/netherlands/36/2006(h5n3)) | no rank | 8 | 0 |
| netherlands | | influenza a virus (a/mallard duck/netherlands/38/2008(h5n3)) | no rank | 8 | 0 |
| netherlands | | influenza a virus (a/mallard/netherlands/65/2006(h5n3)) | no rank | 8 | 0 |
| portugal | aveiro district | influenza a virus (a/mallard/pt/37369/2007(h5n3)) | no rank | 2 | 0 |
| portugal | aveiro district | influenza a virus (a/mallard/pt/4228/2007(h5n3)) | no rank | 2 | 0 |
| portugal | santarem district | influenza a virus (a/mallard/pt/28003/2007(h5n3)) | no rank | 2 | 0 |
| portugal | santarem district | influenza a virus (a/mallard/pt/28006/2007(h5n3)) | no rank | 8 | 0 |
| russia | | influenza a virus (a/anas platyrhynchos/chany lake/9/03(h5n3)) | no rank | 1 | 0 |
| russia | | influenza a virus (a/duck/altai/1285/1991(h5n3)) | no rank | 12 | 0 |
| russia | | influenza a virus (a/duck/moscow/4182-c/2010(h5n3)) | no rank | 8 | 0 |
| russia | | influenza a virus (a/duck/primorie/2633/2001(h5n3)) | no rank | 13 | 0 |
| russia | | influenza a virus (a/european teal/chany/27/2011(h5n3)) | no rank | 1 | 0 |
| russia | altai krai | h5n3 subtype | no rank | 0 | 1 |
| russia | altai republic | h5n3 subtype | no rank | 0 | 1 |
| russia | astrakhan oblast | h5n3 subtype | no rank | 0 | 1 |
| russia | buryatia republic | h5n3 subtype | no rank | 0 | 1 |
| russia | kurgan oblast | h5n3 subtype | no rank | 0 | 1 |
| russia | moscow city | influenza a virus (a/duck/moscow/4182/2010(h5n3)) | no rank | 8 | 0 |
| singapore | | h5n3 subtype | no rank | 0 | 2 |
| singapore | | influenza a virus (a/chicken/singapore/1997(h5n3)) | no rank | 1 | 0 |
| singapore | | influenza a virus (a/duck/singapore/3/1997(h5n3)) | no rank | 1 | 0 |
| singapore | | influenza a virus (a/duck/singapore/645/97(h5n3)) | no rank | 1 | 0 |
| singapore | | influenza a virus (a/duck/singapore/f119/3/1997(h5n3)) | no rank | 7 | 0 |
| south africa | | influenza a virus (a/tern/south africa/1959(h5n3)) | no rank | 8 | 0 |
| south africa | | influenza a virus (a/tern/south africa/1961(h5n3)) | no rank | 16 | 0 |
| south africa | eastern cape province | h5n3 subtype | no rank | 0 | 1 |
| south africa | the western cape province | h5n3 subtype | no rank | 0 | 1 |
| south korea | | influenza a virus (a/aquatic bird/korea/w107/2006(h5n3)) | no rank | 1 | 0 |
| south korea | | influenza a virus (a/aquatic bird/korea/w16/2005(h5n3)) | no rank | 8 | 0 |
| south korea | | influenza a virus (a/aquatic bird/korea/w209/2007(h5n3)) | no rank | 8 | 0 |
| south korea | | influenza a virus (a/aquatic bird/south korea/sw007/2015(h5n3)) | no rank | 8 | 0 |
| south korea | | influenza a virus (a/mallard duck/korea/vi152533/2015(h5n3)) | no rank | 5 | 0 |
| south korea | | influenza a virus (a/mallard duck/korea/vi152538/2015(h5n3)) | no rank | 3 | 0 |
| south korea | | influenza a virus (a/shorebird/korea/s83/2006(h5n3)) | no rank | 1 | 0 |
| south korea | | influenza a virus (a/spot-billed duck/korea/knu syg06/2006(h5n3)) | no rank | 8 | 0 |
| south korea | | influenza a virus (a/wild bird feces/cheonsuman/6/2004(h5n3)) | no rank | 1 | 0 |
| south korea | | influenza a virus (a/wild bird feces/cheonsuman2/2002(h5n3)) | no rank | 1 | 0 |
| south korea | | influenza a virus (a/wild bird feces/cheonsumna/32/2004(h5n3)) | no rank | 1 | 0 |
| south korea | | influenza a virus (a/wild bird feces/shihwa/61/2005(h5n3)) | no rank | 1 | 0 |
| south korea | | influenza a virus (a/wild bird/korea/a51/2011(h5n3)) | no rank | 2 | 0 |
| sweden | | influenza a virus (a/mallard/sweden/100628/2009(h5n3)) | no rank | 8 | 0 |
| sweden | | influenza a virus (a/mallard/sweden/101226/2009(h5n3)) | no rank | 8 | 0 |
| sweden | | influenza a virus (a/mallard/sweden/101288/2009(h5n3)) | no rank | 8 | 0 |
| sweden | | influenza a virus (a/mallard/sweden/102063/2009(h5n3)) | no rank | 8 | 0 |
| sweden | | influenza a virus (a/mallard/sweden/1174/05(h5n3)) | no rank | 1 | 0 |
| sweden | | influenza a virus (a/mallard/sweden/39/02(h5n3)) | no rank | 1 | 0 |
| sweden | | influenza a virus (a/mallard/sweden/58/02(h5n3)) | no rank | 1 | 0 |
| sweden | | influenza a virus (a/mallard/sweden/s90436/2005(h5n3)) | no rank | 1 | 0 |
| sweden | kalmar | influenza a virus (a/mallard/sweden/39/2002(h5n3)) | no rank | 6 | 0 |
| taiwan | | h5n3 subtype | no rank | 0 | 2 |
| taiwan | | influenza a virus (a/bulbul/taiwan/01156/2015(h5n3)) | no rank | 8 | 0 |
