Influenza (H5N1) Viruses in Poultry, Russian Federation, 2005?2006

[Theresa42]

Emerging Infectious Diseases
Volume 13, Number 4?April 2007
Research

Influenza (H5N1) Viruses in Poultry, Russian Federation, 2005?2006

Aleksandr S. Lipatov,*1,2 Vasily A. Evseenko,?1 Hui-Ling Yen,* Anna V. Zaykovskaya,? Alexander G. Durimanov,? Sergey I. Zolotykh,? Sergey V. Netesov,? Ilya G. Drozdov,? Gennadiy G. Onishchenko,? Robert G. Webster,* and Alexander M. Shestopalov?
*St Jude Children's Research Hospital, Memphis, Tennessee, USA; ?Federal State Research Institute Research Center for Virology and Biotechnology "Vector," Koltsovo, Novosibirsk Region, Russian Federation; and ?Federal Service for Surveillance in Consumer Rights Protection and Human Well-being, Moscow, Russian Federation

Abstract:

We studied 7 influenza (H5N1) viruses isolated from poultry in western Siberia and the European part of the Russian Federation during July 2005?February 2006. Full genome sequences showed high homology to Qinghai-like influenza (H5N1) viruses. Phylogenetic analysis not only showed a close genetic relationship between the H5N1 strains isolated from poultry and wild migratory waterfowls but also suggested genetic reassortment among the analyzed isolates. Analysis of deduced amino acid sequences of the M2 and neuraminidase proteins showed that all isolates are potentially sensitive to currently available antiviral drugs. Pathogenicity testing showed that all studied viruses were highly pathogenic in chickens; for 3 isolates tested in mice and 2 tested in ferrets, pathogenicity was heterogeneous. Pathogenicity in mammalian models was generally correlated with Lys at residue 627 of polymerase basic protein 2.

Full article here: http://www.cdc.gov/eid/content/13/4/539.htm

 

[gsgs]

Re: Influenza (H5N1) Viruses in Poultry, Russian Federation, 2005?2006

new sequences available at genbank, e.g. 3 full genomes from Suzdalka/2005
uploaded 07.April 2007

Almost 2 years after Qinghai-lake event...



the 7 genomes in one computer-readable file are here:
http:\\magictour.free.fr/RUS7


>A/chicken/Omsk/14/05
>A/chicken/Suzdalka/06/05
>A/goose/Krasnoozerskoe/627/05
>A/goose/Suzdalka/10/05
>A/turkey/Suzdalka/12/05
>A/chicken/Krasnodar/123/06
>A/chicken/Tula/4/05

 

[HenryN]

Re: Influenza (H5N1) Viruses in Poultry, Russian Federation, 2005?2006

new sequences available at genbank, e.g. 3 full genomes from Suzdalka/2005
uploaded 07.April 2007

Almost 2 years after Qinghai-lake event...



the 7 genomes in one computer-readable file are here:
http:\\magictour.free.fr/RUS7


>A/chicken/Omsk/14/05
>A/chicken/Suzdalka/06/05
>A/goose/Krasnoozerskoe/627/05
>A/goose/Suzdalka/10/05
>A/turkey/Suzdalka/12/05
>A/chicken/Krasnodar/123/06
>A/chicken/Tula/4/05

There are many more sequences from the outbreaks at Cheny Lake in the summer of 2005 and 2006, which are coming up on one and two year anniversaries.

 

[gsgs]

Re: Influenza (H5N1) Viruses in Poultry, Russian Federation, 2005?2006

here is an update of my horizontally and vertically sorted Qinghai
polymorphism table of 66 Qinghai-genomes including the 7 new ones:

I can't yet see the reassortment mentioned in the paper.
Instead I still have the suspected reassortments or recombinations
involving the Crimea,Kurgan,Astrakhan viruses described earlier,
and of course the reassortment in NGA/1047-62

segment:                             7341116885422131167444758521171366612771244121652232345244415533363161722226236614488152221511663113344444882157515533645252412332421223774333613458225563644444444312211853556235165524287213177662351115444178774444441223555763444515711211221261236622252231171582713311224264375133844288618815561612444637633353312174744444421125621367744132444425131211363356625238113533253441871622131652521244423556676541327444336363611133117731112633335214444444126376444226325175123218211
 po                                  0001010000010210100001000011000010111001000100011120100101101001000101002000000011100100112010000111011111001000010111000211100110011201000100010110110100110011110000001000100110110001100111000000012210000200000000100201010010000011010010100011001110000101100000001101211011000001010100010011011001000010001001111000000101021121012100001100010001011201110100000010000001101111001001011000012100010001100110100010110001001110100011111100000000000101101100101100120100110110100
 si                                  9001896522194037144466144397749511100261911053523119891343001859820379532341629101277035340918447947515046660962509250009227090792639074989168609512879098113636065259011497102949021710778315166788912134127198879447699211112108668891465365690322182139281526664855825834095802004739742923146661706668000783426829148651859150319524971730324764726631284238028847883264936348533425667955780796601765182312240133859549864739938607835471641358216601585523451851275309512302128473756
 ti                                  7043028592676596152018487281830633611905554747198918591355031993519327462718409558299769980712011270510738607731726540398308258424258289557066811818458404429682258461629044516541523786422046812300444740561740470365593677313160395590131622074166016041191707536065019444868313204209833650660399414151235781055292579452154294941411886482361916975616441377807642223230594990980806490468193433730331100301448883313476784930320395517707056257135268041940147144763575889516876290176
 on                                  1461403845873033996550367860928742124108741407693724291873863275960301391548443012469294257569347331033146704966006725971438914990105524318067163695587766386630165022907531281365078792143233687874831306376902709881803802021186392987753635852100853418341977035852893857807113264792717136315680477878811115250041999280325232924578453670916185557186247029360079251698705986248273567710490589523709438306117296323336714238346253529740684696657763801002854262284159147657851270696
-codon-position----------------------211   2     1111      2  1    2    1     1   2      1   1    1  1  1    1  22   1  111       11     1     1  1         1 2          2 2 22 2   212              1   1     1             111            121  211112   12   2212   2   1           2   2       1     11 1    1 1    1  1  1  21 1 2  2      11       1 11         21     2     2         1 22211 1        111       2   1    2 2  112         1 112      2    21          1     1   1       1 1   221  1  11 2               
---Index-----------------------------GGAAGGAACGGCCGAGCGGAGAAGTCTGCTCTTGCGCTGAGACGGAATATGCACGTTGCAGCGGGCCCACGCGTGTAGTAACGAAGGGTTAGTCCACATCACAGGATCAGAGGGACTCTAAAAAAGGAGTTCCCGTGCAGCATCTCAGGGGGCCAGCCCGAACAGATGTGCTAGGGGTAGTGATGTTCGGATTAAAGGCCACGGGGGCTGTGGCCGCACGCTACTGCCAACGTGAGTACCCAGCAACGCTAGAGCCCGTGGTGAGACACATGTTCTTATAGGGGCCCAATAATCCTGCTGAGAATGCCGCGACATCTCCCACCGGCGAGAAACCGCTAAATTACGGCAAAGAACAGGGTGTGGATCCCGCACGTGCGTGGATCCGTTCCCCGACGCGCGTGGAACACTATTGAACGTGAAAAGACGGTCCATAGCCGTTGATGTACCCTCCGCCACGGTCTTGATGGCCAACACC
  1 >A/Ck/Moscow/2/07.               ...................................ATCAGAGTAAGCCCCAT....................ACA..................................................................................................A..............................................T....................................................A.........ATTTGGCGGCTTCATC..............................................................................................T........................................TTACCAGCACG..............................     97     52 ,     97     52      1:>A/Ck/Moscow/2/07.               
  2 >A/Azerbaijan/008-208/06         ---...............................TATCAGAGTAAGCCCCATG...........................................................................................................................................................................C................................................C-.........TTTGGCGGCTTCAT---......................................................AAAC...........................................................................TTACCAGCACG..............................     90     58 ,     69     50      2:>A/Azerbaijan/008-208/06         
  3 >A/chicken/Krasnodar/123/06      ...................................ATCAGAGTAAGCCCCA................................................................T.............................................................................................................................................................C..........TTTGGCGGCTTCATC...................................A.................GTG...............................................................................TTACCAGCACG............A.................     67     50 ,     67     50      3:>A/chicken/Krasnodar/123/06      
  4 >A/WSw/Iran/754/06               .......-.............-.............ATCAGAGTAAGCCCCA......................................................---G................................G........................................................................-.............................................-............C..........TTTG--GGCTTCATC.............................................................................--..........................T............................-TTACCAGCACG..............................     79     58 ,     48     45      4:>A/WSw/Iran/754/06               