| taiwan | | influenza a virus (a/chicken/taiwan/01174/2015(h5n3)) | no rank | 8 | 0 |
| taiwan | | influenza a virus (a/goose/taiwan/01038/2015(h5n3)) | no rank | 8 | 0 |
| taiwan | | influenza a virus (a/goose/taiwan/01042/2015(h5n3)) | no rank | 1 | 0 |
| united states | | influenza a virus (a/chicken/texas/167280-4/2002(h5n3)) | no rank | 2 | 0 |
| united states | | influenza a virus (a/env/california/7251/2008(h5n3)) | no rank | 8 | 0 |
| united states | | influenza a virus (a/env/california/7255/2008(h5n3)) | no rank | 8 | 0 |
| united states | | influenza a virus (a/env/california/7258/2008(h5n3)) | no rank | 8 | 0 |
| united states | | influenza a virus (a/env/california/7261/2008(h5n3)) | no rank | 8 | 0 |
| united states | | influenza a virus (a/env/california/7262/2008(h5n3)) | no rank | 8 | 0 |
| united states | | influenza a virus (a/env/california/7264/2008(h5n3)) | no rank | 8 | 0 |
| united states | | influenza a virus (a/env/california/7341/2008(h5n3)) | no rank | 8 | 0 |
| united states | | influenza a virus (a/env/california/7600/2008(h5n3)) | no rank | 8 | 0 |
| united states | | influenza a virus (a/environment/california/508249/2007(h5n3)) | no rank | 8 | 0 |
| united states | | influenza a virus (a/laughing gull/delaware bay/341/2011(h5n3)) | no rank | 8 | 0 |
| united states | | influenza a virus (a/mallard/minnesota/382/2000(h5n3)) | no rank | 6 | 0 |
| united states | | influenza a virus (a/mallard/mn/479/2000(h5n3)) | no rank | 8 | 0 |
| united states | | influenza a virus (a/mallard/montana/456423/2006(h5n3)) | no rank | 8 | 0 |
| united states | | influenza a virus (a/mallard/montana/458328-5/2006(h5n3)) | no rank | 8 | 0 |
| united states | | influenza a virus (a/mallard/wi/169/1975(h5n3)) | no rank | 6 | 0 |
| united states | | influenza a virus (a/northern shoveler/california/hs225/2015(h5n3)) | no rank | 8 | 0 |
| united states | | influenza a virus (a/ruddy turnstone/new jersey/2242/2000(h5n3)) | no rank | 3 | 0 |
| united states | | influenza a virus (a/turkey/ca/6878/1979(h5n3)) | no rank | 7 | 0 |
| united states | alaska | influenza a virus (a/arctic tern/alaska/300/1975(h5n3)) | no rank | 4 | 0 |
| united states | alaska | influenza a virus (a/mallard/alaska/103/2014(h5n3)) | no rank | 8 | 0 |
| united states | alaska | influenza a virus (a/sabines gull/alaska/296/1975(h5n3)) | no rank | 4 | 0 |
| united states | arizona | h5n3 subtype | no rank | 0 | 1 |
| united states | california | h5n3 subtype | no rank | 0 | 2 |
| united states | california | influenza a virus (a/cinnamon teal/california/jn1504/2007(h5n3)) | no rank | 8 | 0 |
| united states | california | influenza a virus (a/environment/california/7293/2008(h5n3)) | no rank | 8 | 0 |
| united states | california | influenza a virus (a/environment/california/7334/2008(h5n3)) | no rank | 8 | 0 |
| united states | california | influenza a virus (a/gadwall/california/44287-137/2007(h5n3)) | no rank | 8 | 0 |
| united states | idaho | h5n3 subtype | no rank | 0 | 1 |
| united states | illinois | influenza a virus (a/mallard/illinois/11os5576/2011(h5n3)) | no rank | 8 | 0 |
| united states | illinois | influenza a virus (a/northern pintail/illinois/11os4796/2011(h5n3)) | no rank | 8 | 0 |
| united states | mississippi | influenza a virus (a/american green-winged teal/mississippi/12os191/2012(h5n3)) | no rank | 8 | 0 |
| united states | mississippi | influenza a virus (a/american green-winged teal/mississippi/12os311/2012(h5n3)) | no rank | 8 | 0 |
| united states | mississippi | influenza a virus (a/american widgeon/mississippi/11os6097/2011(h5n3)) | no rank | 8 | 0 |
| united states | mississippi | influenza a virus (a/gadwall/mississippi/11os5840/2011(h5n3)) | no rank | 8 | 0 |
| united states | montana | h5n3 subtype | no rank | 0 | 1 |
| united states | nevada | h5n3 subtype | no rank | 0 | 1 |
| united states | new jersey | influenza a virus (a/herring gull/nj/402/1989(h5n3)) | no rank | 8 | 0 |
| united states | new jersey | influenza a virus (a/herring gull/nj/406/1989(h5n3)) | no rank | 5 | 0 |
| united states | oregon | h5n3 subtype | no rank | 0 | 1 |
| united states | pennsylvania | h5n3 subtype | no rank | 0 | 1 |
| united states | texas | h5n3 subtype | no rank | 0 | 1 |
| united states | utah | h5n3 subtype | no rank | 0 | 1 |
| united states | washington | h5n3 subtype | no rank | 0 | 1 |