  5 >A/MSw/Italy/742/06              .-.................................ATCAGAGTAAGCCCC..........................................................................................................A...........................................................................................................AT.......C..........TTTGGCGGCTTCATC.....................................................................................................A.....................................CAGCACG..............................     62     44 ,     59     43      5:>A/MSw/Italy/742/06              
  6 >A/Ck/Afghanistan/1207/06        .................................................................T.....................................................................................ATT.......................................................................................................................C..........TTTGGCGGCTTCATCA.............................................................................................................................T.......-TTACCAGCACGTTTCTTAA......................     54     43 ,     53     42      6:>A/Ck/Afghanistan/1207/06        
  7 >A/Grebe/Tyva/Tyv06-1/06         .....A..............................................................G..........................................A.................................................................................................................................................................C..........TTTGGCGGCTTCATCA............T........................................................................................................................ATTACCAGCACGTTTCTTAATGTTTCTCCAGA..........     61     54 ,     61     54      7:>A/Grebe/Tyva/Tyv06-1/06         
  8 >A/WSw/MNG/2/06                  .................................................................................................................................................................................................................................................................................C..........TTTGGCGGCTTCATCA.....................................................................................................................................ATTACCAGCACGTTTCTTAATGTTTCTCCAGA..........     61     50 ,     61     50      8:>A/WSw/MNG/2/06                  
  9 >A/Grebe/Tyva/Tyv06-8/06         .....................................................T............................................................G...........................................................................................A..................................................................C..........TTTGGCGGCTTCATCA.....................................................................................................................................ATTACCAGCACGTTTCTTAATGTTTCTCCAGAT.........     71     54 ,     71     54      9:>A/Grebe/Tyva/Tyv06-8/06         
 10 >A/Ck/Liaoning/23/2005           ---....G..-........---...................--A.........-..---......................----................-----...........TCGGGTT-TTGAC-TTTAG---......-.........--------....................-.--...............---A----------..........---.................................-.......-..--.....---................-...............--------............--...----.............................--.................---.........-...----.............................-------......---..................    245    118 ,     26     20     10:>A/Ck/Liaoning/23/2005           
 11 >A/GFowl/Shantou/1341/06         -......G...........................................................................................................TCTCGGGTTGTTGACCTTTAGA.........................................................................................................A.......................................................................................................................................................................................................A................................     43     27 ,     38     25     11:>A/GFowl/Shantou/1341/06         
 12 >A/piedmagpie/Liaoning/7/2005    -......G...........................................................................--........................C.......TCGGGTCGTTGACCTTTAG--...............................................--..................A----....................................................-.................-...................................-...........................................................................................-.................................A................................     80     39 ,     45     23     12:>A/piedmagpie/Liaoning/7/2005    
 13 >A/Ck/InnerMongolia/64/2005      -..................................................................................--......................TGCGAAA......................--GAT............................................--...................----....................................................-.................-T..................................-.........................................CA................................................-.................................AC...........T...................     77     32 ,     42     16     13:>A/Ck/InnerMongolia/64/2005      
 14 >A/chicken/Tula/4/05             ...........................................................................CG...........................................G...................TGCTCT............................................................A.............................................................................................................................................CCAGGT........................................................................................A................................     48     17 ,     48     17     14:>A/chicken/Tula/4/05             
 15 >A/Dk/Novosibirsk/02/05          ..............................................................................................................................................CTC...........................GA..............................................................................................................................................................................CCAG..........................................................................................A................................     25     10 ,     25     10     15:>A/Dk/Novosibirsk/02/05          
 16 >A/goose/Suzdalka/10/05          .........................................................................................................................................A....................................................................................................................................................................................................ATCGG..CTTAATGCCAGG.........................................................................................A................................     24     19 ,     24     19     16:>A/goose/Suzdalka/10/05          
 17 >A/turkey/Suzdalka/12/05         .A............................................................................................................................................................................................................................................................................................................................................ATCGGGCCTTAATGCCAGR.........................................................................................A................................     21     21 ,     21     21     17:>A/turkey/Suzdalka/12/05         
 18 >A/chicken/Suzdalka/06/05        CA............................................................................................................................................................................................................................................................................................................................................ATCGGGCCTTAATGCCAG.Y........................................................................................A................................     23     22 ,     23     22     18:>A/chicken/Suzdalka/06/05        
 19 >A/chicken/Omsk/14/05            C................................................................................................................................................TG................................................................A............................................................CC.....GA.................................................................................................................................................................A................................     24      9 ,     24      9     19:>A/chicken/Omsk/14/05            
 20 >A/BaHGs/Qinghai/62/05           ..............................................................................................................G.................................................................................................................................................................CC........................................................................................................................................................................A................................     13      4 ,     13      4     20:>A/BaHGs/Qinghai/62/05           
 21 >A/Grebe/Novosibirsk/29/05       ....................................................GTA...........................................................................................................T.............................................................................................................CC.............................G.........................................................................................................................A.........T......A................................     37     10 ,     37     10     21:>A/Grebe/Novosibirsk/29/05       
 22 >A/Qinghai-strain/index/05.      ................................................................................................................................................................................................................................................................................C.........................................................................................................................................................................A................................      2      2 ,      2      2     22:>A/Qinghai-strain/index/05.      
 23 >A/Dk/Novosibirsk/56/05          .................A.....................................................................ACC..................................................................ATT....................................................................................................................................................................................................A.....................................................C..................T.............A.......T........................     23     12 ,     23     12     23:>A/Dk/Novosibirsk/56/05          
 24 >A/Ck/Crimea/08/05               ...TAA.........ATA...................C................................................AACCGACTTGTG.TG..................................................................................G..................................................G.............................AT.G................TTTG..............................................A...........................................................................................................A................................     53     32 ,     53     32     24:>A/Ck/Crimea/08/05               
 25 >A/Ck/Kurgan/05/05               ...TAAG..AATTAGATATG......................................................................GACTTGTGAT....AGC....................................................................................................T....................................................A.....TG...............................................T.........................................................................................GT....................................................................     41     35 ,     41     35     25:>A/Ck/Kurgan/05/05               
 26 >A/Dk/Kurgan/08/05               ...TAAGGTA....................................................................................TGTGATGTTAAG...................................................................................................................C....................AT.....................TTG.GCACCT............................................................................G...........................................................................................................................     45     32 ,     45     32     26:>A/Dk/Kurgan/08/05               
 27 >A/MSw/Astrakhan/2-4/05          .....A...........................................................................................GATGTTAAGC.....AAGA...........................................................................................T....................................................ACAGATTGTGCACCT............................................................................G........C..................................................................................................................     52     33 ,     52     33     27:>A/MSw/Astrakhan/2-4/05          
 28 >A/goose/Krasnoozerskoe/627/05   ..................................................................................................................................................G......................................................................................A...........................CAGATTGTGCACCT.......................................................................................................................A................................................................................     33     17 ,     33     17     28:>A/goose/Krasnoozerskoe/627/05   
 29 >A/MSw/Astrakhan/2-3/05          ............................................................A.......................................................C.........................................................................................................................................T..AC..CAGATTGTGCACCT........................................................................................................................................................................................................     35     19 ,     35     19     29:>A/MSw/Astrakhan/2-3/05          
 30 >A/MSw/Croatia/1/05              ..........................................................................AC.............................................................................................A....................................................................................TATACAACAGATTGTGCACCT........................................................................................................................................................................................................     36     24 ,     36     24     30:>A/MSw/Croatia/1/05              
 31 >A/Sw/Germany/R65/06             .............................................................................................................................................................................................................................................................ATATACAACAGATTGTGCACCT.....................A..................................................................GCTTTATGTACAAACTAGGTT...........................................................................................     46     44 ,     46     44     31:>A/Sw/Germany/R65/06             
 32 >A/Cat/Germany/606/06            -............................................................................................................................................................................................................................................................ATATACAACAGATTGTGCACCT.....................A...................................................................CTTTATGTACAAACTAGGTT...........................................................................................     49     44 ,     48     43     32:>A/Cat/Germany/606/06            
 33 >A/Ck/NGA/1047-30/06             .....................................................................TA................................................................................................................................................................................TTCGAGATATACAACAGATTGTGCACCTCCTAGAAACT.......................................................................................................................................................................T......................     49     41 ,     49     41     33:>A/Ck/NGA/1047-30/06             
 34 >A/Dk/Niger/914/06               ......................................................................ATA......GGTA...................................................................A................................................................................................TTCGAGATATACAACAGATTGTGCACCTCCTAGAAACT..............................................................................................................................................................................................     57     46 ,     57     46     34:>A/Dk/Niger/914/06               
 35 >A/Ck/NGA/1047-54/06             ......................................................................AT....GACGGT.................................................................A...................................G...............................................................TTCGAGATATACAACAGATTGTGCACCTCCTAGAAACT....................................................................................................................................A.........................................................     74     49 ,     74     49     35:>A/Ck/NGA/1047-54/06             
 36 >A/Ck/NGA/957-20/06              ......................................................................................................................................................................................................T.............................................GG.TTCGAGATATACAACAGATTGTGCACCTCCTAGAAACT..............................................................................................................................................................................................     48     41 ,     48     41     36:>A/Ck/NGA/957-20/06              
 37 >A/Ck/NGA/1047-34/06             ....................................................................................................................................................................................................................................................GGTTTCGAGATATACAACAGATTGTGCACCTCCTAGAAACT.........................................................................................................................T........................................T...........................     56     43 ,     54     43     37:>A/Ck/NGA/1047-34/06             
 38 >A/Ostrich/NGA/1047-25/06        .............................................................................A..........................................................A..........................................................................................................TGGTTTCGAGATATACAACAGATTGTGCACCTCCTAGAAACT.....................................T........................................................................................................................................................     56     45 ,     56     45     38:>A/Ostrich/NGA/1047-25/06        
 39 >A/GFowl/NGA/957-12/06           .........................................................................................................................................................TGA........................................................................................GGTTTCGAGATATACAACAGATTGTGCACCTCCTAGAAACT..............................................................................................................................................................................................     48     44 ,     48     44     39:>A/GFowl/NGA/957-12/06           
 40 >A/Ck/NGA/1047-8/06              ...........................................................................................................T.............................................TGA........................................................................................GGTTTCGAGATATACAACAGATTGTGCACCTCCTAGAAACT...................A...........................................G........A.....................................................................................................................     54     48 ,     54     48     40:>A/Ck/NGA/1047-8/06              
 41 >A/Ck/NGA/1047-62/06             .......GTAATT......GAGGACTC..................................................................................................A.....................AAAAA...............................GAC..........................A................................GTT......TATAC...AGATTG....C....TAG................................................................A.....................................................................T............................................................     65     44 ,     65     44     41:>A/Ck/NGA/1047-62/06             
 42 >A/Ck/NGA/641/06                 ...TATGGTAATTAGATATGAGGACTCATAGCCATA...............................................................................................................AAAA.................................AC.................................................................................................................................................................................................................................................................................................     47     39 ,     47     39     42:>A/Ck/NGA/641/06                 
 43 >A/Ck/Sudan/1784-7/06            ...TATGGTAATTAGATATGAGGACTCATAGCCATA.....................................................................................................TG..................TTAGCTGAGCAAAACGAAATCGTCAGGAC.................................................................................................................................................................................................................................................................................................     71     64 ,     71     64     43:>A/Ck/Sudan/1784-7/06            
 44 >A/Ck/Sudan/1784-10/06           ...TATGGTAATTAGATATGAGGACTCATAGCCATA...................................................................A.................................T...................TTAGCTGAGCAAAACGAAATCGTCAGGAC.................................................................................................................................................................................................................................................................................................     70     64 ,     70     64     44:>A/Ck/Sudan/1784-10/06           
 45 >A/Dk/CIV/1787-18/06             ..GTATGGTAATTAGATATGAGGACTCATAGCCATA....................................................................................................................................................ACCTA..............................................................................................................................................................................................................................................................................................     53     39 ,     53     39     45:>A/Dk/CIV/1787-18/06             
 46 >A/Ck/CIV/1787-34/06             .-GTATGGTAATTAGATATGAGGACTCATAGCCATA....................CATGATA..........................................................................................................................CCTAAGCCCGGAA...................................................................................................................................................................................................................................................C.................................     58     56 ,     55     55     46:>A/Ck/CIV/1787-34/06             
 47 >A/Ck/IvoryCoast/1787-35/06.     ..GTATGGTAATTAGATATGAGGACTCATAGCCATA....................CATGATA..........................................................................................................................CCTAAGCCCGGAA...................................................................................................................................................................................................................................................C.................................     55     55 ,     55     55     47:>A/Ck/IvoryCoast/1787-35/06.     
 48 >A/Ck/Kurgan/3/05                -..TATGGTAATTAGATATGAGG................................C................-................................................-...............................................................................................-....................................................................................................A.......-......................-.....................................................GTG.....................................................................     49     31 ,     37     25     48:>A/Ck/Kurgan/3/05                
 49 >A/BaHGs/Mongolia/1/05           ...TATGGTAAT.AG..............................................................A....ATTA..................A...............................................T..................................................................................................................................................................................................................................................................................................................................     54     18 ,     54     18     49:>A/BaHGs/Mongolia/1/05           
 50 >A/WSw/Mongolia/3/05             ...TATGGTAAT.............................................................C.........TTAA..............................................................A..................................................................................................................................................................................................A..........................................................................................T..............................A........     53     18 ,     53     18     50:>A/WSw/Mongolia/3/05             
 51 >A/Turkey/65596/06               ---TATGGTAAT............................................................................................................................................................................................TTAAA.....................................................................--......................---AGGCATTATAGTGGACTAT.............................................................................................................................T...................AATTGGTGGG     67     54 ,     47     45     51:>A/Turkey/65596/06               
 52 >A/Turkey/12/06                  ---TATGGTAAT..........................................................................................................................................................................................-TTTAAA-...........C........................................................--......................---AGGCATTATAGTGGACTAT..........................................................................................................................A......................AATTGGTGGG     83     58 ,     53     47     52:>A/Turkey/12/06                  
 53 >A/Turkey/15/06                  ---TATGGTAAT..........................................................................................................................................................................................--TTAA.-....................................................................--......................---AGGCATTATAGTGGACTAT................................................................................................................................................-AATTGGTGGG     79     56 ,     43     43     53:>A/Turkey/15/06                  
 54 >A/Turkey/651242/06              ---TATGGTAAT......................................................................................................................................................................................................................................................................--......................---AGGCATTATAGTGGACTAT................................................................................................................................................-AATTGGTGG.     59     47 ,     39     37     54:>A/Turkey/651242/06              
 55 >A/Iraq/755/06                   ---TATGGTAAT......................................................................................................................................................................................................................................................................-.......................--GAGGCATTATAGTGGACTATGTAAATTGAGGGATA......................................................................................................................................GGT...     66     54 ,     52     47     55:>A/Iraq/755/06                   
 56 >A/Iraq/1/06                     ---TATGGTAAT......................................................................................................................................................................................................................................................................--......................--GAGGCATTATAGTGGACTATGTAAATTGAGGGATA......................................................................................................................................GGT...     65     55 ,     49     47     56:>A/Iraq/1/06                     
 57 >A/turkey/England/250/07         -..TATGGTAAT..............................................................................................................................................................................................................................................................................................-.-AGGCA......................................................................................................GCCAGTTACAGGGTAGTTTCTTTCG-.........................................     56     44 ,     42     39     57:>A/turkey/England/250/07         
 58 >A/Gs/Hungary/3413/07            -..TATGGTAAT.................................................................................................................................................................................................................................................................................................AGGCA.....................................................................................................CGCCAGTTACAGGGTAGTTTCTTTCG-.........................................     49     43 ,     40     40     58:>A/Gs/Hungary/3413/07            
 59 >A/Gs/Hungary/2823/07            ...TATGGTAAT.......................................................................................................................................................................................................................................................................-.........................AGGCA.....................................................................................................CGCCAGTTACAGGGTAGTTTCTTTCG-.........................................     47     43 ,     41     40     59:>A/Gs/Hungary/2823/07            
 60 >A/Cygnusolor/Italy/808/06       ...TATGGTAAT................T..........................................................................................G..................................................................-............................TTCAATCGTCATTG..........................................................................................................................G................................ACCGATTTGTATATACAAGG..................TG...................................................     61     49 ,     60     48     60:>A/Cygnusolor/Italy/808/06       
 61 >A/Mallard/Italy/835/06          ...TATG-TAAT.........-...................................................................................---..........................................................................................................-TTCAATCGTCATT................................-...........................--.....................................................T.......G........................--......ACCGATTTGTATATACAAGG............................G-.........................................     83     57 ,     52     44     61:>A/Mallard/Italy/835/06          
 62 >A/Turkey/Turkey/1/05            ---TATGGTAAT..................................................................C........................................................................................................................................TTCAATCGTCATTG.............................................-.......................---.............................................................A.....A..........................................................................................................     63     34 ,     44     26     62:>A/Turkey/Turkey/1/05            
 63 >A/Sw/Slovenia/760/06            ...TATGGTAAT...........................................................................................................................................................................................................TTCAATCGTCATTGGT.................T.....................................................................T...................................G....ACAAG...............................................................................................................     61     33 ,     61     33     63:>A/Sw/Slovenia/760/06            
 64 >A/Dk/Egypt/2253-3/06.           ...TATGGTAAT..................................................ATTT.....T...........................................................T.......A...T.................................................................ACAATTTTCAATCGTCATTGGTACAGACGTATGA......................................................................................................................A.................................................................................................................     69     52 ,     69     52     64:>A/Dk/Egypt/2253-3/06.           
 65 >A/Egypt/902782/06               ---TATGGTAAT..................................................ATTTTTG................................................................................................................................AT.........CACAATTTTCAATCGTCATTGGTACAGACGTATGA...............................-......................T--G.......................................................A........................................T.............................................................................     88     64 ,     69     57     65:>A/Egypt/902782/06               
 66 >A/Egypt/902786/06               ---TAAGGTAAT...............A..........................AC......ATTTTTGT.................................................................................................................................T........CACAATTTTCAATCGTCATTGGTACAGACGTATGA...............................--.....................T---..............................................................................................................................................................................     92     66 ,     69     57     66:>A/Egypt/902786/06               
segment:                             7341116885422131167444758521171366612771244121652232345244415533363161722226236614488152221511663113344444882157515533645252412332421223774333613458225563644444444312211853556235165524287213177662351115444178774444441223555763444515711211221261236622252231171582713311224264375133844288618815561612444637633353312174744444421125621367744132444425131211363356625238113533253441871622131652521244423556676541327444336363611133117731112633335214444444126376444226325175123218211
 po                                  0001010000010210100001000011000010111001000100011120100101101001000101002000000011100100112010000111011111001000010111000211100110011201000100010110110100110011110000001000100110110001100111000000012210000200000000100201010010000011010010100011001110000101100000001101211011000001010100010011011001000010001001111000000101021121012100001100010001011201110100000010000001101111001001011000012100010001100110100010110001001110100011111100000000000101101100101100120100110110100
 si                                  9001896522194037144466144397749511100261911053523119891343001859820379532341629101277035340918447947515046660962509250009227090792639074989168609512879098113636065259011497102949021710778315166788912134127198879447699211112108668891465365690322182139281526664855825834095802004739742923146661706668000783426829148651859150319524971730324764726631284238028847883264936348533425667955780796601765182312240133859549864739938607835471641358216601585523451851275309512302128473756
 ti                                  7043028592676596152018487281830633611905554747198918591355031993519327462718409558299769980712011270510738607731726540398308258424258289557066811818458404429682258461629044516541523786422046812300444740561740470365593677313160395590131622074166016041191707536065019444868313204209833650660399414151235781055292579452154294941411886482361916975616441377807642223230594990980806490468193433730331100301448883313476784930320395517707056257135268041940147144763575889516876290176
 on                                  1461403845873033996550367860928742124108741407693724291873863275960301391548443012469294257569347331033146704966006725971438914990105524318067163695587766386630165022907531281365078792143233687874831306376902709881803802021186392987753635852100853418341977035852893857807113264792717136315680477878811115250041999280325232924578453670916185557186247029360079251698705986248273567710490589523709438306117296323336714238346253529740684696657763801002854262284159147657851270696
-codon-position----------------------211   2     1111      2  1    2    1     1   2      1   1    1  1  1    1  22   1  111       11     1     1  1         1 2          2 2 22 2   212              1   1     1             111            121  211112   12   2212   2   1           2   2       1     11 1    1 1    1  1  1  21 1 2  2      11       1 11         21     2     2         1 22211 1        111       2   1    2 2  112         1 112      2    21          1     1   1       1 1   221  1  11 2               
---Index-----------------------------GGAAGGAACGGCCGAGCGGAGAAGTCTGCTCTTGCGCTGAGACGGAATATGCACGTTGCAGCGGGCCCACGCGTGTAGTAACGAAGGGTTAGTCCACATCACAGGATCAGAGGGACTCTAAAAAAGGAGTTCCCGTGCAGCATCTCAGGGGGCCAGCCCGAACAGATGTGCTAGGGGTAGTGATGTTCGGATTAAAGGCCACGGGGGCTGTGGCCGCACGCTACTGCCAACGTGAGTACCCAGCAACGCTAGAGCCCGTGGTGAGACACATGTTCTTATAGGGGCCCAATAATCCTGCTGAGAATGCCGCGACATCTCCCACCGGCGAGAAACCGCTAAATTACGGCAAAGAACAGGGTGTGGATCCCGCACGTGCGTGGATCCGTTCCCCGACGCGCGTGGAACACTATTGAACGTGAAAAGACGGTCCATAGCCGTTGATGTACCCTCCGCCACGGTCTTGATGGCCAACACC